-- dump date 20120504_151429 -- class Genbank::misc_feature -- table misc_feature_note -- id note 363253000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 363253000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 363253000003 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 363253000004 Walker A motif; other site 363253000005 ATP binding site [chemical binding]; other site 363253000006 Walker B motif; other site 363253000007 arginine finger; other site 363253000008 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 363253000009 DnaA box-binding interface [nucleotide binding]; other site 363253000010 peptide chain release factor 1; Validated; Region: prfA; PRK00591 363253000011 RF-1 domain; Region: RF-1; cl02875 363253000012 RF-1 domain; Region: RF-1; cl02875 363253000013 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 363253000014 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 363253000015 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; cl15754 363253000016 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 363253000017 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 363253000018 E-class dimer interface [polypeptide binding]; other site 363253000019 P-class dimer interface [polypeptide binding]; other site 363253000020 active site 363253000021 Cu2+ binding site [ion binding]; other site 363253000022 Zn2+ binding site [ion binding]; other site 363253000023 TLC ATP/ADP transporter; Region: TLC; pfam03219 363253000024 ATP/ADP translocase [Energy production and conversion]; Region: COG3202; cl03940 363253000025 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 363253000026 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253000027 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 363253000028 putative acyl-acceptor binding pocket; other site 363253000029 recombination factor protein RarA; Reviewed; Region: PRK13342 363253000030 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 363253000031 Walker A motif; other site 363253000032 ATP binding site [chemical binding]; other site 363253000033 Walker B motif; other site 363253000034 arginine finger; other site 363253000035 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 363253000036 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 363253000037 active site 363253000038 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 363253000039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 363253000040 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253000041 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 363253000042 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 363253000043 S-adenosylmethionine binding site [chemical binding]; other site 363253000044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253000045 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 363253000046 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 363253000047 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 363253000048 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 363253000049 active site 363253000050 HIGH motif; other site 363253000051 nucleotide binding site [chemical binding]; other site 363253000052 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 363253000053 active site 363253000054 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 363253000055 HIGH motif; other site 363253000056 dimer interface [polypeptide binding]; other site 363253000057 KMSKS motif; other site 363253000058 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 363253000059 active site 363253000060 putative substrate binding region [chemical binding]; other site 363253000061 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 363253000062 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 363253000063 active site 363253000064 HIGH motif; other site 363253000065 dimer interface [polypeptide binding]; other site 363253000066 KMSKS motif; other site 363253000067 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 363253000068 RNA binding surface [nucleotide binding]; other site 363253000069 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 363253000070 DNA binding site [nucleotide binding] 363253000071 active site 363253000072 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 363253000073 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 363253000074 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 363253000075 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 363253000076 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 363253000077 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 363253000078 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 363253000079 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 363253000080 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 363253000081 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 363253000082 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 363253000083 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 363253000084 Tir chaperone protein (CesT) family; Region: CesT; cl08444 363253000085 organic solvent tolerance protein; Provisional; Region: PRK04423 363253000086 Organic solvent tolerance protein; Region: OstA_C; pfam04453 363253000087 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 363253000088 alanine racemase; Reviewed; Region: alr; PRK00053 363253000089 active site 363253000090 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 363253000091 dimer interface [polypeptide binding]; other site 363253000092 substrate binding site [chemical binding]; other site 363253000093 catalytic residues [active] 363253000094 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 363253000095 metal binding site 2 [ion binding]; metal-binding site 363253000096 putative DNA binding helix; other site 363253000097 metal binding site 1 [ion binding]; metal-binding site 363253000098 dimer interface [polypeptide binding]; other site 363253000099 structural Zn2+ binding site [ion binding]; other site 363253000100 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 363253000101 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 363253000102 putative active site [active] 363253000103 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 363253000104 non-specific DNA binding site [nucleotide binding]; other site 363253000105 salt bridge; other site 363253000106 sequence-specific DNA binding site [nucleotide binding]; other site 363253000107 Staphylococcal nuclease homologues; Region: SNc; smart00318 363253000108 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 363253000109 Catalytic site; other site 363253000110 Tir chaperone protein (CesT) family; Region: CesT; cl08444 363253000111 Tir chaperone protein (CesT) family; Region: CesT; cl08444 363253000112 Sulfatase; Region: Sulfatase; cl10460 363253000113 Uncharacterized conserved protein [Function unknown]; Region: COG4748 363253000114 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 363253000115 Protein export membrane protein; Region: SecD_SecF; cl14618 363253000116 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 363253000117 Protein export membrane protein; Region: SecD_SecF; cl14618 363253000118 Preprotein translocase subunit; Region: YajC; cl00806 363253000119 AsmA family; Region: AsmA; pfam05170 363253000120 AsmA-like C-terminal region; Region: AsmA_2; cl15864 363253000121 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 363253000122 Family description; Region: UvrD_C_2; cl15862 363253000123 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 363253000124 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 363253000125 active site 363253000126 ADP/pyrophosphate binding site [chemical binding]; other site 363253000127 dimerization interface [polypeptide binding]; other site 363253000128 allosteric effector site; other site 363253000129 fructose-1,6-bisphosphate binding site; other site 363253000130 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 363253000131 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 363253000132 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 363253000133 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 363253000134 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 363253000135 N-acetyl-D-glucosamine binding site [chemical binding]; other site 363253000136 catalytic residue [active] 363253000137 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 363253000138 putative peptidoglycan binding site; other site 363253000139 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 363253000140 putative peptidoglycan binding site; other site 363253000141 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 363253000142 putative peptidoglycan binding site; other site 363253000143 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 363253000144 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 363253000145 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 363253000146 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 363253000147 Walker A/P-loop; other site 363253000148 ATP binding site [chemical binding]; other site 363253000149 Q-loop/lid; other site 363253000150 ABC transporter signature motif; other site 363253000151 Walker B; other site 363253000152 D-loop; other site 363253000153 H-loop/switch region; other site 363253000154 NMT1-like family; Region: NMT1_2; cl15260 363253000155 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 363253000156 Protein of unknown function (DUF1269); Region: DUF1269; cl01978 363253000157 DNA-binding transcriptional repressor GlpR; Provisional; Region: PRK10906 363253000158 Helix-turn-helix domains; Region: HTH; cl00088 363253000159 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 363253000160 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 363253000161 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 363253000162 active site 363253000163 (T/H)XGH motif; other site 363253000164 Predicted transcriptional regulator [Transcription]; Region: COG4957 363253000165 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 363253000166 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 363253000167 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 363253000168 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 363253000169 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253000170 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 363253000171 elongation factor P; Validated; Region: PRK00529 363253000172 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 363253000173 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 363253000174 RNA binding site [nucleotide binding]; other site 363253000175 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 363253000176 RNA binding site [nucleotide binding]; other site 363253000177 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 363253000178 G1 box; other site 363253000179 GTP/Mg2+ binding site [chemical binding]; other site 363253000180 Switch I region; other site 363253000181 G2 box; other site 363253000182 G3 box; other site 363253000183 Switch II region; other site 363253000184 G4 box; other site 363253000185 G5 box; other site 363253000186 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 363253000187 active site residue [active] 363253000188 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 363253000189 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 363253000190 active site 363253000191 metal binding site [ion binding]; metal-binding site 363253000192 hexamer interface [polypeptide binding]; other site 363253000193 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 363253000194 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 363253000195 Walker A/P-loop; other site 363253000196 ATP binding site [chemical binding]; other site 363253000197 Q-loop/lid; other site 363253000198 ABC transporter signature motif; other site 363253000199 Walker B; other site 363253000200 D-loop; other site 363253000201 H-loop/switch region; other site 363253000202 TOBE domain; Region: TOBE_2; cl01440 363253000203 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 363253000204 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 363253000205 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 363253000206 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 363253000207 dimer interface [polypeptide binding]; other site 363253000208 conserved gate region; other site 363253000209 putative PBP binding loops; other site 363253000210 ABC-ATPase subunit interface; other site 363253000211 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 363253000212 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 363253000213 dimer interface [polypeptide binding]; other site 363253000214 conserved gate region; other site 363253000215 putative PBP binding loops; other site 363253000216 ABC-ATPase subunit interface; other site 363253000217 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253000218 NAD(P) binding site [chemical binding]; other site 363253000219 active site 363253000220 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 363253000221 KpsF/GutQ family protein; Region: kpsF; TIGR00393 363253000222 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 363253000223 putative active site [active] 363253000224 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 363253000225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253000226 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 363253000227 Domain of unknown function (DUF386); Region: DUF386; cl01047 363253000228 acetylornithine aminotransferase; Provisional; Region: PRK02627 363253000229 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 363253000230 inhibitor-cofactor binding pocket; inhibition site 363253000231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 363253000232 catalytic residue [active] 363253000233 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 363253000234 trimer interface [polypeptide binding]; other site 363253000235 active site 363253000236 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 363253000237 Type III pantothenate kinase; Region: Pan_kinase; cl09130 363253000238 enolase; Provisional; Region: eno; PRK00077 363253000239 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 363253000240 dimer interface [polypeptide binding]; other site 363253000241 metal binding site [ion binding]; metal-binding site 363253000242 substrate binding pocket [chemical binding]; other site 363253000243 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 363253000244 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 363253000245 putative active site [active] 363253000246 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 363253000247 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253000248 AAA domain; Region: AAA_33; pfam13671 363253000249 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 363253000250 catalytic core [active] 363253000251 Tetratricopeptide repeat; Region: TPR_16; pfam13432 363253000252 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 363253000253 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 363253000254 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 363253000255 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253000256 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 363253000257 Domain of unknown function (DUF1844); Region: DUF1844; pfam08899 363253000258 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 363253000259 DNA polymerase I; Provisional; Region: PRK05755 363253000260 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 363253000261 active site 363253000262 metal binding site 1 [ion binding]; metal-binding site 363253000263 putative 5' ssDNA interaction site; other site 363253000264 metal binding site 3; metal-binding site 363253000265 metal binding site 2 [ion binding]; metal-binding site 363253000266 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 363253000267 putative DNA binding site [nucleotide binding]; other site 363253000268 putative metal binding site [ion binding]; other site 363253000269 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 363253000270 active site 363253000271 DNA binding site [nucleotide binding] 363253000272 catalytic site [active] 363253000273 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 363253000274 acetolactate synthase; Reviewed; Region: PRK08322 363253000275 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 363253000276 PYR/PP interface [polypeptide binding]; other site 363253000277 dimer interface [polypeptide binding]; other site 363253000278 TPP binding site [chemical binding]; other site 363253000279 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 363253000280 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 363253000281 TPP-binding site [chemical binding]; other site 363253000282 dimer interface [polypeptide binding]; other site 363253000283 Membrane transport protein; Region: Mem_trans; cl09117 363253000284 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 363253000285 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 363253000286 inhibitor site; inhibition site 363253000287 active site 363253000288 dimer interface [polypeptide binding]; other site 363253000289 catalytic residue [active] 363253000290 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 363253000291 Tetratricopeptide repeat; Region: TPR_6; pfam13174 363253000292 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 363253000293 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 363253000294 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 363253000295 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 363253000296 DNA binding site [nucleotide binding] 363253000297 Int/Topo IB signature motif; other site 363253000298 active site 363253000299 Tim44-like domain; Region: Tim44; cl09208 363253000300 GTP-binding protein Der; Reviewed; Region: PRK00093 363253000301 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 363253000302 G1 box; other site 363253000303 GTP/Mg2+ binding site [chemical binding]; other site 363253000304 Switch I region; other site 363253000305 G2 box; other site 363253000306 Switch II region; other site 363253000307 G3 box; other site 363253000308 G4 box; other site 363253000309 G5 box; other site 363253000310 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 363253000311 G1 box; other site 363253000312 GTP/Mg2+ binding site [chemical binding]; other site 363253000313 Switch I region; other site 363253000314 G2 box; other site 363253000315 G3 box; other site 363253000316 Switch II region; other site 363253000317 G4 box; other site 363253000318 G5 box; other site 363253000319 seryl-tRNA synthetase; Provisional; Region: PRK05431 363253000320 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 363253000321 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 363253000322 dimer interface [polypeptide binding]; other site 363253000323 active site 363253000324 motif 1; other site 363253000325 motif 2; other site 363253000326 motif 3; other site 363253000327 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 363253000328 TPR motif; other site 363253000329 TPR repeat; Region: TPR_11; pfam13414 363253000330 binding surface 363253000331 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 363253000332 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 363253000333 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 363253000334 active site 363253000335 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 363253000336 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 363253000337 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 363253000338 active site 363253000339 substrate binding site [chemical binding]; other site 363253000340 cosubstrate binding site; other site 363253000341 catalytic site [active] 363253000342 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 363253000343 methionine sulfoxide reductase B; Provisional; Region: PRK05508 363253000344 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 363253000345 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 363253000346 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 363253000347 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 363253000348 maltose O-acetyltransferase; Provisional; Region: PRK10092 363253000349 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 363253000350 active site 363253000351 substrate binding site [chemical binding]; other site 363253000352 trimer interface [polypeptide binding]; other site 363253000353 CoA binding site [chemical binding]; other site 363253000354 chaperone protein DnaJ; Provisional; Region: PRK14299 363253000355 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 363253000356 HSP70 interaction site [polypeptide binding]; other site 363253000357 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 363253000358 substrate binding site [polypeptide binding]; other site 363253000359 dimer interface [polypeptide binding]; other site 363253000360 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 363253000361 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 363253000362 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 363253000363 Clp amino terminal domain; Region: Clp_N; pfam02861 363253000364 Clp amino terminal domain; Region: Clp_N; pfam02861 363253000365 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 363253000366 Walker A motif; other site 363253000367 ATP binding site [chemical binding]; other site 363253000368 Walker B motif; other site 363253000369 arginine finger; other site 363253000370 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 363253000371 Walker A motif; other site 363253000372 ATP binding site [chemical binding]; other site 363253000373 Walker B motif; other site 363253000374 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 363253000375 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 363253000376 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 363253000377 Walker A/P-loop; other site 363253000378 ATP binding site [chemical binding]; other site 363253000379 Q-loop/lid; other site 363253000380 ABC transporter signature motif; other site 363253000381 Walker B; other site 363253000382 D-loop; other site 363253000383 H-loop/switch region; other site 363253000384 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 363253000385 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 363253000386 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 363253000387 dimer interface [polypeptide binding]; other site 363253000388 conserved gate region; other site 363253000389 putative PBP binding loops; other site 363253000390 ABC-ATPase subunit interface; other site 363253000391 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 363253000392 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 363253000393 substrate binding pocket [chemical binding]; other site 363253000394 membrane-bound complex binding site; other site 363253000395 hinge residues; other site 363253000396 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 363253000397 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 363253000398 active site 363253000399 motif I; other site 363253000400 motif II; other site 363253000401 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 363253000402 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 363253000403 seryl-tRNA(sec) selenium transferase; Region: selA; TIGR00474 363253000404 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 363253000405 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 363253000406 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 363253000407 anti sigma factor interaction site; other site 363253000408 regulatory phosphorylation site [posttranslational modification]; other site 363253000409 Protein of unknown function (DUF342); Region: DUF342; pfam03961 363253000410 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 363253000411 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 363253000412 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 363253000413 Domain of unknown function (DUF4396); Region: DUF4396; pfam14342 363253000414 YtxH-like protein; Region: YtxH; cl02079 363253000415 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 363253000416 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 363253000417 Probable Catalytic site; other site 363253000418 metal-binding site 363253000419 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 363253000420 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 363253000421 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 363253000422 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 363253000423 S-adenosylmethionine binding site [chemical binding]; other site 363253000424 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 363253000425 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 363253000426 G1 box; other site 363253000427 putative GEF interaction site [polypeptide binding]; other site 363253000428 GTP/Mg2+ binding site [chemical binding]; other site 363253000429 Switch I region; other site 363253000430 G2 box; other site 363253000431 G3 box; other site 363253000432 Switch II region; other site 363253000433 G4 box; other site 363253000434 G5 box; other site 363253000435 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 363253000436 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 363253000437 GTP-binding protein YchF; Reviewed; Region: PRK09601 363253000438 YchF GTPase; Region: YchF; cd01900 363253000439 G1 box; other site 363253000440 GTP/Mg2+ binding site [chemical binding]; other site 363253000441 Switch I region; other site 363253000442 G2 box; other site 363253000443 Switch II region; other site 363253000444 G3 box; other site 363253000445 G4 box; other site 363253000446 G5 box; other site 363253000447 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 363253000448 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 363253000449 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 363253000450 Found in ATP-dependent protease La (LON); Region: LON; smart00464 363253000451 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 363253000452 Walker A motif; other site 363253000453 ATP binding site [chemical binding]; other site 363253000454 Walker B motif; other site 363253000455 arginine finger; other site 363253000456 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 363253000457 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 363253000458 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 363253000459 MPN+ (JAMM) motif; other site 363253000460 Zinc-binding site [ion binding]; other site 363253000461 DNA polymerase III, delta subunit [DNA replication, recombination, and repair]; Region: HolA; COG1466 363253000462 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 363253000463 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 363253000464 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 363253000465 HIGH motif; other site 363253000466 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 363253000467 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 363253000468 active site 363253000469 KMSKS motif; other site 363253000470 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 363253000471 tRNA binding surface [nucleotide binding]; other site 363253000472 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 363253000473 putative RNA binding site [nucleotide binding]; other site 363253000474 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 363253000475 homopentamer interface [polypeptide binding]; other site 363253000476 active site 363253000477 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 363253000478 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 363253000479 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 363253000480 dimerization interface [polypeptide binding]; other site 363253000481 active site 363253000482 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 363253000483 Lumazine binding domain; Region: Lum_binding; pfam00677 363253000484 Lumazine binding domain; Region: Lum_binding; pfam00677 363253000485 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 363253000486 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 363253000487 catalytic motif [active] 363253000488 Zn binding site [ion binding]; other site 363253000489 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 363253000490 deoxycytidylate deaminase 363253000491 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 363253000492 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 363253000493 dimer interface [polypeptide binding]; other site 363253000494 glycine-pyridoxal phosphate binding site [chemical binding]; other site 363253000495 active site 363253000496 folate binding site [chemical binding]; other site 363253000497 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 363253000498 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 363253000499 dimer interface [polypeptide binding]; other site 363253000500 active site 363253000501 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 363253000502 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 363253000503 NAD(P) binding site [chemical binding]; other site 363253000504 homotetramer interface [polypeptide binding]; other site 363253000505 homodimer interface [polypeptide binding]; other site 363253000506 active site 363253000507 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 363253000508 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 363253000509 dimer interface [polypeptide binding]; other site 363253000510 active site 363253000511 CoA binding pocket [chemical binding]; other site 363253000512 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 363253000513 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 363253000514 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 363253000515 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 363253000516 minor groove reading motif; other site 363253000517 helix-hairpin-helix signature motif; other site 363253000518 substrate binding pocket [chemical binding]; other site 363253000519 active site 363253000520 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 363253000521 active site 363253000522 8-oxo-dGMP binding site [chemical binding]; other site 363253000523 nudix motif; other site 363253000524 metal binding site [ion binding]; metal-binding site 363253000525 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 363253000526 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 363253000527 substrate binding site [chemical binding]; other site 363253000528 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 363253000529 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 363253000530 substrate binding site [chemical binding]; other site 363253000531 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 363253000532 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 363253000533 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 363253000534 ATP binding site [chemical binding]; other site 363253000535 putative Mg++ binding site [ion binding]; other site 363253000536 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 363253000537 nucleotide binding region [chemical binding]; other site 363253000538 ATP-binding site [chemical binding]; other site 363253000539 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 363253000540 The substrate-binding component of the oligopeptide-binding protein, AppA, from Bacillus subtilis contains the type 2 periplasmic-binding fold; Region: PBP2_AppA_like; cd08514 363253000541 peptide binding site [polypeptide binding]; other site 363253000542 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 363253000543 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 363253000544 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 363253000545 synthetase active site [active] 363253000546 NTP binding site [chemical binding]; other site 363253000547 metal binding site [ion binding]; metal-binding site 363253000548 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 363253000549 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 363253000550 Protein of unknown function (DUF456); Region: DUF456; cl01069 363253000551 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 363253000552 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 363253000553 DNA binding site [nucleotide binding] 363253000554 Int/Topo IB signature motif; other site 363253000555 active site 363253000556 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 363253000557 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 363253000558 Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]; Region: FusA; COG0480 363253000559 Tet(M)-like family includes Tet(M), Tet(O), Tet(W), and OtrA, containing tetracycline resistant proteins; Region: TetM_like; cd04168 363253000560 G1 box; other site 363253000561 putative GEF interaction site [polypeptide binding]; other site 363253000562 GTP/Mg2+ binding site [chemical binding]; other site 363253000563 Switch I region; other site 363253000564 G2 box; other site 363253000565 G3 box; other site 363253000566 Switch II region; other site 363253000567 G4 box; other site 363253000568 G5 box; other site 363253000569 Tet_II: This subfamily represents domain II of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to domain II of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome...; Region: Tet_II; cd03690 363253000570 EF-G_domain IV_RPP domain is a part of bacterial ribosomal protected proteins (RPP) family. RPPs such as tetracycline resistance proteins Tet(M) and Tet(O) mediate tetracycline resistance in both gram-positive and -negative species. Tetracyclines inhibit...; Region: Tet_like_IV; cd01684 363253000571 Tet_C: C-terminus of ribosomal protection proteins Tet(M) and Tet(O). This domain has homology to the C terminal domains of the elongation factors EF-G and EF-2. Tet(M) and Tet(O) catalyze the release of tetracycline (Tc) from the ribosome in a...; Region: Tet_C; cd03711 363253000572 Endonuclease I; Region: Endonuclease_1; cl01003 363253000573 ERF superfamily; Region: ERF; pfam04404 363253000574 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 363253000575 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253000576 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 363253000577 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 363253000578 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 363253000579 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 363253000580 metal ion-dependent adhesion site (MIDAS); other site 363253000581 FtsH Extracellular; Region: FtsH_ext; pfam06480 363253000582 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 363253000583 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 363253000584 Walker A motif; other site 363253000585 ATP binding site [chemical binding]; other site 363253000586 Walker B motif; other site 363253000587 arginine finger; other site 363253000588 Peptidase family M41; Region: Peptidase_M41; pfam01434 363253000589 dihydropteroate synthase; Region: DHPS; TIGR01496 363253000590 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 363253000591 substrate binding pocket [chemical binding]; other site 363253000592 dimer interface [polypeptide binding]; other site 363253000593 inhibitor binding site; inhibition site 363253000594 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 363253000595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 363253000596 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14314 363253000597 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 363253000598 active site 363253000599 substrate binding site [chemical binding]; other site 363253000600 metal binding site [ion binding]; metal-binding site 363253000601 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 363253000602 active site 363253000603 tetramer interface; other site 363253000604 phenylalanyl-tRNA synthetase subunit alpha; Provisional; Region: pheS; PRK04172 363253000605 primosome assembly protein PriA; Validated; Region: PRK05580 363253000606 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 363253000607 ATP binding site [chemical binding]; other site 363253000608 putative Mg++ binding site [ion binding]; other site 363253000609 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 363253000610 ATP-binding site [chemical binding]; other site 363253000611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253000612 Predicted permease [General function prediction only]; Region: COG2985 363253000613 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 363253000614 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 363253000615 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 363253000616 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 363253000617 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 363253000618 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 363253000619 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 363253000620 RNB domain; Region: RNB; pfam00773 363253000621 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 363253000622 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 363253000623 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 363253000624 GDP-binding site [chemical binding]; other site 363253000625 ACT binding site; other site 363253000626 IMP binding site; other site 363253000627 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 363253000628 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 363253000629 Ligand Binding Site [chemical binding]; other site 363253000630 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 363253000631 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 363253000632 FeS/SAM binding site; other site 363253000633 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 363253000634 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 363253000635 dimer interface [polypeptide binding]; other site 363253000636 active site 363253000637 Schiff base residues; other site 363253000638 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 363253000639 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 363253000640 FeS/SAM binding site; other site 363253000641 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 363253000642 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 363253000643 Helix-turn-helix domains; Region: HTH; cl00088 363253000644 Flagellar protein FliS; Region: FliS; cl00654 363253000645 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 363253000646 flagellar hook-associated protein FliD; Validated; Region: fliD; PRK06664 363253000647 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 363253000648 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 363253000649 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 363253000650 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 363253000651 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 363253000652 active site 363253000653 dimer interface [polypeptide binding]; other site 363253000654 motif 1; other site 363253000655 motif 2; other site 363253000656 motif 3; other site 363253000657 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 363253000658 anticodon binding site; other site 363253000659 translation initiation factor IF-3; Region: infC; TIGR00168 363253000660 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 363253000661 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 363253000662 ribosomal protein L20; Region: rpl20; CHL00068 363253000663 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 363253000664 23S rRNA binding site [nucleotide binding]; other site 363253000665 L21 binding site [polypeptide binding]; other site 363253000666 L13 binding site [polypeptide binding]; other site 363253000667 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 363253000668 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 363253000669 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 363253000670 dimer interface [polypeptide binding]; other site 363253000671 motif 1; other site 363253000672 active site 363253000673 motif 2; other site 363253000674 motif 3; other site 363253000675 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 363253000676 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 363253000677 putative tRNA-binding site [nucleotide binding]; other site 363253000678 B3/4 domain; Region: B3_4; cl11458 363253000679 tRNA synthetase B5 domain; Region: B5; cl08394 363253000680 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 363253000681 dimer interface [polypeptide binding]; other site 363253000682 motif 1; other site 363253000683 motif 3; other site 363253000684 motif 2; other site 363253000685 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 363253000686 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 363253000687 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 363253000688 DNA binding residues [nucleotide binding] 363253000689 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 363253000690 substrate binding site [chemical binding]; other site 363253000691 hexamer interface [polypeptide binding]; other site 363253000692 transketolase; Reviewed; Region: PRK12753 363253000693 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 363253000694 TPP-binding site [chemical binding]; other site 363253000695 dimer interface [polypeptide binding]; other site 363253000696 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 363253000697 PYR/PP interface [polypeptide binding]; other site 363253000698 dimer interface [polypeptide binding]; other site 363253000699 TPP binding site [chemical binding]; other site 363253000700 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 363253000701 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 363253000702 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 363253000703 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 363253000704 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 363253000705 RNA/DNA hybrid binding site [nucleotide binding]; other site 363253000706 active site 363253000707 Restriction endonuclease; Region: Mrr_cat; cl00516 363253000708 Predicted methyltransferases [General function prediction only]; Region: COG0313 363253000709 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 363253000710 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 363253000711 SmpB-tmRNA interface; other site 363253000712 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 363253000713 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 363253000714 ABC transporter; Region: ABC_tran_2; pfam12848 363253000715 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 363253000716 Acyl transferase domain; Region: Acyl_transf_1; cl08282 363253000717 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 363253000718 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 363253000719 putative active site [active] 363253000720 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 363253000721 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 363253000722 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 363253000723 active site 363253000724 HIGH motif; other site 363253000725 KMSK motif region; other site 363253000726 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 363253000727 tRNA binding surface [nucleotide binding]; other site 363253000728 anticodon binding site; other site 363253000729 Sporulation related domain; Region: SPOR; cl10051 363253000730 Permease; Region: Permease; cl00510 363253000731 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 363253000732 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 363253000733 Walker A/P-loop; other site 363253000734 ATP binding site [chemical binding]; other site 363253000735 Q-loop/lid; other site 363253000736 ABC transporter signature motif; other site 363253000737 Walker B; other site 363253000738 D-loop; other site 363253000739 H-loop/switch region; other site 363253000740 mce related protein; Region: MCE; pfam02470 363253000741 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 363253000742 VacJ like lipoprotein; Region: VacJ; cl01073 363253000743 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 363253000744 MutS domain I; Region: MutS_I; pfam01624 363253000745 MutS domain II; Region: MutS_II; pfam05188 363253000746 MutS family domain IV; Region: MutS_IV; pfam05190 363253000747 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 363253000748 Walker A/P-loop; other site 363253000749 ATP binding site [chemical binding]; other site 363253000750 Q-loop/lid; other site 363253000751 ABC transporter signature motif; other site 363253000752 Walker B; other site 363253000753 D-loop; other site 363253000754 H-loop/switch region; other site 363253000755 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 363253000756 nucleotide binding site/active site [active] 363253000757 HIT family signature motif; other site 363253000758 catalytic residue [active] 363253000759 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 363253000760 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 363253000761 active site 363253000762 NTP binding site [chemical binding]; other site 363253000763 metal binding triad [ion binding]; metal-binding site 363253000764 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13296 363253000765 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 363253000766 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 363253000767 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 363253000768 DNA binding site [nucleotide binding] 363253000769 Int/Topo IB signature motif; other site 363253000770 active site 363253000771 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 363253000772 catalytic center binding site [active] 363253000773 ATP binding site [chemical binding]; other site 363253000774 excinuclease ABC subunit B; Provisional; Region: PRK05298 363253000775 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 363253000776 ATP binding site [chemical binding]; other site 363253000777 putative Mg++ binding site [ion binding]; other site 363253000778 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 363253000779 nucleotide binding region [chemical binding]; other site 363253000780 ATP-binding site [chemical binding]; other site 363253000781 Ultra-violet resistance protein B; Region: UvrB; pfam12344 363253000782 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 363253000783 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 363253000784 nucleotide binding pocket [chemical binding]; other site 363253000785 K-X-D-G motif; other site 363253000786 catalytic site [active] 363253000787 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 363253000788 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 363253000789 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 363253000790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253000791 dihydrodipicolinate reductase; Provisional; Region: PRK00048 363253000792 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 363253000793 NAD synthetase; Provisional; Region: PRK13981 363253000794 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 363253000795 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 363253000796 homodimer interface [polypeptide binding]; other site 363253000797 NAD binding pocket [chemical binding]; other site 363253000798 ATP binding pocket [chemical binding]; other site 363253000799 Mg binding site [ion binding]; other site 363253000800 active-site loop [active] 363253000801 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253000802 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 363253000803 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 363253000804 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 363253000805 TPR motif; other site 363253000806 Tetratricopeptide repeat; Region: TPR_16; pfam13432 363253000807 binding surface 363253000808 AMIN domain; Region: AMIN; pfam11741 363253000809 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 363253000810 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 363253000811 Walker A/P-loop; other site 363253000812 ATP binding site [chemical binding]; other site 363253000813 Q-loop/lid; other site 363253000814 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 363253000815 ABC transporter signature motif; other site 363253000816 Walker B; other site 363253000817 D-loop; other site 363253000818 H-loop/switch region; other site 363253000819 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 363253000820 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 363253000821 dimer interface [polypeptide binding]; other site 363253000822 conserved gate region; other site 363253000823 putative PBP binding loops; other site 363253000824 ABC-ATPase subunit interface; other site 363253000825 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 363253000826 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 363253000827 dimer interface [polypeptide binding]; other site 363253000828 conserved gate region; other site 363253000829 putative PBP binding loops; other site 363253000830 ABC-ATPase subunit interface; other site 363253000831 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 363253000832 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 363253000833 Zn2+ binding site [ion binding]; other site 363253000834 Mg2+ binding site [ion binding]; other site 363253000835 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 363253000836 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 363253000837 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 363253000838 generic binding surface I; other site 363253000839 generic binding surface II; other site 363253000840 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 363253000841 active site 363253000842 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 363253000843 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 363253000844 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 363253000845 dimerization interface [polypeptide binding]; other site 363253000846 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 363253000847 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 363253000848 dimer interface [polypeptide binding]; other site 363253000849 phosphorylation site [posttranslational modification] 363253000850 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 363253000851 ATP binding site [chemical binding]; other site 363253000852 Mg2+ binding site [ion binding]; other site 363253000853 G-X-G motif; other site 363253000854 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 363253000855 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 363253000856 pyridoxal 5'-phosphate binding site [chemical binding]; other site 363253000857 catalytic residue [active] 363253000858 putative glutamate/gamma-aminobutyrate antiporter; Region: put_Glu_GABA_T; TIGR03813 363253000859 amino acid transporter; Region: 2A0306; TIGR00909 363253000860 transcription termination factor Rho; Provisional; Region: rho; PRK09376 363253000861 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 363253000862 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 363253000863 RNA binding site [nucleotide binding]; other site 363253000864 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 363253000865 multimer interface [polypeptide binding]; other site 363253000866 Walker A motif; other site 363253000867 ATP binding site [chemical binding]; other site 363253000868 Walker B motif; other site 363253000869 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 363253000870 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 363253000871 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 363253000872 catalytic residue [active] 363253000873 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 363253000874 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 363253000875 trimerization site [polypeptide binding]; other site 363253000876 active site 363253000877 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 363253000878 NifU-like domain; Region: NifU; cl00484 363253000879 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 363253000880 active site 363253000881 putative DNA-binding cleft [nucleotide binding]; other site 363253000882 dimer interface [polypeptide binding]; other site 363253000883 Transcriptional regulator; Region: Transcrip_reg; cl00361 363253000884 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 363253000885 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 363253000886 S-adenosylmethionine binding site [chemical binding]; other site 363253000887 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 363253000888 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 363253000889 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 363253000890 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 363253000891 non-heme iron binding site [ion binding]; other site 363253000892 dimer interface [polypeptide binding]; other site 363253000893 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 363253000894 non-heme iron binding site [ion binding]; other site 363253000895 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional; Region: PRK11921 363253000896 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 363253000897 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 363253000898 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 363253000899 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 363253000900 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 363253000901 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 363253000902 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 363253000903 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 363253000904 dimer interface [polypeptide binding]; other site 363253000905 PYR/PP interface [polypeptide binding]; other site 363253000906 TPP binding site [chemical binding]; other site 363253000907 substrate binding site [chemical binding]; other site 363253000908 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 363253000909 Domain of unknown function; Region: EKR; cl11037 363253000910 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 363253000911 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 363253000912 TPP-binding site [chemical binding]; other site 363253000913 dimer interface [polypeptide binding]; other site 363253000914 phosphate acetyltransferase; Reviewed; Region: PRK05632 363253000915 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253000916 DRTGG domain; Region: DRTGG; cl12147 363253000917 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 363253000918 Acetokinase family; Region: Acetate_kinase; cl01029 363253000919 propionate/acetate kinase; Provisional; Region: PRK12379 363253000920 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253000921 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 363253000922 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 363253000923 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 363253000924 active site 363253000925 (T/H)XGH motif; other site 363253000926 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 363253000927 S-adenosylmethionine binding site [chemical binding]; other site 363253000928 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 363253000929 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 363253000930 Beta-Casp domain; Region: Beta-Casp; cl12567 363253000931 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 363253000932 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 363253000933 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 363253000934 NlpC/P60 family; Region: NLPC_P60; cl11438 363253000935 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 363253000936 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 363253000937 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 363253000938 NlpC/P60 family; Region: NLPC_P60; cl11438 363253000939 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 363253000940 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253000941 Family description; Region: UvrD_C_2; cl15862 363253000942 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 363253000943 active site 363253000944 Pirin-related protein [General function prediction only]; Region: COG1741 363253000945 Cupin domain; Region: Cupin_2; cl09118 363253000946 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 363253000947 hypothetical protein; Provisional; Region: PRK07208 363253000948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253000949 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 363253000950 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 363253000951 Fumarase C-terminus; Region: Fumerase_C; cl00795 363253000952 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 363253000953 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 363253000954 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 363253000955 dimerization interface [polypeptide binding]; other site 363253000956 putative ATP binding site [chemical binding]; other site 363253000957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 363253000958 Smr domain; Region: Smr; cl02619 363253000959 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 363253000960 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 363253000961 dimer interface [polypeptide binding]; other site 363253000962 motif 1; other site 363253000963 active site 363253000964 motif 2; other site 363253000965 motif 3; other site 363253000966 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 363253000967 Recombination protein O N terminal; Region: RecO_N; cl15812 363253000968 Recombination protein O C terminal; Region: RecO_C; pfam02565 363253000969 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 363253000970 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 363253000971 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 363253000972 SurA N-terminal domain; Region: SurA_N_3; cl07813 363253000973 PPIC-type PPIASE domain; Region: Rotamase; cl08278 363253000974 SurA N-terminal domain; Region: SurA_N_3; cl07813 363253000975 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 363253000976 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 363253000977 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 363253000978 ATP binding site [chemical binding]; other site 363253000979 putative Mg++ binding site [ion binding]; other site 363253000980 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 363253000981 nucleotide binding region [chemical binding]; other site 363253000982 ATP-binding site [chemical binding]; other site 363253000983 TRCF domain; Region: TRCF; cl04088 363253000984 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 363253000985 Uncharacterized conserved protein [Function unknown]; Region: COG2898 363253000986 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 363253000987 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 363253000988 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 363253000989 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 363253000990 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 363253000991 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 363253000992 FeS/SAM binding site; other site 363253000993 hypothetical protein; Provisional; Region: PRK11820 363253000994 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 363253000995 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 363253000996 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 363253000997 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 363253000998 catalytic site [active] 363253000999 G-X2-G-X-G-K; other site 363253001000 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 363253001001 active site 363253001002 dimer interface [polypeptide binding]; other site 363253001003 Tetratricopeptide repeat; Region: TPR_12; pfam13424 363253001004 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 363253001005 binding surface 363253001006 TPR motif; other site 363253001007 TPR repeat; Region: TPR_11; pfam13414 363253001008 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 363253001009 DHH family; Region: DHH; pfam01368 363253001010 DHHA1 domain; Region: DHHA1; pfam02272 363253001011 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 363253001012 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 363253001013 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; cd01066 363253001014 active site 363253001015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253001016 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 363253001017 HSP70 interaction site [polypeptide binding]; other site 363253001018 adenylate kinase; Provisional; Region: PRK14529 363253001019 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 363253001020 AMP-binding site [chemical binding]; other site 363253001021 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 363253001022 DUF based on E. rectale Gene description (DUF3880); Region: DUF3880; pfam12996 363253001023 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 363253001024 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 363253001025 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 363253001026 putative active site [active] 363253001027 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 363253001028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253001029 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 363253001030 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 363253001031 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 363253001032 tRNA; other site 363253001033 putative tRNA binding site [nucleotide binding]; other site 363253001034 putative NADP binding site [chemical binding]; other site 363253001035 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 363253001036 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 363253001037 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 363253001038 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 363253001039 P loop; other site 363253001040 GTP binding site [chemical binding]; other site 363253001041 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 363253001042 thiamine phosphate binding site [chemical binding]; other site 363253001043 active site 363253001044 pyrophosphate binding site [ion binding]; other site 363253001045 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 363253001046 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 363253001047 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 363253001048 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; cl15754 363253001049 Protein of unknown function (DUF721); Region: DUF721; cl02324 363253001050 Glycogen debranching enzyme N terminal; Region: GDE_N; pfam12439 363253001051 glycogen debranching enzyme, archaeal type, putative; Region: gde_arch; TIGR01561 363253001052 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 363253001053 Glycogen synthase [Carbohydrate transport and metabolism]; Region: GlgA; COG0297 363253001054 Glycosyl transferase 4-like domain; Region: Glyco_trans_4_4; cl15759 363253001055 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 363253001056 Glycosyl hydrolase family 57; Region: Glyco_hydro_57; pfam03065 363253001057 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 363253001058 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 363253001059 putative homodimer interface [polypeptide binding]; other site 363253001060 putative active site pocket [active] 363253001061 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 363253001062 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 363253001063 feedback inhibition sensing region; other site 363253001064 homohexameric interface [polypeptide binding]; other site 363253001065 nucleotide binding site [chemical binding]; other site 363253001066 N-acetyl-L-glutamate binding site [chemical binding]; other site 363253001067 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 363253001068 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 363253001069 Walker A motif; other site 363253001070 ATP binding site [chemical binding]; other site 363253001071 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253001072 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 363253001073 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 363253001074 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 363253001075 Walker A/P-loop; other site 363253001076 ATP binding site [chemical binding]; other site 363253001077 Q-loop/lid; other site 363253001078 ABC transporter signature motif; other site 363253001079 Walker B; other site 363253001080 D-loop; other site 363253001081 H-loop/switch region; other site 363253001082 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 363253001083 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 363253001084 Walker A/P-loop; other site 363253001085 ATP binding site [chemical binding]; other site 363253001086 Q-loop/lid; other site 363253001087 ABC transporter signature motif; other site 363253001088 Walker B; other site 363253001089 D-loop; other site 363253001090 H-loop/switch region; other site 363253001091 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 363253001092 TM-ABC transporter signature motif; other site 363253001093 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 363253001094 TM-ABC transporter signature motif; other site 363253001095 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 363253001096 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 363253001097 dimerization interface [polypeptide binding]; other site 363253001098 ligand binding site [chemical binding]; other site 363253001099 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 363253001100 Yip1 domain; Region: Yip1; cl12048 363253001101 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 363253001102 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 363253001103 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 363253001104 nucleoside/Zn binding site; other site 363253001105 dimer interface [polypeptide binding]; other site 363253001106 catalytic motif [active] 363253001107 Methyltransferase domain; Region: Methyltransf_31; pfam13847 363253001108 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 363253001109 S-adenosylmethionine binding site [chemical binding]; other site 363253001110 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 363253001111 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 363253001112 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 363253001113 protein binding site [polypeptide binding]; other site 363253001114 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 363253001115 protein binding site [polypeptide binding]; other site 363253001116 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 363253001117 Transglycosylase; Region: Transgly; cl07896 363253001118 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 363253001119 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 363253001120 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 363253001121 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 363253001122 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 363253001123 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 363253001124 ATP binding site [chemical binding]; other site 363253001125 active site 363253001126 substrate binding site [chemical binding]; other site 363253001127 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 363253001128 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 363253001129 NAD binding site [chemical binding]; other site 363253001130 homotetramer interface [polypeptide binding]; other site 363253001131 homodimer interface [polypeptide binding]; other site 363253001132 substrate binding site [chemical binding]; other site 363253001133 active site 363253001134 Malic enzyme, N-terminal domain; Region: malic; pfam00390 363253001135 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 363253001136 putative NAD(P) binding site [chemical binding]; other site 363253001137 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 363253001138 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 363253001139 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 363253001140 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 363253001141 replicative DNA helicase; Region: DnaB; TIGR00665 363253001142 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 363253001143 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 363253001144 Walker A motif; other site 363253001145 ATP binding site [chemical binding]; other site 363253001146 Walker B motif; other site 363253001147 DNA binding loops [nucleotide binding] 363253001148 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 363253001149 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 363253001150 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 363253001151 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 363253001152 ABC transporter; Region: ABC_tran_2; pfam12848 363253001153 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 363253001154 chromosome segregation protein; Provisional; Region: PRK03918 363253001155 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 363253001156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253001157 AsmA family; Region: AsmA; pfam05170 363253001158 AsmA-like C-terminal region; Region: AsmA_2; cl15864 363253001159 MgtE intracellular N domain; Region: MgtE_N; cl15244 363253001160 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 363253001161 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 363253001162 Divalent cation transporter; Region: MgtE; cl00786 363253001163 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 363253001164 nicotinate-nucleotide pyrophosphorylase; Region: nadC; TIGR00078 363253001165 dimerization interface [polypeptide binding]; other site 363253001166 active site 363253001167 Quinolinate synthetase A protein; Region: NadA; cl00420 363253001168 L-aspartate oxidase; Region: nadB; TIGR00551 363253001169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253001170 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 363253001171 YGGT family; Region: YGGT; cl00508 363253001172 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 363253001173 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 363253001174 motif II; other site 363253001175 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 363253001176 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 363253001177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253001178 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 363253001179 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 363253001180 catalytic residues [active] 363253001181 UGMP family protein; Validated; Region: PRK09604 363253001182 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 363253001183 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 363253001184 AMP binding site [chemical binding]; other site 363253001185 metal binding site [ion binding]; metal-binding site 363253001186 active site 363253001187 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 363253001188 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 363253001189 Septum formation initiator; Region: DivIC; cl11433 363253001190 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 363253001191 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 363253001192 Walker A motif; other site 363253001193 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 363253001194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253001195 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 363253001196 Peptidase family M23; Region: Peptidase_M23; pfam01551 363253001197 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 363253001198 rRNA interaction site [nucleotide binding]; other site 363253001199 S8 interaction site; other site 363253001200 putative laminin-1 binding site; other site 363253001201 elongation factor Ts; Provisional; Region: tsf; PRK09377 363253001202 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 363253001203 Elongation factor TS; Region: EF_TS; pfam00889 363253001204 Elongation factor TS; Region: EF_TS; pfam00889 363253001205 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 363253001206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253001207 NAD(P) binding site [chemical binding]; other site 363253001208 active site 363253001209 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 363253001210 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 363253001211 inhibitor-cofactor binding pocket; inhibition site 363253001212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 363253001213 catalytic residue [active] 363253001214 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 363253001215 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 363253001216 putative metal binding site; other site 363253001217 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 363253001218 putative nucleotide binding site [chemical binding]; other site 363253001219 uridine monophosphate binding site [chemical binding]; other site 363253001220 homohexameric interface [polypeptide binding]; other site 363253001221 ribosome recycling factor; Reviewed; Region: frr; PRK00083 363253001222 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 363253001223 hinge region; other site 363253001224 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 363253001225 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 363253001226 catalytic residue [active] 363253001227 putative FPP diphosphate binding site; other site 363253001228 putative FPP binding hydrophobic cleft; other site 363253001229 dimer interface [polypeptide binding]; other site 363253001230 putative IPP diphosphate binding site; other site 363253001231 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 363253001232 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 363253001233 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 363253001234 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 363253001235 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 363253001236 RIP metalloprotease RseP; Region: TIGR00054 363253001237 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 363253001238 active site 363253001239 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 363253001240 protein binding site [polypeptide binding]; other site 363253001241 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 363253001242 putative substrate binding region [chemical binding]; other site 363253001243 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 363253001244 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; cl15754 363253001245 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 363253001246 DNA binding site [nucleotide binding] 363253001247 substrate interaction site [chemical binding]; other site 363253001248 prolyl-tRNA synthetase; Provisional; Region: PRK09194 363253001249 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 363253001250 dimer interface [polypeptide binding]; other site 363253001251 motif 1; other site 363253001252 active site 363253001253 motif 2; other site 363253001254 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 363253001255 putative deacylase active site [active] 363253001256 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 363253001257 active site 363253001258 motif 3; other site 363253001259 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 363253001260 anticodon binding site; other site 363253001261 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 363253001262 rod shape-determining protein MreB; Provisional; Region: PRK13927 363253001263 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 363253001264 ATP binding site [chemical binding]; other site 363253001265 gelsolin binding site; other site 363253001266 profilin binding site; other site 363253001267 rod shape-determining protein MreC; Region: MreC; pfam04085 363253001268 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 363253001269 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 363253001270 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 363253001271 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 363253001272 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 363253001273 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 363253001274 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 363253001275 Plant ATP synthase F0; Region: YMF19; cl07975 363253001276 Plant ATP synthase F0; Region: YMF19; cl07975 363253001277 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 363253001278 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 363253001279 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 363253001280 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 363253001281 beta subunit interaction interface [polypeptide binding]; other site 363253001282 Walker A motif; other site 363253001283 ATP binding site [chemical binding]; other site 363253001284 Walker B motif; other site 363253001285 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 363253001286 ATP synthase; Region: ATP-synt; cl00365 363253001287 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 363253001288 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 363253001289 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 363253001290 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 363253001291 alpha subunit interaction interface [polypeptide binding]; other site 363253001292 Walker A motif; other site 363253001293 ATP binding site [chemical binding]; other site 363253001294 Walker B motif; other site 363253001295 inhibitor binding site; inhibition site 363253001296 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 363253001297 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13446 363253001298 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 363253001299 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 363253001300 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 363253001301 generic binding surface II; other site 363253001302 generic binding surface I; other site 363253001303 Peptidase family M23; Region: Peptidase_M23; pfam01551 363253001304 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 363253001305 substrate binding pocket [chemical binding]; other site 363253001306 chain length determination region; other site 363253001307 substrate-Mg2+ binding site; other site 363253001308 catalytic residues [active] 363253001309 aspartate-rich region 1; other site 363253001310 active site lid residues [active] 363253001311 aspartate-rich region 2; other site 363253001312 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 363253001313 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 363253001314 TPP-binding site; other site 363253001315 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 363253001316 PYR/PP interface [polypeptide binding]; other site 363253001317 dimer interface [polypeptide binding]; other site 363253001318 TPP binding site [chemical binding]; other site 363253001319 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 363253001320 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 363253001321 Ligand Binding Site [chemical binding]; other site 363253001322 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 363253001323 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 363253001324 substrate binding site [chemical binding]; other site 363253001325 active site 363253001326 catalytic residues [active] 363253001327 heterodimer interface [polypeptide binding]; other site 363253001328 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 363253001329 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 363253001330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 363253001331 catalytic residue [active] 363253001332 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 363253001333 active site 363253001334 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 363253001335 active site 363253001336 ribulose/triose binding site [chemical binding]; other site 363253001337 phosphate binding site [ion binding]; other site 363253001338 substrate (anthranilate) binding pocket [chemical binding]; other site 363253001339 product (indole) binding pocket [chemical binding]; other site 363253001340 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 363253001341 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 363253001342 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 363253001343 kynureninase; Region: kynureninase; TIGR01814 363253001344 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 363253001345 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 363253001346 catalytic residue [active] 363253001347 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; cd06574 363253001348 TM-ABC transporter signature motif; other site 363253001349 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 363253001350 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253001351 Walker A/P-loop; other site 363253001352 ATP binding site [chemical binding]; other site 363253001353 Q-loop/lid; other site 363253001354 ABC transporter signature motif; other site 363253001355 Walker B; other site 363253001356 D-loop; other site 363253001357 H-loop/switch region; other site 363253001358 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 363253001359 zinc binding site [ion binding]; other site 363253001360 putative ligand binding site [chemical binding]; other site 363253001361 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 363253001362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253001363 NAD(P) binding site [chemical binding]; other site 363253001364 active site 363253001365 biotin synthase; Region: bioB; TIGR00433 363253001366 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 363253001367 FeS/SAM binding site; other site 363253001368 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 363253001369 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 363253001370 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 363253001371 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 363253001372 catalytic residue [active] 363253001373 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Provisional; Region: PRK11126 363253001374 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 363253001375 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 363253001376 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 363253001377 S-adenosylmethionine binding site [chemical binding]; other site 363253001378 AAA domain; Region: AAA_26; pfam13500 363253001379 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253001380 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 363253001381 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 363253001382 inhibitor-cofactor binding pocket; inhibition site 363253001383 pyridoxal 5'-phosphate binding site [chemical binding]; other site 363253001384 catalytic residue [active] 363253001385 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 363253001386 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 363253001387 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 363253001388 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 363253001389 FeS/SAM binding site; other site 363253001390 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 363253001391 HIT family signature motif; other site 363253001392 catalytic residue [active] 363253001393 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 363253001394 IHF - DNA interface [nucleotide binding]; other site 363253001395 IHF dimer interface [polypeptide binding]; other site 363253001396 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; cl15754 363253001397 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 363253001398 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 363253001399 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 363253001400 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 363253001401 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 363253001402 LL-diaminopimelate aminotransferase; Region: DAPAT_plant; TIGR03542 363253001403 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 363253001404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 363253001405 homodimer interface [polypeptide binding]; other site 363253001406 catalytic residue [active] 363253001407 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 363253001408 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 363253001409 catalytic core [active] 363253001410 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 363253001411 catalytic core [active] 363253001412 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 363253001413 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 363253001414 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 363253001415 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 363253001416 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 363253001417 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 363253001418 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 363253001419 putative substrate-binding site; other site 363253001420 nickel binding site [ion binding]; other site 363253001421 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 363253001422 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 363253001423 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; cl00253 363253001424 putative active site [active] 363253001425 dimerization interface [polypeptide binding]; other site 363253001426 putative tRNAtyr binding site [nucleotide binding]; other site 363253001427 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 363253001428 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 363253001429 substrate binding site; other site 363253001430 dimer interface; other site 363253001431 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 363253001432 homotrimer interaction site [polypeptide binding]; other site 363253001433 zinc binding site [ion binding]; other site 363253001434 CDP-binding sites; other site 363253001435 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 363253001436 Putative zinc ribbon domain; Region: DUF164; pfam02591 363253001437 Uncharacterized conserved protein [Function unknown]; Region: COG0327 363253001438 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 363253001439 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 363253001440 conserved cys residue [active] 363253001441 CTP synthetase; Validated; Region: pyrG; PRK05380 363253001442 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 363253001443 Catalytic site [active] 363253001444 active site 363253001445 UTP binding site [chemical binding]; other site 363253001446 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 363253001447 active site 363253001448 putative oxyanion hole; other site 363253001449 catalytic triad [active] 363253001450 NeuB family; Region: NeuB; cl00496 363253001451 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 363253001452 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 363253001453 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 363253001454 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 363253001455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 363253001456 OstA-like protein; Region: OstA; cl00844 363253001457 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 363253001458 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 363253001459 Walker A/P-loop; other site 363253001460 ATP binding site [chemical binding]; other site 363253001461 Q-loop/lid; other site 363253001462 ABC transporter signature motif; other site 363253001463 Walker B; other site 363253001464 D-loop; other site 363253001465 H-loop/switch region; other site 363253001466 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 363253001467 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 363253001468 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 363253001469 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 363253001470 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 363253001471 30S subunit binding site; other site 363253001472 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 363253001473 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 363253001474 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 363253001475 substrate binding site [chemical binding]; other site 363253001476 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 363253001477 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 363253001478 HIGH motif; other site 363253001479 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 363253001480 active site 363253001481 KMSKS motif; other site 363253001482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253001483 Phosphoglycerate kinase; Region: PGK; pfam00162 363253001484 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; cl00198 363253001485 substrate binding site [chemical binding]; other site 363253001486 hinge regions; other site 363253001487 ADP binding site [chemical binding]; other site 363253001488 catalytic site [active] 363253001489 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 363253001490 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 363253001491 NAD binding site [chemical binding]; other site 363253001492 homodimer interface [polypeptide binding]; other site 363253001493 active site 363253001494 substrate binding site [chemical binding]; other site 363253001495 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 363253001496 active site clefts [active] 363253001497 zinc binding site [ion binding]; other site 363253001498 dimer interface [polypeptide binding]; other site 363253001499 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 363253001500 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 363253001501 Walker A/P-loop; other site 363253001502 ATP binding site [chemical binding]; other site 363253001503 Q-loop/lid; other site 363253001504 ABC transporter signature motif; other site 363253001505 Walker B; other site 363253001506 D-loop; other site 363253001507 H-loop/switch region; other site 363253001508 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 363253001509 putative carbohydrate binding site [chemical binding]; other site 363253001510 Methyltransferase domain; Region: Methyltransf_31; pfam13847 363253001511 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 363253001512 S-adenosylmethionine binding site [chemical binding]; other site 363253001513 Peptidase family M23; Region: Peptidase_M23; pfam01551 363253001514 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 363253001515 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 363253001516 putative active site [active] 363253001517 putative metal binding site [ion binding]; other site 363253001518 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 363253001519 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 363253001520 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 363253001521 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 363253001522 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 363253001523 gating phenylalanine in ion channel; other site 363253001524 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 363253001525 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 363253001526 ATP cone domain; Region: ATP-cone; pfam03477 363253001527 Class I ribonucleotide reductase; Region: RNR_I; cd01679 363253001528 active site 363253001529 dimer interface [polypeptide binding]; other site 363253001530 catalytic residues [active] 363253001531 effector binding site; other site 363253001532 R2 peptide binding site; other site 363253001533 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 363253001534 dimer interface [polypeptide binding]; other site 363253001535 putative radical transfer pathway; other site 363253001536 diiron center [ion binding]; other site 363253001537 tyrosyl radical; other site 363253001538 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 363253001539 Amidohydrolase; Region: Amidohydro_4; pfam13147 363253001540 active site 363253001541 putative substrate binding pocket [chemical binding]; other site 363253001542 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 363253001543 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 363253001544 active site 363253001545 catalytic triad [active] 363253001546 oxyanion hole [active] 363253001547 Predicted esterase [General function prediction only]; Region: COG0627 363253001548 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 363253001549 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 363253001550 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 363253001551 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 363253001552 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 363253001553 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 363253001554 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 363253001555 ligand binding site [chemical binding]; other site 363253001556 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 363253001557 Major Facilitator Superfamily; Region: MFS_1; pfam07690 363253001558 putative substrate translocation pore; other site 363253001559 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 363253001560 flagellar motor protein MotP; Reviewed; Region: PRK06926 363253001561 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 363253001562 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 363253001563 ligand binding site [chemical binding]; other site 363253001564 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 363253001565 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 363253001566 ATP-grasp domain; Region: ATP-grasp_4; cl03087 363253001567 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 363253001568 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 363253001569 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 363253001570 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 363253001571 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 363253001572 dimer interface [polypeptide binding]; other site 363253001573 ssDNA binding site [nucleotide binding]; other site 363253001574 tetramer (dimer of dimers) interface [polypeptide binding]; other site 363253001575 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 363253001576 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 363253001577 active site 363253001578 HIGH motif; other site 363253001579 nucleotide binding site [chemical binding]; other site 363253001580 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 363253001581 KMSKS motif; other site 363253001582 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 363253001583 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 363253001584 EF-hand domain pair; Region: EF_hand_5; pfam13499 363253001585 Ca2+ binding site [ion binding]; other site 363253001586 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 363253001587 Ca2+ binding site [ion binding]; other site 363253001588 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 363253001589 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 363253001590 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 363253001591 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 363253001592 putative ligand binding site [chemical binding]; other site 363253001593 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 363253001594 TM-ABC transporter signature motif; other site 363253001595 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 363253001596 TM-ABC transporter signature motif; other site 363253001597 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 363253001598 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 363253001599 Walker A/P-loop; other site 363253001600 ATP binding site [chemical binding]; other site 363253001601 Q-loop/lid; other site 363253001602 ABC transporter signature motif; other site 363253001603 Walker B; other site 363253001604 D-loop; other site 363253001605 H-loop/switch region; other site 363253001606 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 363253001607 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 363253001608 Walker A/P-loop; other site 363253001609 ATP binding site [chemical binding]; other site 363253001610 Q-loop/lid; other site 363253001611 ABC transporter signature motif; other site 363253001612 Walker B; other site 363253001613 D-loop; other site 363253001614 H-loop/switch region; other site 363253001615 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; cl11452 363253001616 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 363253001617 YceG-like family; Region: YceG; pfam02618 363253001618 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 363253001619 dimerization interface [polypeptide binding]; other site 363253001620 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 363253001621 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 363253001622 ThiS interaction site; other site 363253001623 putative active site [active] 363253001624 tetramer interface [polypeptide binding]; other site 363253001625 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 363253001626 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 363253001627 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 363253001628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253001629 ATP binding site [chemical binding]; other site 363253001630 substrate interface [chemical binding]; other site 363253001631 multidrug efflux protein; Reviewed; Region: PRK01766 363253001632 MatE; Region: MatE; cl10513 363253001633 MatE; Region: MatE; cl10513 363253001634 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 363253001635 Carbon starvation protein CstA; Region: CstA; pfam02554 363253001636 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 363253001637 Integral membrane protein TerC family; Region: TerC; cl10468 363253001638 EVE domain; Region: EVE; cl00728 363253001639 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 363253001640 Bacterial sugar transferase; Region: Bac_transf; cl00939 363253001641 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 363253001642 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 363253001643 putative ADP-binding pocket [chemical binding]; other site 363253001644 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 363253001645 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 363253001646 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 363253001647 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 363253001648 substrate binding pocket [chemical binding]; other site 363253001649 chain length determination region; other site 363253001650 substrate-Mg2+ binding site; other site 363253001651 catalytic residues [active] 363253001652 aspartate-rich region 1; other site 363253001653 active site lid residues [active] 363253001654 aspartate-rich region 2; other site 363253001655 Phosphoribosylformylglycinamidine (FGAM) synthase, synthetase domain [Nucleotide transport and metabolism]; Region: PurL; COG0046 363253001656 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 363253001657 dimerization interface [polypeptide binding]; other site 363253001658 ATP binding site [chemical binding]; other site 363253001659 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 363253001660 dimerization interface [polypeptide binding]; other site 363253001661 ATP binding site [chemical binding]; other site 363253001662 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 363253001663 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 363253001664 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 363253001665 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 363253001666 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 363253001667 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 363253001668 DNA binding residues [nucleotide binding] 363253001669 DNA primase, catalytic core; Region: dnaG; TIGR01391 363253001670 CHC2 zinc finger; Region: zf-CHC2; cl15369 363253001671 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 363253001672 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 363253001673 active site 363253001674 metal binding site [ion binding]; metal-binding site 363253001675 interdomain interaction site; other site 363253001676 GatB domain; Region: GatB_Yqey; cl11497 363253001677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253001678 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 363253001679 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 363253001680 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 363253001681 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 363253001682 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 363253001683 active site 363253001684 phosphorylation site [posttranslational modification] 363253001685 intermolecular recognition site; other site 363253001686 dimerization interface [polypeptide binding]; other site 363253001687 DNA-directed RNA polymerase specialized sigma subunit 363253001688 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 363253001689 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 363253001690 P-loop; other site 363253001691 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 363253001692 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 363253001693 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253001694 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 363253001695 FHIPEP family; Region: FHIPEP; pfam00771 363253001696 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 363253001697 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 363253001698 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 363253001699 ribosome maturation protein RimP; Reviewed; Region: PRK00092 363253001700 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 363253001701 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 363253001702 Sm1 motif; other site 363253001703 D3 - B interaction site; other site 363253001704 D1 - D2 interaction site; other site 363253001705 Hfq - Hfq interaction site; other site 363253001706 RNA binding pocket [nucleotide binding]; other site 363253001707 Sm2 motif; other site 363253001708 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 363253001709 NusA N-terminal domain; Region: NusA_N; pfam08529 363253001710 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 363253001711 RNA binding site [nucleotide binding]; other site 363253001712 homodimer interface [polypeptide binding]; other site 363253001713 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 363253001714 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 363253001715 G-X-X-G motif; other site 363253001716 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 363253001717 translation initiation factor IF-2; Region: IF-2; TIGR00487 363253001718 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 363253001719 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 363253001720 G1 box; other site 363253001721 putative GEF interaction site [polypeptide binding]; other site 363253001722 GTP/Mg2+ binding site [chemical binding]; other site 363253001723 Switch I region; other site 363253001724 G2 box; other site 363253001725 G3 box; other site 363253001726 Switch II region; other site 363253001727 G4 box; other site 363253001728 G5 box; other site 363253001729 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 363253001730 Translation-initiation factor 2; Region: IF-2; pfam11987 363253001731 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 363253001732 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 363253001733 DHH family; Region: DHH; pfam01368 363253001734 FliP family; Region: FliP; cl00593 363253001735 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 363253001736 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 363253001737 Type III secretion protein YscO; Region: YscO; pfam07321 363253001738 type III secretion system ATPase; Provisional; Region: PRK06936 363253001739 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 363253001740 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 363253001741 Walker A motif/ATP binding site; other site 363253001742 Walker B motif; other site 363253001743 type III secretion system protein; Reviewed; Region: PRK06937 363253001744 Flagellar assembly protein FliH; Region: FliH; pfam02108 363253001745 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 363253001746 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 363253001747 TPR motif; other site 363253001748 binding surface 363253001749 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; cl10029 363253001750 type III secretion chaperone SycN; Region: type_III_SycN; TIGR02503 363253001751 TPR repeat; Region: TPR_11; pfam13414 363253001752 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 363253001753 FHIPEP family; Region: FHIPEP; pfam00771 363253001754 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 363253001755 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 363253001756 type III secretion protein, YscU/HrpY family; Region: FlhB_rel_III; TIGR01404 363253001757 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 363253001758 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 363253001759 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 363253001760 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 363253001761 ATP binding site [chemical binding]; other site 363253001762 Mg2+ binding site [ion binding]; other site 363253001763 G-X-G motif; other site 363253001764 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 363253001765 active site 363253001766 phosphorylation site [posttranslational modification] 363253001767 intermolecular recognition site; other site 363253001768 dimerization interface [polypeptide binding]; other site 363253001769 diaminopimelate decarboxylase; Region: lysA; TIGR01048 363253001770 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 363253001771 active site 363253001772 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 363253001773 substrate binding site [chemical binding]; other site 363253001774 catalytic residues [active] 363253001775 dimer interface [polypeptide binding]; other site 363253001776 histidinol dehydrogenase; Region: hisD; TIGR00069 363253001777 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 363253001778 Major Facilitator Superfamily; Region: MFS_1; pfam07690 363253001779 putative substrate translocation pore; other site 363253001780 Bacitracin resistance protein BacA; Region: BacA; cl00858 363253001781 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 363253001782 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 363253001783 23S rRNA interface [nucleotide binding]; other site 363253001784 L3 interface [polypeptide binding]; other site 363253001785 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 363253001786 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 363253001787 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 363253001788 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 363253001789 CHASE3 domain; Region: CHASE3; cl05000 363253001790 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 363253001791 tetramer interfaces [polypeptide binding]; other site 363253001792 binuclear metal-binding site [ion binding]; other site 363253001793 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 363253001794 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 363253001795 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 363253001796 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 363253001797 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 363253001798 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 363253001799 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 363253001800 FlgD Ig-like domain; Region: FlgD_ig; cl15790 363253001801 Poxvirus P4A protein; Region: Pox_P4A; pfam03395 363253001802 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 363253001803 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 363253001804 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 363253001805 putative active site [active] 363253001806 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 363253001807 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 363253001808 ribonuclease III; Reviewed; Region: rnc; PRK00102 363253001809 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 363253001810 dimerization interface [polypeptide binding]; other site 363253001811 active site 363253001812 metal binding site [ion binding]; metal-binding site 363253001813 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 363253001814 dsRNA binding site [nucleotide binding]; other site 363253001815 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 363253001816 RimM N-terminal domain; Region: RimM; pfam01782 363253001817 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 363253001818 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 363253001819 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 363253001820 signal recognition particle protein; Provisional; Region: PRK10867 363253001821 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 363253001822 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 363253001823 P loop; other site 363253001824 GTP binding site [chemical binding]; other site 363253001825 Signal peptide binding domain; Region: SRP_SPB; pfam02978 363253001826 TRAM domain; Region: TRAM; cl01282 363253001827 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 363253001828 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; cl15754 363253001829 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 363253001830 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 363253001831 substrate binding site; other site 363253001832 tetramer interface; other site 363253001833 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 363253001834 purine monophosphate binding site [chemical binding]; other site 363253001835 dimer interface [polypeptide binding]; other site 363253001836 putative catalytic residues [active] 363253001837 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 363253001838 active site 363253001839 8-oxo-dGMP binding site [chemical binding]; other site 363253001840 nudix motif; other site 363253001841 metal binding site [ion binding]; metal-binding site 363253001842 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 363253001843 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 363253001844 putative NAD(P) binding site [chemical binding]; other site 363253001845 active site 363253001846 putative substrate binding site [chemical binding]; other site 363253001847 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 363253001848 Flavoprotein; Region: Flavoprotein; cl08021 363253001849 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 363253001850 TPR repeat; Region: TPR_11; pfam13414 363253001851 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 363253001852 binding surface 363253001853 TPR motif; other site 363253001854 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 363253001855 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 363253001856 active site 363253001857 metal binding site [ion binding]; metal-binding site 363253001858 DNA binding site [nucleotide binding] 363253001859 Uncharacterized conserved protein [Function unknown]; Region: COG4717 363253001860 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253001861 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 363253001862 Mnd1 family; Region: Mnd1; pfam03962 363253001863 AAA domain; Region: AAA_27; pfam13514 363253001864 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 363253001865 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 363253001866 GMP synthase; Reviewed; Region: guaA; PRK00074 363253001867 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 363253001868 AMP/PPi binding site [chemical binding]; other site 363253001869 candidate oxyanion hole; other site 363253001870 catalytic triad [active] 363253001871 potential glutamine specificity residues [chemical binding]; other site 363253001872 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 363253001873 ATP Binding subdomain [chemical binding]; other site 363253001874 Ligand Binding sites [chemical binding]; other site 363253001875 Dimerization subdomain; other site 363253001876 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 363253001877 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 363253001878 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 363253001879 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 363253001880 active site 363253001881 maltose O-acetyltransferase; Provisional; Region: PRK10092 363253001882 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 363253001883 active site 363253001884 substrate binding site [chemical binding]; other site 363253001885 trimer interface [polypeptide binding]; other site 363253001886 CoA binding site [chemical binding]; other site 363253001887 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 363253001888 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 363253001889 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 363253001890 putative active site [active] 363253001891 catalytic site [active] 363253001892 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 363253001893 putative active site [active] 363253001894 catalytic site [active] 363253001895 ribonuclease R; Region: RNase_R; TIGR02063 363253001896 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 363253001897 RNB domain; Region: RNB; pfam00773 363253001898 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 363253001899 RNA binding site [nucleotide binding]; other site 363253001900 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 363253001901 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 363253001902 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 363253001903 dimer interface [polypeptide binding]; other site 363253001904 catalytic triad [active] 363253001905 peroxidatic and resolving cysteines [active] 363253001906 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 363253001907 metal binding site [ion binding]; metal-binding site 363253001908 active site 363253001909 I-site; other site 363253001910 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 363253001911 nucleotidyl binding site; other site 363253001912 metal binding site [ion binding]; metal-binding site 363253001913 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 363253001914 TPR motif; other site 363253001915 binding surface 363253001916 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 363253001917 binding surface 363253001918 TPR repeat; Region: TPR_11; pfam13414 363253001919 TPR motif; other site 363253001920 TPR repeat; Region: TPR_11; pfam13414 363253001921 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 363253001922 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 363253001923 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 363253001924 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 363253001925 Sodium:solute symporter family; Region: SSF; cl00456 363253001926 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 363253001927 Protein of unknown function (DUF997); Region: DUF997; cl01614 363253001928 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 363253001929 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 363253001930 Cl- selectivity filter; other site 363253001931 Cl- binding residues [ion binding]; other site 363253001932 pore gating glutamate residue; other site 363253001933 dimer interface [polypeptide binding]; other site 363253001934 H+/Cl- coupling transport residue; other site 363253001935 Protein of unknown function DUF45; Region: DUF45; cl00636 363253001936 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 363253001937 DNA binding residues [nucleotide binding] 363253001938 dimerization interface [polypeptide binding]; other site 363253001939 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 363253001940 metal binding site [ion binding]; metal-binding site 363253001941 active site 363253001942 I-site; other site 363253001943 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 363253001944 diiron binding motif [ion binding]; other site 363253001945 CCC1-related domain of ferritin; Region: Ferritin_CCC1_C; cd02431 363253001946 Transcriptional regulators [Transcription]; Region: GntR; COG1802 363253001947 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 363253001948 DNA-binding site [nucleotide binding]; DNA binding site 363253001949 FCD domain; Region: FCD; cl11656 363253001950 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 363253001951 Peptidase family M48; Region: Peptidase_M48; cl12018 363253001952 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 363253001953 TPR motif; other site 363253001954 binding surface 363253001955 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 363253001956 binding surface 363253001957 TPR motif; other site 363253001958 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 363253001959 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 363253001960 active site 363253001961 HIGH motif; other site 363253001962 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 363253001963 KMSKS motif; other site 363253001964 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 363253001965 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 363253001966 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 363253001967 binding surface 363253001968 TPR motif; other site 363253001969 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 363253001970 binding surface 363253001971 TPR motif; other site 363253001972 Tetratricopeptide repeat; Region: TPR_16; pfam13432 363253001973 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 363253001974 binding surface 363253001975 TPR motif; other site 363253001976 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 363253001977 binding surface 363253001978 TPR motif; other site 363253001979 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 363253001980 binding surface 363253001981 TPR motif; other site 363253001982 alternative sigma factor RpoH; Region: rpoH_proteo; TIGR02392 363253001983 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 363253001984 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 363253001985 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 363253001986 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 363253001987 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 363253001988 catalytic residues [active] 363253001989 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 363253001990 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 363253001991 DNA repair protein RadA; Provisional; Region: PRK11823 363253001992 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253001993 Walker A motif; other site 363253001994 ATP binding site [chemical binding]; other site 363253001995 Walker B motif; other site 363253001996 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 363253001997 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 363253001998 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 363253001999 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 363253002000 Walker A motif; other site 363253002001 ATP binding site [chemical binding]; other site 363253002002 Walker B motif; other site 363253002003 arginine finger; other site 363253002004 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 363253002005 Walker A motif; other site 363253002006 ATP binding site [chemical binding]; other site 363253002007 Walker B motif; other site 363253002008 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 363253002009 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 363253002010 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 363253002011 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 363253002012 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 363253002013 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 363253002014 NADP binding site [chemical binding]; other site 363253002015 homopentamer interface [polypeptide binding]; other site 363253002016 substrate binding site [chemical binding]; other site 363253002017 active site 363253002018 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 363253002019 GTP1/OBG; Region: GTP1_OBG; pfam01018 363253002020 Obg GTPase; Region: Obg; cd01898 363253002021 G1 box; other site 363253002022 GTP/Mg2+ binding site [chemical binding]; other site 363253002023 Switch I region; other site 363253002024 G2 box; other site 363253002025 G3 box; other site 363253002026 Switch II region; other site 363253002027 G4 box; other site 363253002028 G5 box; other site 363253002029 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 363253002030 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 363253002031 oligomerisation interface [polypeptide binding]; other site 363253002032 mobile loop; other site 363253002033 roof hairpin; other site 363253002034 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 363253002035 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 363253002036 ring oligomerisation interface [polypeptide binding]; other site 363253002037 ATP/Mg binding site [chemical binding]; other site 363253002038 stacking interactions; other site 363253002039 hinge regions; other site 363253002040 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 363253002041 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 363253002042 S-adenosylmethionine binding site [chemical binding]; other site 363253002043 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 363253002044 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 363253002045 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 363253002046 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 363253002047 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 363253002048 ATP binding site [chemical binding]; other site 363253002049 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 363253002050 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 363253002051 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 363253002052 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 363253002053 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 363253002054 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 363253002055 nucleotide binding region [chemical binding]; other site 363253002056 ATP-binding site [chemical binding]; other site 363253002057 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 363253002058 dimerization interface [polypeptide binding]; other site 363253002059 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 363253002060 ATP binding site [chemical binding]; other site 363253002061 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 363253002062 Major Facilitator Superfamily; Region: MFS_1; pfam07690 363253002063 putative substrate translocation pore; other site 363253002064 MFS_1 like family; Region: MFS_1_like; pfam12832 363253002065 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 363253002066 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 363253002067 AMP-binding enzyme; Region: AMP-binding; cl15778 363253002068 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 363253002069 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 363253002070 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 363253002071 DNA binding site [nucleotide binding] 363253002072 catalytic residue [active] 363253002073 H2TH interface [polypeptide binding]; other site 363253002074 putative catalytic residues [active] 363253002075 turnover-facilitating residue; other site 363253002076 intercalation triad [nucleotide binding]; other site 363253002077 8OG recognition residue [nucleotide binding]; other site 363253002078 putative reading head residues; other site 363253002079 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 363253002080 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 363253002081 Cupin domain; Region: Cupin_2; cl09118 363253002082 FliP family; Region: FliP; cl00593 363253002083 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 363253002084 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 363253002085 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 363253002086 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 363253002087 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 363253002088 catalytic residue [active] 363253002089 GTPase Era; Reviewed; Region: era; PRK00089 363253002090 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 363253002091 G1 box; other site 363253002092 GTP/Mg2+ binding site [chemical binding]; other site 363253002093 Switch I region; other site 363253002094 G2 box; other site 363253002095 Switch II region; other site 363253002096 G3 box; other site 363253002097 G4 box; other site 363253002098 G5 box; other site 363253002099 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 363253002100 Peptidase family M48; Region: Peptidase_M48; cl12018 363253002101 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 363253002102 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 363253002103 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 363253002104 phosphate binding site [ion binding]; other site 363253002105 putative substrate binding pocket [chemical binding]; other site 363253002106 dimer interface [polypeptide binding]; other site 363253002107 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 363253002108 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 363253002109 active site 363253002110 HIGH motif; other site 363253002111 nucleotide binding site [chemical binding]; other site 363253002112 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 363253002113 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 363253002114 active site 363253002115 KMSKS motif; other site 363253002116 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 363253002117 tRNA binding surface [nucleotide binding]; other site 363253002118 anticodon binding site; other site 363253002119 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 363253002120 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 363253002121 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 363253002122 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 363253002123 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 363253002124 Peptidase M16C associated; Region: M16C_assoc; pfam08367 363253002125 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 363253002126 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 363253002127 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 363253002128 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 363253002129 active site residue [active] 363253002130 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253002131 Peptidase family M48; Region: Peptidase_M48; cl12018 363253002132 DNA topoisomerase I; Validated; Region: PRK06599 363253002133 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 363253002134 active site 363253002135 interdomain interaction site; other site 363253002136 putative metal-binding site [ion binding]; other site 363253002137 nucleotide binding site [chemical binding]; other site 363253002138 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 363253002139 domain I; other site 363253002140 DNA binding groove [nucleotide binding] 363253002141 phosphate binding site [ion binding]; other site 363253002142 domain II; other site 363253002143 domain III; other site 363253002144 nucleotide binding site [chemical binding]; other site 363253002145 catalytic site [active] 363253002146 domain IV; other site 363253002147 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 363253002148 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 363253002149 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 363253002150 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 363253002151 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 363253002152 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 363253002153 ANP binding site [chemical binding]; other site 363253002154 Substrate Binding Site II [chemical binding]; other site 363253002155 Substrate Binding Site I [chemical binding]; other site 363253002156 argininosuccinate lyase; Provisional; Region: PRK00855 363253002157 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 363253002158 active sites [active] 363253002159 tetramer interface [polypeptide binding]; other site 363253002160 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 363253002161 Domain of unknown function (DUF814); Region: DUF814; pfam05670 363253002162 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253002163 active site 363253002164 Shikimate kinase; Region: SKI; pfam01202 363253002165 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 363253002166 Ferritin-like domain; Region: Ferritin; pfam00210 363253002167 heme binding site [chemical binding]; other site 363253002168 ferroxidase pore; other site 363253002169 ferroxidase diiron center [ion binding]; other site 363253002170 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 363253002171 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 363253002172 glutaminase active site [active] 363253002173 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 363253002174 dimer interface [polypeptide binding]; other site 363253002175 active site 363253002176 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 363253002177 dimer interface [polypeptide binding]; other site 363253002178 active site 363253002179 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 363253002180 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 363253002181 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 363253002182 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 363253002183 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 363253002184 probable extracellular repeat, HAF family; Region: HAF_rpt; TIGR02913 363253002185 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253002186 Tir chaperone protein (CesT) family; Region: CesT; cl08444 363253002187 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253002188 Adenosylhomocysteinase; Provisional; Region: PTZ00075 363253002189 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 363253002190 oligomerization interface [polypeptide binding]; other site 363253002191 active site 363253002192 NAD+ binding site [chemical binding]; other site 363253002193 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 363253002194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253002195 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 363253002196 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253002197 Family description; Region: UvrD_C_2; cl15862 363253002198 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 363253002199 thiamine monophosphate kinase; Provisional; Region: PRK05731 363253002200 ATP binding site [chemical binding]; other site 363253002201 dimerization interface [polypeptide binding]; other site 363253002202 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 363253002203 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 363253002204 active site 363253002205 substrate binding site [chemical binding]; other site 363253002206 metal binding site [ion binding]; metal-binding site 363253002207 HflK protein; Region: hflK; TIGR01933 363253002208 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 363253002209 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 363253002210 HflC protein; Region: hflC; TIGR01932 363253002211 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 363253002212 Predicted transcriptional regulator [Transcription]; Region: COG2932 363253002213 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 363253002214 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 363253002215 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 363253002216 active site 363253002217 dimerization interface [polypeptide binding]; other site 363253002218 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14460 363253002219 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 363253002220 FeS/SAM binding site; other site 363253002221 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 363253002222 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 363253002223 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 363253002224 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 363253002225 ATP-grasp domain; Region: ATP-grasp_4; cl03087 363253002226 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 363253002227 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 363253002228 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 363253002229 Coenzyme A binding pocket [chemical binding]; other site 363253002230 chaperone protein DnaJ; Provisional; Region: PRK14301 363253002231 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 363253002232 HSP70 interaction site [polypeptide binding]; other site 363253002233 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 363253002234 substrate binding site [polypeptide binding]; other site 363253002235 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 363253002236 Zn binding sites [ion binding]; other site 363253002237 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 363253002238 dimer interface [polypeptide binding]; other site 363253002239 multifunctional aminopeptidase A; Provisional; Region: PRK00913 363253002240 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 363253002241 interface (dimer of trimers) [polypeptide binding]; other site 363253002242 Substrate-binding/catalytic site; other site 363253002243 Zn-binding sites [ion binding]; other site 363253002244 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 363253002245 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 363253002246 active site 363253002247 phosphorylation site [posttranslational modification] 363253002248 intermolecular recognition site; other site 363253002249 dimerization interface [polypeptide binding]; other site 363253002250 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 363253002251 Walker A motif; other site 363253002252 ATP binding site [chemical binding]; other site 363253002253 Walker B motif; other site 363253002254 Helix-turn-helix domains; Region: HTH; cl00088 363253002255 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 363253002256 Surface antigen; Region: Bac_surface_Ag; cl03097 363253002257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 363253002258 Family of unknown function (DUF490); Region: DUF490; pfam04357 363253002259 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 363253002260 dimer interface [polypeptide binding]; other site 363253002261 putative outer membrane lipoprotein; Provisional; Region: PRK09967 363253002262 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 363253002263 ligand binding site [chemical binding]; other site 363253002264 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 363253002265 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 363253002266 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 363253002267 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 363253002268 Gram-negative bacterial tonB protein; Region: TonB; cl10048 363253002269 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 363253002270 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 363253002271 Rubrerythrin [Energy production and conversion]; Region: COG1592 363253002272 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 363253002273 binuclear metal center [ion binding]; other site 363253002274 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 363253002275 iron binding site [ion binding]; other site 363253002276 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 363253002277 Rubredoxin; Region: Rubredoxin; pfam00301 363253002278 iron binding site [ion binding]; other site 363253002279 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 363253002280 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 363253002281 putative active site [active] 363253002282 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 363253002283 binding surface 363253002284 TPR motif; other site 363253002285 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 363253002286 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 363253002287 GIY-YIG motif/motif A; other site 363253002288 active site 363253002289 catalytic site [active] 363253002290 putative DNA binding site [nucleotide binding]; other site 363253002291 metal binding site [ion binding]; metal-binding site 363253002292 UvrB/uvrC motif; Region: UVR; pfam02151 363253002293 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 363253002294 Maf-like protein; Region: Maf; pfam02545 363253002295 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 363253002296 active site 363253002297 dimer interface [polypeptide binding]; other site 363253002298 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 363253002299 DHH family; Region: DHH; pfam01368 363253002300 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 363253002301 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 363253002302 putative dimer interface [polypeptide binding]; other site 363253002303 putative anticodon binding site; other site 363253002304 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 363253002305 homodimer interface [polypeptide binding]; other site 363253002306 motif 1; other site 363253002307 motif 2; other site 363253002308 active site 363253002309 motif 3; other site 363253002310 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 363253002311 PHP family phosphoesterase with a Zn ribbon [General function prediction only]; Region: COG1379 363253002312 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 363253002313 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253002314 Family description; Region: UvrD_C_2; cl15862 363253002315 Acylphosphatase; Region: Acylphosphatase; cl00551 363253002316 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 363253002317 HypF finger; Region: zf-HYPF; pfam07503 363253002318 HypF finger; Region: zf-HYPF; pfam07503 363253002319 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 363253002320 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 363253002321 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 363253002322 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 363253002323 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 363253002324 active site 363253002325 Riboflavin kinase; Region: Flavokinase; cl03312 363253002326 flagellin; Provisional; Region: PRK12802 363253002327 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 363253002328 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 363253002329 Colicin V production protein; Region: Colicin_V; cl00567 363253002330 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 363253002331 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 363253002332 heterodimer interface [polypeptide binding]; other site 363253002333 active site 363253002334 FMN binding site [chemical binding]; other site 363253002335 homodimer interface [polypeptide binding]; other site 363253002336 substrate binding site [chemical binding]; other site 363253002337 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 363253002338 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 363253002339 FAD binding pocket [chemical binding]; other site 363253002340 FAD binding motif [chemical binding]; other site 363253002341 phosphate binding motif [ion binding]; other site 363253002342 beta-alpha-beta structure motif; other site 363253002343 NAD binding pocket [chemical binding]; other site 363253002344 Iron coordination center [ion binding]; other site 363253002345 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 363253002346 heterotetramer interface [polypeptide binding]; other site 363253002347 active site pocket [active] 363253002348 cleavage site 363253002349 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 363253002350 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 363253002351 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 363253002352 active site 363253002353 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 363253002354 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 363253002355 substrate binding pocket [chemical binding]; other site 363253002356 membrane-bound complex binding site; other site 363253002357 hinge residues; other site 363253002358 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 363253002359 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 363253002360 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 363253002361 putative PBP binding loops; other site 363253002362 dimer interface [polypeptide binding]; other site 363253002363 ABC-ATPase subunit interface; other site 363253002364 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 363253002365 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253002366 Walker A/P-loop; other site 363253002367 ATP binding site [chemical binding]; other site 363253002368 Q-loop/lid; other site 363253002369 ABC transporter signature motif; other site 363253002370 Walker B; other site 363253002371 D-loop; other site 363253002372 H-loop/switch region; other site 363253002373 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 363253002374 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 363253002375 dimer interface [polypeptide binding]; other site 363253002376 conserved gate region; other site 363253002377 putative PBP binding loops; other site 363253002378 ABC-ATPase subunit interface; other site 363253002379 GTP-binding protein LepA; Provisional; Region: PRK05433 363253002380 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 363253002381 G1 box; other site 363253002382 putative GEF interaction site [polypeptide binding]; other site 363253002383 GTP/Mg2+ binding site [chemical binding]; other site 363253002384 Switch I region; other site 363253002385 G2 box; other site 363253002386 G3 box; other site 363253002387 Switch II region; other site 363253002388 G4 box; other site 363253002389 G5 box; other site 363253002390 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 363253002391 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 363253002392 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 363253002393 Membrane transport protein; Region: Mem_trans; cl09117 363253002394 MltA specific insert domain; Region: MltA; cl08398 363253002395 3D domain; Region: 3D; cl01439 363253002396 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 363253002397 active site 363253002398 histidinol-phosphatase; Provisional; Region: PRK07328 363253002399 S-adenosylmethionine synthetase; Validated; Region: PRK05250 363253002400 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 363253002401 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 363253002402 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 363253002403 LytB protein; Region: LYTB; cl00507 363253002404 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 363253002405 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 363253002406 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 363253002407 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 363253002408 active site 363253002409 phosphorylation site [posttranslational modification] 363253002410 intermolecular recognition site; other site 363253002411 dimerization interface [polypeptide binding]; other site 363253002412 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 363253002413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253002414 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 363253002415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253002416 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 363253002417 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 363253002418 active site 363253002419 HslU subunit interaction site [polypeptide binding]; other site 363253002420 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 363253002421 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 363253002422 substrate binding pocket [chemical binding]; other site 363253002423 membrane-bound complex binding site; other site 363253002424 hinge residues; other site 363253002425 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 363253002426 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14615 363253002427 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 363253002428 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 363253002429 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 363253002430 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 363253002431 active site 363253002432 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 363253002433 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 363253002434 5S rRNA interface [nucleotide binding]; other site 363253002435 CTC domain interface [polypeptide binding]; other site 363253002436 L16 interface [polypeptide binding]; other site 363253002437 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 363253002438 putative active site [active] 363253002439 catalytic residue [active] 363253002440 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 363253002441 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 363253002442 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 363253002443 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 363253002444 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 363253002445 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 363253002446 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 363253002447 SAF-like; Region: SAF_2; pfam13144 363253002448 SAF domain; Region: SAF; cl00555 363253002449 Flagellar L-ring protein; Region: FlgH; cl00905 363253002450 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 363253002451 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 363253002452 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 363253002453 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 363253002454 Rod binding protein; Region: Rod-binding; cl01626 363253002455 FlgN protein; Region: FlgN; cl09176 363253002456 Flagellar hook-associated protein [Cell motility and secretion]; Region: FlgK; COG1256 363253002457 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 363253002458 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 363253002459 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 363253002460 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 363253002461 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 363253002462 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 363253002463 Global regulator protein family; Region: CsrA; cl00670 363253002464 FliW protein; Region: FliW; cl00740 363253002465 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 363253002466 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 363253002467 putative substrate binding site [chemical binding]; other site 363253002468 putative ATP binding site [chemical binding]; other site 363253002469 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 363253002470 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 363253002471 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 363253002472 Walker A motif; other site 363253002473 ATP binding site [chemical binding]; other site 363253002474 Walker B motif; other site 363253002475 arginine finger; other site 363253002476 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 363253002477 putative transporter; Provisional; Region: PRK11660 363253002478 Sulfate transporter family; Region: Sulfate_transp; cl15842 363253002479 Sulfate transporter family; Region: Sulfate_transp; cl15842 363253002480 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 363253002481 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 363253002482 dimer interface [polypeptide binding]; other site 363253002483 conserved gate region; other site 363253002484 putative PBP binding loops; other site 363253002485 ABC-ATPase subunit interface; other site 363253002486 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 363253002487 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 363253002488 substrate binding pocket [chemical binding]; other site 363253002489 membrane-bound complex binding site; other site 363253002490 hinge residues; other site 363253002491 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 363253002492 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 363253002493 RNA binding site [nucleotide binding]; other site 363253002494 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 363253002495 RNA binding site [nucleotide binding]; other site 363253002496 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 363253002497 RNA binding site [nucleotide binding]; other site 363253002498 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 363253002499 RNA binding site [nucleotide binding]; other site 363253002500 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 363253002501 RNA binding site [nucleotide binding]; other site 363253002502 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 363253002503 RNA binding site [nucleotide binding]; other site 363253002504 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 363253002505 RNA/DNA hybrid binding site [nucleotide binding]; other site 363253002506 active site 363253002507 UbiA prenyltransferase family; Region: UbiA; cl00337 363253002508 CAAX protease self-immunity; Region: Abi; cl00558 363253002509 UbiA prenyltransferase family; Region: UbiA; cl00337 363253002510 thymidylate kinase; Validated; Region: tmk; PRK00698 363253002511 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 363253002512 TMP-binding site; other site 363253002513 ATP-binding site [chemical binding]; other site 363253002514 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 363253002515 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 363253002516 generic binding surface I; other site 363253002517 generic binding surface II; other site 363253002518 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 363253002519 Zn2+ binding site [ion binding]; other site 363253002520 Mg2+ binding site [ion binding]; other site 363253002521 Survival protein SurE; Region: SurE; cl00448 363253002522 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 363253002523 hypothetical protein; Provisional; Region: PRK08185 363253002524 intersubunit interface [polypeptide binding]; other site 363253002525 active site 363253002526 zinc binding site [ion binding]; other site 363253002527 Na+ binding site [ion binding]; other site 363253002528 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 363253002529 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253002530 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 363253002531 Protein of unknown function DUF116; Region: DUF116; cl00800 363253002532 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 363253002533 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 363253002534 putative active site [active] 363253002535 substrate binding site [chemical binding]; other site 363253002536 putative cosubstrate binding site; other site 363253002537 catalytic site [active] 363253002538 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 363253002539 substrate binding site [chemical binding]; other site 363253002540 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 363253002541 active site 363253002542 catalytic residues [active] 363253002543 metal binding site [ion binding]; metal-binding site 363253002544 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 363253002545 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 363253002546 FMN binding site [chemical binding]; other site 363253002547 active site 363253002548 catalytic residues [active] 363253002549 substrate binding site [chemical binding]; other site 363253002550 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 363253002551 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 363253002552 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 363253002553 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 363253002554 homodimer interface [polypeptide binding]; other site 363253002555 oligonucleotide binding site [chemical binding]; other site 363253002556 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 363253002557 Ligand Binding Site [chemical binding]; other site 363253002558 putative cation:proton antiport protein; Provisional; Region: PRK10669 363253002559 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 363253002560 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 363253002561 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253002562 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 363253002563 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 363253002564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253002565 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 363253002566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253002567 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 363253002568 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 363253002569 Cation transport protein; Region: TrkH; cl10514 363253002570 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 363253002571 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 363253002572 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 363253002573 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 363253002574 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 363253002575 minor groove reading motif; other site 363253002576 helix-hairpin-helix signature motif; other site 363253002577 substrate binding pocket [chemical binding]; other site 363253002578 active site 363253002579 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 363253002580 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 363253002581 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 363253002582 substrate binding site [chemical binding]; other site 363253002583 ATP binding site [chemical binding]; other site 363253002584 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 363253002585 putative active site [active] 363253002586 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 363253002587 dimer interface [polypeptide binding]; other site 363253002588 substrate binding site [chemical binding]; other site 363253002589 ATP binding site [chemical binding]; other site 363253002590 DNA gyrase subunit A; Validated; Region: PRK05560 363253002591 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 363253002592 CAP-like domain; other site 363253002593 active site 363253002594 primary dimer interface [polypeptide binding]; other site 363253002595 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 363253002596 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 363253002597 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 363253002598 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 363253002599 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 363253002600 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 363253002601 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 363253002602 ATP binding site [chemical binding]; other site 363253002603 Mg2+ binding site [ion binding]; other site 363253002604 G-X-G motif; other site 363253002605 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 363253002606 anchoring element; other site 363253002607 dimer interface [polypeptide binding]; other site 363253002608 ATP binding site [chemical binding]; other site 363253002609 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 363253002610 active site 363253002611 putative metal-binding site [ion binding]; other site 363253002612 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 363253002613 DNA polymerase III subunit beta; Provisional; Region: PRK14947 363253002614 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 363253002615 putative DNA binding surface [nucleotide binding]; other site 363253002616 dimer interface [polypeptide binding]; other site 363253002617 beta-clamp/clamp loader binding surface; other site 363253002618 beta-clamp/translesion DNA polymerase binding surface; other site 363253002619 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 363253002620 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 363253002621 Walker A motif; other site 363253002622 ATP binding site [chemical binding]; other site 363253002623 Walker B motif; other site 363253002624 arginine finger; other site 363253002625 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 363253002626 DnaA box-binding interface [nucleotide binding]; other site 363253002627 Peptidase family M23; Region: Peptidase_M23; pfam01551 363253002628 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 363253002629 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 363253002630 2-ketoisovalerate ferredoxin reductase; Validated; Region: PRK07119 363253002631 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 363253002632 dimer interface [polypeptide binding]; other site 363253002633 PYR/PP interface [polypeptide binding]; other site 363253002634 TPP binding site [chemical binding]; other site 363253002635 substrate binding site [chemical binding]; other site 363253002636 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 363253002637 TPP-binding site [chemical binding]; other site 363253002638 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 363253002639 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 363253002640 trigger factor; Region: tig; TIGR00115 363253002641 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 363253002642 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 363253002643 Clp protease; Region: CLP_protease; pfam00574 363253002644 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 363253002645 oligomer interface [polypeptide binding]; other site 363253002646 active site residues [active] 363253002647 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 363253002648 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 363253002649 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 363253002650 Walker A motif; other site 363253002651 ATP binding site [chemical binding]; other site 363253002652 Walker B motif; other site 363253002653 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 363253002654 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 363253002655 Found in ATP-dependent protease La (LON); Region: LON; smart00464 363253002656 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 363253002657 Walker A motif; other site 363253002658 ATP binding site [chemical binding]; other site 363253002659 Walker B motif; other site 363253002660 arginine finger; other site 363253002661 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 363253002662 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 363253002663 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 363253002664 FeS/SAM binding site; other site 363253002665 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 363253002666 Ligand Binding Site [chemical binding]; other site 363253002667 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14356 363253002668 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 363253002669 Substrate binding site; other site 363253002670 Mg++ binding site; other site 363253002671 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 363253002672 active site 363253002673 substrate binding site [chemical binding]; other site 363253002674 CoA binding site [chemical binding]; other site 363253002675 conserved hypothetical protein YmdA/YtgF; Region: YmdA_YtgF; TIGR03319 363253002676 Plant ATP synthase F0; Region: YMF19; cl07975 363253002677 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 363253002678 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 363253002679 active site 363253002680 Nucleoside recognition; Region: Gate; cl00486 363253002681 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 363253002682 Nucleoside recognition; Region: Gate; cl00486 363253002683 AMP-binding enzyme; Region: AMP-binding; cl15778 363253002684 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 363253002685 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 363253002686 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 363253002687 substrate binding site [chemical binding]; other site 363253002688 oxyanion hole (OAH) forming residues; other site 363253002689 trimer interface [polypeptide binding]; other site 363253002690 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 363253002691 CoenzymeA binding site [chemical binding]; other site 363253002692 subunit interaction site [polypeptide binding]; other site 363253002693 PHB binding site; other site 363253002694 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 363253002695 Phosphate transporter family; Region: PHO4; cl00396 363253002696 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 363253002697 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 363253002698 RNA binding surface [nucleotide binding]; other site 363253002699 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 363253002700 active site 363253002701 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 363253002702 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 363253002703 CoA-binding site [chemical binding]; other site 363253002704 ATP-binding [chemical binding]; other site 363253002705 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 363253002706 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 363253002707 P-loop; other site 363253002708 Magnesium ion binding site [ion binding]; other site 363253002709 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 363253002710 Magnesium ion binding site [ion binding]; other site 363253002711 ParB-like nuclease domain; Region: ParBc; cl02129 363253002712 ParB-like partition proteins; Region: parB_part; TIGR00180 363253002713 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 363253002714 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 363253002715 putative ribose interaction site [chemical binding]; other site 363253002716 putative ADP binding site [chemical binding]; other site 363253002717 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 363253002718 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 363253002719 FeS/SAM binding site; other site 363253002720 HemN C-terminal domain; Region: HemN_C; pfam06969 363253002721 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 363253002722 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 363253002723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253002724 dihydroorotase; Validated; Region: pyrC; PRK09357 363253002725 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 363253002726 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 363253002727 active site 363253002728 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 363253002729 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14337 363253002730 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 363253002731 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 363253002732 FeS/SAM binding site; other site 363253002733 hypothetical protein; Provisional; Region: PRK06361 363253002734 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 363253002735 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 363253002736 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 363253002737 active site 363253002738 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 363253002739 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 363253002740 putative ADP-binding pocket [chemical binding]; other site 363253002741 O-Antigen ligase; Region: Wzy_C; cl04850 363253002742 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 363253002743 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 363253002744 putative ligand binding site [chemical binding]; other site 363253002745 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 363253002746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253002747 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 363253002748 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 363253002749 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 363253002750 Walker A/P-loop; other site 363253002751 ATP binding site [chemical binding]; other site 363253002752 Q-loop/lid; other site 363253002753 ABC transporter signature motif; other site 363253002754 Walker B; other site 363253002755 D-loop; other site 363253002756 H-loop/switch region; other site 363253002757 RNA polymerase III subunit Rpc25; Region: RNA_pol_Rbc25; pfam08292 363253002758 TOBE domain; Region: TOBE_2; cl01440 363253002759 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 363253002760 dimer interface [polypeptide binding]; other site 363253002761 conserved gate region; other site 363253002762 putative PBP binding loops; other site 363253002763 ABC-ATPase subunit interface; other site 363253002764 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 363253002765 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 363253002766 dimer interface [polypeptide binding]; other site 363253002767 conserved gate region; other site 363253002768 putative PBP binding loops; other site 363253002769 ABC-ATPase subunit interface; other site 363253002770 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 363253002771 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 363253002772 Protein of unknown function (DUF935); Region: DUF935; pfam06074 363253002773 Mor transcription activator family; Region: Mor; cl02360 363253002774 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 363253002775 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 363253002776 non-specific DNA binding site [nucleotide binding]; other site 363253002777 salt bridge; other site 363253002778 sequence-specific DNA binding site [nucleotide binding]; other site 363253002779 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 363253002780 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 363253002781 Catalytic site [active] 363253002782 Tetratricopeptide repeat; Region: TPR_12; pfam13424 363253002783 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 363253002784 TPR motif; other site 363253002785 binding surface 363253002786 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 363253002787 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 363253002788 hinge; other site 363253002789 active site 363253002790 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 363253002791 putative catalytic site [active] 363253002792 putative metal binding site [ion binding]; other site 363253002793 putative phosphate binding site [ion binding]; other site 363253002794 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253002795 hydroperoxidase II; Provisional; Region: katE; PRK11249 363253002796 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 363253002797 tetramer interface [polypeptide binding]; other site 363253002798 heme binding pocket [chemical binding]; other site 363253002799 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 363253002800 domain interactions; other site 363253002801 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 363253002802 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 363253002803 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 363253002804 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 363253002805 dimer interface [polypeptide binding]; other site 363253002806 putative CheW interface [polypeptide binding]; other site 363253002807 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; cl15754 363253002808 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 363253002809 Family description; Region: VCBS; pfam13517 363253002810 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 363253002811 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 363253002812 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 363253002813 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 363253002814 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253002815 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 363253002816 HI0933-like protein; Region: HI0933_like; pfam03486 363253002817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253002818 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 363253002819 FMN binding site [chemical binding]; other site 363253002820 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 363253002821 dimer interface [polypeptide binding]; other site 363253002822 OsmC-like protein; Region: OsmC; cl00767 363253002823 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 363253002824 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 363253002825 Walker A motif/ATP binding site; other site 363253002826 Walker B motif; other site 363253002827 Plant ATP synthase F0; Region: YMF19; cl07975 363253002828 Flagellar assembly protein FliH; Region: FliH; pfam02108 363253002829 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 363253002830 FliG C-terminal domain; Region: FliG_C; pfam01706 363253002831 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 363253002832 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 363253002833 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 363253002834 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 363253002835 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 363253002836 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 363253002837 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12621 363253002838 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 363253002839 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 363253002840 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 363253002841 Walker A/P-loop; other site 363253002842 ATP binding site [chemical binding]; other site 363253002843 Q-loop/lid; other site 363253002844 ABC transporter signature motif; other site 363253002845 Walker B; other site 363253002846 D-loop; other site 363253002847 H-loop/switch region; other site 363253002848 Cobalt transport protein; Region: CbiQ; cl00463 363253002849 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 363253002850 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 363253002851 integral membrane protein MviN; Region: mviN; TIGR01695 363253002852 Competence protein; Region: Competence; cl00471 363253002853 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 363253002854 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 363253002855 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 363253002856 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 363253002857 RNA binding surface [nucleotide binding]; other site 363253002858 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 363253002859 active site 363253002860 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 363253002861 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 363253002862 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 363253002863 Walker A/P-loop; other site 363253002864 ATP binding site [chemical binding]; other site 363253002865 Q-loop/lid; other site 363253002866 ABC transporter signature motif; other site 363253002867 Walker B; other site 363253002868 D-loop; other site 363253002869 H-loop/switch region; other site 363253002870 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 363253002871 putative acyl-acceptor binding pocket; other site 363253002872 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 363253002873 putative acyl-acceptor binding pocket; other site 363253002874 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 363253002875 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 363253002876 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 363253002877 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 363253002878 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 363253002879 Potassium binding sites [ion binding]; other site 363253002880 Cesium cation binding sites [ion binding]; other site 363253002881 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14168 363253002882 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 363253002883 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 363253002884 homodimer interface [polypeptide binding]; other site 363253002885 NADP binding site [chemical binding]; other site 363253002886 substrate binding site [chemical binding]; other site 363253002887 16S rRNA methyltransferase B; Provisional; Region: PRK14902 363253002888 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 363253002889 putative RNA binding site [nucleotide binding]; other site 363253002890 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; cl15754 363253002891 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 363253002892 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 363253002893 active site 363253002894 phosphorylation site [posttranslational modification] 363253002895 intermolecular recognition site; other site 363253002896 dimerization interface [polypeptide binding]; other site 363253002897 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 363253002898 Walker A motif; other site 363253002899 ATP binding site [chemical binding]; other site 363253002900 Walker B motif; other site 363253002901 arginine finger; other site 363253002902 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 363253002903 dimer interface [polypeptide binding]; other site 363253002904 phosphorylation site [posttranslational modification] 363253002905 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 363253002906 ATP binding site [chemical binding]; other site 363253002907 Mg2+ binding site [ion binding]; other site 363253002908 G-X-G motif; other site 363253002909 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 363253002910 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 363253002911 active site 363253002912 dimer interface [polypeptide binding]; other site 363253002913 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 363253002914 dimer interface [polypeptide binding]; other site 363253002915 active site 363253002916 Sugar fermentation stimulation protein; Region: SfsA; cl00647 363253002917 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 363253002918 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 363253002919 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 363253002920 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 363253002921 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 363253002922 selenocysteine-specific elongation factor SelB; Region: selB; TIGR00475 363253002923 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 363253002924 G1 box; other site 363253002925 putative GEF interaction site [polypeptide binding]; other site 363253002926 GTP/Mg2+ binding site [chemical binding]; other site 363253002927 Switch I region; other site 363253002928 G2 box; other site 363253002929 G3 box; other site 363253002930 Switch II region; other site 363253002931 G4 box; other site 363253002932 G5 box; other site 363253002933 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 363253002934 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 363253002935 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 363253002936 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 363253002937 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 363253002938 Amidase; Region: Amidase; cl11426 363253002939 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 363253002940 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 363253002941 Ligand Binding Site [chemical binding]; other site 363253002942 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 363253002943 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253002944 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 363253002945 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 363253002946 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 363253002947 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 363253002948 putative active site [active] 363253002949 catalytic triad [active] 363253002950 putative dimer interface [polypeptide binding]; other site 363253002951 peptide chain release factor 2; Validated; Region: prfB; PRK00578 363253002952 RF-1 domain; Region: RF-1; cl02875 363253002953 RF-1 domain; Region: RF-1; cl02875 363253002954 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 363253002955 IHF - DNA interface [nucleotide binding]; other site 363253002956 IHF dimer interface [polypeptide binding]; other site 363253002957 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 363253002958 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 363253002959 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 363253002960 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 363253002961 dihydrodipicolinate synthase; Region: dapA; TIGR00674 363253002962 dimer interface [polypeptide binding]; other site 363253002963 active site 363253002964 catalytic residue [active] 363253002965 MFS transport protein AraJ; Provisional; Region: PRK10091 363253002966 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 363253002967 putative substrate translocation pore; other site 363253002968 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 363253002969 active site 363253002970 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 363253002971 DsrC like protein; Region: DsrC; cl01101 363253002972 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 363253002973 metal ion-dependent adhesion site (MIDAS); other site 363253002974 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 363253002975 ligand binding site [chemical binding]; other site 363253002976 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 363253002977 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 363253002978 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 363253002979 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 363253002980 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 363253002981 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 363253002982 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 363253002983 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 363253002984 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 363253002985 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 363253002986 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 363253002987 DNA binding site [nucleotide binding] 363253002988 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 363253002989 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 363253002990 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 363253002991 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 363253002992 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 363253002993 RPB11 interaction site [polypeptide binding]; other site 363253002994 RPB12 interaction site [polypeptide binding]; other site 363253002995 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 363253002996 RPB3 interaction site [polypeptide binding]; other site 363253002997 RPB1 interaction site [polypeptide binding]; other site 363253002998 RPB11 interaction site [polypeptide binding]; other site 363253002999 RPB10 interaction site [polypeptide binding]; other site 363253003000 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 363253003001 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 363253003002 inhibitor-cofactor binding pocket; inhibition site 363253003003 pyridoxal 5'-phosphate binding site [chemical binding]; other site 363253003004 catalytic residue [active] 363253003005 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 363253003006 Helix-turn-helix domains; Region: HTH; cl00088 363253003007 Hydrogenase formation hypA family; Region: HypD; cl12072 363253003008 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 363253003009 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 363253003010 rRNA binding site [nucleotide binding]; other site 363253003011 predicted 30S ribosome binding site; other site 363253003012 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 363253003013 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 363253003014 CMP-binding site; other site 363253003015 The sites determining sugar specificity; other site 363253003016 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 363253003017 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 363253003018 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 363253003019 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 363253003020 Aspartase; Region: Aspartase; cd01357 363253003021 active sites [active] 363253003022 tetramer interface [polypeptide binding]; other site 363253003023 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 363253003024 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 363253003025 homodimer interface [polypeptide binding]; other site 363253003026 substrate-cofactor binding pocket; other site 363253003027 catalytic residue [active] 363253003028 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 363253003029 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 363253003030 Walker A motif; other site 363253003031 ATP binding site [chemical binding]; other site 363253003032 Walker B motif; other site 363253003033 arginine finger; other site 363253003034 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 363253003035 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14959 363253003036 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 363253003037 recombination protein RecR; Reviewed; Region: recR; PRK00076 363253003038 RecR protein; Region: RecR; pfam02132 363253003039 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 363253003040 putative active site [active] 363253003041 putative metal-binding site [ion binding]; other site 363253003042 tetramer interface [polypeptide binding]; other site 363253003043 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 363253003044 active site 363253003045 substrate binding site [chemical binding]; other site 363253003046 catalytic site [active] 363253003047 Peptidase family M23; Region: Peptidase_M23; pfam01551 363253003048 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 363253003049 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 363253003050 ATP-grasp domain; Region: ATP-grasp_4; cl03087 363253003051 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 363253003052 AIR carboxylase; Region: AIRC; cl00310 363253003053 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 363253003054 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 363253003055 Catalytic site [active] 363253003056 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 363253003057 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 363253003058 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 363253003059 Sulfatase; Region: Sulfatase; cl10460 363253003060 integral membrane protein MviN; Region: mviN; TIGR01695 363253003061 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 363253003062 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 363253003063 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 363253003064 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 363253003065 active site 363253003066 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 363253003067 peripheral dimer interface [polypeptide binding]; other site 363253003068 core dimer interface [polypeptide binding]; other site 363253003069 L10 interface [polypeptide binding]; other site 363253003070 L11 interface [polypeptide binding]; other site 363253003071 putative EF-Tu interaction site [polypeptide binding]; other site 363253003072 putative EF-G interaction site [polypeptide binding]; other site 363253003073 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 363253003074 23S rRNA interface [nucleotide binding]; other site 363253003075 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 363253003076 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 363253003077 mRNA/rRNA interface [nucleotide binding]; other site 363253003078 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 363253003079 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 363253003080 23S rRNA interface [nucleotide binding]; other site 363253003081 L7/L12 interface [polypeptide binding]; other site 363253003082 putative thiostrepton binding site; other site 363253003083 L25 interface [polypeptide binding]; other site 363253003084 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 363253003085 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 363253003086 putative homodimer interface [polypeptide binding]; other site 363253003087 KOW motif; Region: KOW; cl00354 363253003088 elongation factor Tu; Reviewed; Region: PRK00049 363253003089 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 363253003090 G1 box; other site 363253003091 GEF interaction site [polypeptide binding]; other site 363253003092 GTP/Mg2+ binding site [chemical binding]; other site 363253003093 Switch I region; other site 363253003094 G2 box; other site 363253003095 G3 box; other site 363253003096 Switch II region; other site 363253003097 G4 box; other site 363253003098 G5 box; other site 363253003099 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 363253003100 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 363253003101 Antibiotic Binding Site [chemical binding]; other site 363253003102 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 363253003103 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 363253003104 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 363253003105 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 363253003106 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 363253003107 ThiC family; Region: ThiC; cl08031 363253003108 amidophosphoribosyltransferase; Region: purF; TIGR01134 363253003109 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 363253003110 active site 363253003111 tetramer interface [polypeptide binding]; other site 363253003112 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 363253003113 active site 363253003114 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 363253003115 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 363253003116 ATP-grasp domain; Region: ATP-grasp_4; cl03087 363253003117 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 363253003118 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 363253003119 ATP-grasp domain; Region: ATP-grasp_4; cl03087 363253003120 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 363253003121 IMP binding site; other site 363253003122 dimer interface [polypeptide binding]; other site 363253003123 partial ornithine binding site; other site 363253003124 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 363253003125 nudix motif; other site 363253003126 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 363253003127 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 363253003128 Transporter associated domain; Region: CorC_HlyC; cl08393 363253003129 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 363253003130 S17 interaction site [polypeptide binding]; other site 363253003131 S8 interaction site; other site 363253003132 16S rRNA interaction site [nucleotide binding]; other site 363253003133 streptomycin interaction site [chemical binding]; other site 363253003134 23S rRNA interaction site [nucleotide binding]; other site 363253003135 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 363253003136 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 363253003137 elongation factor G; Reviewed; Region: PRK00007 363253003138 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 363253003139 G1 box; other site 363253003140 putative GEF interaction site [polypeptide binding]; other site 363253003141 GTP/Mg2+ binding site [chemical binding]; other site 363253003142 Switch I region; other site 363253003143 G2 box; other site 363253003144 G3 box; other site 363253003145 Switch II region; other site 363253003146 G4 box; other site 363253003147 G5 box; other site 363253003148 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 363253003149 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 363253003150 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 363253003151 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 363253003152 Platelet-activating factor acetylhydrolase, isoform II; Region: PAF-AH_p_II; pfam03403 363253003153 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 363253003154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003155 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003156 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 363253003157 NlpC/P60 family; Region: NLPC_P60; cl11438 363253003158 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 363253003159 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 363253003160 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 363253003161 homodimer interface [polypeptide binding]; other site 363253003162 substrate-cofactor binding pocket; other site 363253003163 pyridoxal 5'-phosphate binding site [chemical binding]; other site 363253003164 catalytic residue [active] 363253003165 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 363253003166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003167 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 363253003168 TPR repeat; Region: TPR_11; pfam13414 363253003169 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 363253003170 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 363253003171 CcmB protein; Region: CcmB; cl01016 363253003172 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 363253003173 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 363253003174 Walker A/P-loop; other site 363253003175 ATP binding site [chemical binding]; other site 363253003176 Q-loop/lid; other site 363253003177 ABC transporter signature motif; other site 363253003178 Walker B; other site 363253003179 D-loop; other site 363253003180 H-loop/switch region; other site 363253003181 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 363253003182 CcmE; Region: CcmE; cl00994 363253003183 Domain of unknown function DUF21; Region: DUF21; pfam01595 363253003184 FOG: CBS domain [General function prediction only]; Region: COG0517 363253003185 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 363253003186 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 363253003187 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 363253003188 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 363253003189 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 363253003190 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 363253003191 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 363253003192 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 363253003193 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 363253003194 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 363253003195 putative translocon binding site; other site 363253003196 protein-rRNA interface [nucleotide binding]; other site 363253003197 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 363253003198 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 363253003199 G-X-X-G motif; other site 363253003200 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 363253003201 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 363253003202 23S rRNA interface [nucleotide binding]; other site 363253003203 5S rRNA interface [nucleotide binding]; other site 363253003204 putative antibiotic binding site [chemical binding]; other site 363253003205 L25 interface [polypeptide binding]; other site 363253003206 L27 interface [polypeptide binding]; other site 363253003207 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; cl09943 363253003208 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 363253003209 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 363253003210 KOW motif; Region: KOW; cl00354 363253003211 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 363253003212 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 363253003213 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 363253003214 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 363253003215 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 363253003216 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 363253003217 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 363253003218 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 363253003219 5S rRNA interface [nucleotide binding]; other site 363253003220 L27 interface [polypeptide binding]; other site 363253003221 23S rRNA interface [nucleotide binding]; other site 363253003222 L5 interface [polypeptide binding]; other site 363253003223 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 363253003224 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 363253003225 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 363253003226 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 363253003227 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 363253003228 SecY translocase; Region: SecY; pfam00344 363253003229 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 363253003230 active site 363253003231 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 363253003232 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 363253003233 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 363253003234 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 363253003235 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 363253003236 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 363253003237 RNA binding surface [nucleotide binding]; other site 363253003238 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 363253003239 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 363253003240 alphaNTD - beta interaction site [polypeptide binding]; other site 363253003241 alphaNTD homodimer interface [polypeptide binding]; other site 363253003242 alphaNTD - beta' interaction site [polypeptide binding]; other site 363253003243 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 363253003244 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 363253003245 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 363253003246 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 363253003247 Substrate binding site; other site 363253003248 Cupin domain; Region: Cupin_2; cl09118 363253003249 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 363253003250 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 363253003251 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 363253003252 dimer interface [polypeptide binding]; other site 363253003253 motif 1; other site 363253003254 active site 363253003255 motif 2; other site 363253003256 motif 3; other site 363253003257 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 363253003258 anticodon binding site; other site 363253003259 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 363253003260 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 363253003261 dimer interface [polypeptide binding]; other site 363253003262 anticodon binding site; other site 363253003263 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 363253003264 homodimer interface [polypeptide binding]; other site 363253003265 motif 1; other site 363253003266 active site 363253003267 motif 2; other site 363253003268 GAD domain; Region: GAD; pfam02938 363253003269 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 363253003270 active site 363253003271 motif 3; other site 363253003272 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 363253003273 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 363253003274 Walker A/P-loop; other site 363253003275 ATP binding site [chemical binding]; other site 363253003276 Q-loop/lid; other site 363253003277 ABC transporter signature motif; other site 363253003278 Walker B; other site 363253003279 D-loop; other site 363253003280 H-loop/switch region; other site 363253003281 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 363253003282 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 363253003283 Ligand binding site; other site 363253003284 oligomer interface; other site 363253003285 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 363253003286 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 363253003287 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 363253003288 catalytic site [active] 363253003289 subunit interface [polypeptide binding]; other site 363253003290 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 363253003291 TPR motif; other site 363253003292 binding surface 363253003293 TPR repeat; Region: TPR_11; pfam13414 363253003294 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 363253003295 binding surface 363253003296 TPR motif; other site 363253003297 TPR repeat; Region: TPR_11; pfam13414 363253003298 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 363253003299 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 363253003300 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 363253003301 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 363253003302 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 363253003303 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 363253003304 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 363253003305 adenylosuccinate lyase; Provisional; Region: PRK07492 363253003306 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 363253003307 tetramer interface [polypeptide binding]; other site 363253003308 active site 363253003309 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 363253003310 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 363253003311 active site 363253003312 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 363253003313 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 363253003314 Cytochrome c552; Region: Cytochrom_C552; pfam02335 363253003315 aspartate kinase; Reviewed; Region: PRK06635 363253003316 AAK_AK-DapG-like: Amino Acid Kinase Superfamily (AAK), AK-DapG-like; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the diaminopimelate-sensitive aspartokinase isoenzyme AKI (DapG), a monofunctional enzymes found in Bacilli; Region: AAK_AK-DapG-like; cd04246 363253003317 putative catalytic residues [active] 363253003318 putative nucleotide binding site [chemical binding]; other site 363253003319 putative aspartate binding site [chemical binding]; other site 363253003320 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 363253003321 putative allosteric regulatory site; other site 363253003322 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 363253003323 putative allosteric regulatory residue; other site 363253003324 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 363253003325 tRNA pseudouridine synthase B; Provisional; Region: PRK14124 363253003326 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 363253003327 RNA binding site [nucleotide binding]; other site 363253003328 active site 363253003329 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 363253003330 16S/18S rRNA binding site [nucleotide binding]; other site 363253003331 S13e-L30e interaction site [polypeptide binding]; other site 363253003332 25S rRNA binding site [nucleotide binding]; other site 363253003333 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 363253003334 polyribonucleotide nucleotidyltransferase; Region: polynuc_phos; TIGR03591 363253003335 RNase E interface [polypeptide binding]; other site 363253003336 trimer interface [polypeptide binding]; other site 363253003337 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 363253003338 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 363253003339 RNase E interface [polypeptide binding]; other site 363253003340 trimer interface [polypeptide binding]; other site 363253003341 active site 363253003342 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 363253003343 putative nucleic acid binding region [nucleotide binding]; other site 363253003344 G-X-X-G motif; other site 363253003345 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 363253003346 RNA binding site [nucleotide binding]; other site 363253003347 domain interface; other site 363253003348 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 363253003349 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 363253003350 GatB domain; Region: GatB_Yqey; cl11497 363253003351 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 363253003352 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 363253003353 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 363253003354 dimer interface [polypeptide binding]; other site 363253003355 active site 363253003356 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 363253003357 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 363253003358 domain interfaces; other site 363253003359 active site 363253003360 AAA domain; Region: AAA_32; pfam13654 363253003361 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 363253003362 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 363253003363 putative substrate translocation pore; other site 363253003364 Oligomerisation domain; Region: Oligomerisation; cl00519 363253003365 Sulfatase; Region: Sulfatase; cl10460 363253003366 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 363253003367 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 363253003368 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 363253003369 putative active site [active] 363253003370 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 363253003371 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 363253003372 active site 363253003373 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 363253003374 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 363253003375 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 363253003376 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 363253003377 trimer interface [polypeptide binding]; other site 363253003378 active site 363253003379 UDP-GlcNAc binding site [chemical binding]; other site 363253003380 lipid binding site [chemical binding]; lipid-binding site 363253003381 periplasmic chaperone; Provisional; Region: PRK10780 363253003382 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 363253003383 TPR repeat; Region: TPR_11; pfam13414 363253003384 Tetratricopeptide repeat; Region: TPR_6; pfam13174 363253003385 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 363253003386 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 363253003387 active site 363253003388 metal binding site [ion binding]; metal-binding site 363253003389 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 363253003390 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 363253003391 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 363253003392 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 363253003393 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 363253003394 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 363253003395 Surface antigen; Region: Bac_surface_Ag; cl03097 363253003396 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 363253003397 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 363253003398 Walker A/P-loop; other site 363253003399 ATP binding site [chemical binding]; other site 363253003400 Q-loop/lid; other site 363253003401 ABC transporter signature motif; other site 363253003402 Walker B; other site 363253003403 D-loop; other site 363253003404 H-loop/switch region; other site 363253003405 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 363253003406 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 363253003407 FtsX-like permease family; Region: FtsX; cl15850 363253003408 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 363253003409 dimer interface [polypeptide binding]; other site 363253003410 putative anticodon binding site; other site 363253003411 tRNA synthetases class II (D, K and N); Region: tRNA-synt_2; pfam00152 363253003412 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 363253003413 motif 1; other site 363253003414 active site 363253003415 motif 2; other site 363253003416 motif 3; other site 363253003417 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 363253003418 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 363253003419 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 363253003420 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 363253003421 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 363253003422 dimer interface [polypeptide binding]; other site 363253003423 conserved gate region; other site 363253003424 putative PBP binding loops; other site 363253003425 ABC-ATPase subunit interface; other site 363253003426 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 363253003427 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 363253003428 Walker A/P-loop; other site 363253003429 ATP binding site [chemical binding]; other site 363253003430 Q-loop/lid; other site 363253003431 ABC transporter signature motif; other site 363253003432 Walker B; other site 363253003433 D-loop; other site 363253003434 H-loop/switch region; other site 363253003435 Tir chaperone protein (CesT) family; Region: CesT; cl08444 363253003436 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 363253003437 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 363253003438 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003439 Protein of unknown function (DUF330); Region: DUF330; cl01135 363253003440 mce related protein; Region: MCE; pfam02470 363253003441 paraquat-inducible protein B; Provisional; Region: PRK10807 363253003442 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 363253003443 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 363253003444 Walker A/P-loop; other site 363253003445 ATP binding site [chemical binding]; other site 363253003446 Q-loop/lid; other site 363253003447 ABC transporter signature motif; other site 363253003448 Walker B; other site 363253003449 D-loop; other site 363253003450 H-loop/switch region; other site 363253003451 Permease; Region: Permease; cl00510 363253003452 heat shock protein GrpE; Provisional; Region: PRK14140 363253003453 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 363253003454 dimer interface [polypeptide binding]; other site 363253003455 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 363253003456 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 363253003457 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 363253003458 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 363253003459 active site 363253003460 HIGH motif; other site 363253003461 nucleotide binding site [chemical binding]; other site 363253003462 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 363253003463 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 363253003464 active site 363253003465 KMSKS motif; other site 363253003466 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 363253003467 tRNA binding surface [nucleotide binding]; other site 363253003468 anticodon binding site; other site 363253003469 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 363253003470 lipoprotein signal peptidase; Provisional; Region: PRK14787 363253003471 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 363253003472 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 363253003473 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 363253003474 binding surface 363253003475 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 363253003476 TPR motif; other site 363253003477 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 363253003478 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 363253003479 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 363253003480 ATP synthase A chain; Region: ATP-synt_A; cl00413 363253003481 ATP synthase subunit C; Region: ATP-synt_C; cl00466 363253003482 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 363253003483 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 363253003484 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003485 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 363253003486 MgtE intracellular N domain; Region: MgtE_N; cl15244 363253003487 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 363253003488 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 363253003489 dimerization interface 3.5A [polypeptide binding]; other site 363253003490 active site 363253003491 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 363253003492 4Fe-4S binding domain; Region: Fer4; cl02805 363253003493 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 363253003494 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 363253003495 NADP binding site [chemical binding]; other site 363253003496 active site 363253003497 putative substrate binding site [chemical binding]; other site 363253003498 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 363253003499 dTDP-glucose 4,6-dehydratase; Region: dTDP_gluc_dehyt; TIGR01181 363253003500 NAD binding site [chemical binding]; other site 363253003501 substrate binding site [chemical binding]; other site 363253003502 homodimer interface [polypeptide binding]; other site 363253003503 active site 363253003504 Cobalt chelatase (CbiK); Region: CbiK; pfam06180 363253003505 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 363253003506 active site 363253003507 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 363253003508 active site 363253003509 Ribonuclease P; Region: Ribonuclease_P; cl00457 363253003510 membrane protein insertase; Provisional; Region: PRK01318 363253003511 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 363253003512 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 363253003513 G-X-X-G motif; other site 363253003514 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 363253003515 RxxxH motif; other site 363253003516 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 363253003517 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 363253003518 trmE is a tRNA modification GTPase; Region: trmE; cd04164 363253003519 G1 box; other site 363253003520 GTP/Mg2+ binding site [chemical binding]; other site 363253003521 Switch I region; other site 363253003522 G2 box; other site 363253003523 Switch II region; other site 363253003524 G3 box; other site 363253003525 G4 box; other site 363253003526 G5 box; other site 363253003527 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 363253003528 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 363253003529 putative active site [active] 363253003530 catalytic site [active] 363253003531 putative substrate binding site [chemical binding]; other site 363253003532 probable DNA repair protein; Region: TIGR03623 363253003533 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 363253003534 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 363253003535 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 363253003536 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 363253003537 FMN binding site [chemical binding]; other site 363253003538 substrate binding site [chemical binding]; other site 363253003539 putative catalytic residue [active] 363253003540 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 363253003541 glucokinase, proteobacterial type; Region: glk; TIGR00749 363253003542 SprA-related family; Region: SprA-related; pfam12118 363253003543 sensor protein ZraS; Provisional; Region: PRK10364 363253003544 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 363253003545 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 363253003546 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 363253003547 dimer interface [polypeptide binding]; other site 363253003548 phosphorylation site [posttranslational modification] 363253003549 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 363253003550 ATP binding site [chemical binding]; other site 363253003551 Mg2+ binding site [ion binding]; other site 363253003552 G-X-G motif; other site 363253003553 transcriptional regulatory protein ZraR; Provisional; Region: PRK10365 363253003554 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 363253003555 active site 363253003556 phosphorylation site [posttranslational modification] 363253003557 intermolecular recognition site; other site 363253003558 dimerization interface [polypeptide binding]; other site 363253003559 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 363253003560 Walker A motif; other site 363253003561 ATP binding site [chemical binding]; other site 363253003562 Walker B motif; other site 363253003563 arginine finger; other site 363253003564 Helix-turn-helix domains; Region: HTH; cl00088 363253003565 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 363253003566 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 363253003567 Walker A/P-loop; other site 363253003568 ATP binding site [chemical binding]; other site 363253003569 Q-loop/lid; other site 363253003570 ABC transporter signature motif; other site 363253003571 Walker B; other site 363253003572 D-loop; other site 363253003573 H-loop/switch region; other site 363253003574 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 363253003575 FeoA domain; Region: FeoA; cl00838 363253003576 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 363253003577 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 363253003578 G1 box; other site 363253003579 GTP/Mg2+ binding site [chemical binding]; other site 363253003580 Switch I region; other site 363253003581 G2 box; other site 363253003582 G3 box; other site 363253003583 Switch II region; other site 363253003584 G4 box; other site 363253003585 G5 box; other site 363253003586 Nucleoside recognition; Region: Gate; cl00486 363253003587 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 363253003588 Nucleoside recognition; Region: Gate; cl00486 363253003589 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 363253003590 Cysteine-rich domain; Region: CCG; pfam02754 363253003591 Cysteine-rich domain; Region: CCG; pfam02754 363253003592 anaerobic glycerol-3-phosphate dehydrogenase subunit B; Validated; Region: PRK05329 363253003593 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003594 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 363253003595 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 363253003596 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 363253003597 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG2263 363253003598 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 363253003599 S-adenosylmethionine binding site [chemical binding]; other site 363253003600 nickel responsive regulator; Provisional; Region: PRK04460 363253003601 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 363253003602 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 363253003603 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 363253003604 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 363253003605 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 363253003606 Walker A motif; other site 363253003607 ATP binding site [chemical binding]; other site 363253003608 Walker B motif; other site 363253003609 arginine finger; other site 363253003610 Helix-turn-helix domains; Region: HTH; cl00088 363253003611 DNA polymerase subunit Cdc27; Region: CDC27; pfam09507 363253003612 Tetratricopeptide repeat; Region: TPR_6; pfam13174 363253003613 Tetratricopeptide repeat; Region: TPR_16; pfam13432 363253003614 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 363253003615 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 363253003616 binding surface 363253003617 TPR motif; other site 363253003618 Tetratricopeptide repeat; Region: TPR_6; pfam13174 363253003619 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 363253003620 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 363253003621 Zn2+ binding site [ion binding]; other site 363253003622 Mg2+ binding site [ion binding]; other site 363253003623 pyruvate kinase; Provisional; Region: PRK05826 363253003624 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 363253003625 domain interfaces; other site 363253003626 active site 363253003627 cell division protein MraZ; Reviewed; Region: PRK00326 363253003628 MraZ protein; Region: MraZ; pfam02381 363253003629 MraZ protein; Region: MraZ; pfam02381 363253003630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003631 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 363253003632 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 363253003633 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 363253003634 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 363253003635 PASTA domain of PBP2x-like proteins, first 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_1; cd06576 363253003636 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 363253003637 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 363253003638 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 363253003639 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 363253003640 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 363253003641 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 363253003642 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 363253003643 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 363253003644 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 363253003645 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 363253003646 Mg++ binding site [ion binding]; other site 363253003647 putative catalytic motif [active] 363253003648 putative substrate binding site [chemical binding]; other site 363253003649 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 363253003650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003651 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 363253003652 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 363253003653 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 363253003654 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 363253003655 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 363253003656 active site 363253003657 homodimer interface [polypeptide binding]; other site 363253003658 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 363253003659 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 363253003660 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 363253003661 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 363253003662 UDP-N-acetylmuramate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: MurB; COG0812 363253003663 FAD binding domain; Region: FAD_binding_4; pfam01565 363253003664 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 363253003665 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 363253003666 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 363253003667 cell division protein FtsA; Region: ftsA; TIGR01174 363253003668 Cell division protein FtsA; Region: FtsA; cl11496 363253003669 Cell division protein FtsA; Region: FtsA; cl11496 363253003670 cell division protein FtsZ; Validated; Region: PRK09330 363253003671 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 363253003672 nucleotide binding site [chemical binding]; other site 363253003673 SulA interaction site; other site 363253003674 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 363253003675 putative active site [active] 363253003676 putative metal binding residues [ion binding]; other site 363253003677 signature motif; other site 363253003678 putative dimer interface [polypeptide binding]; other site 363253003679 putative phosphate binding site [ion binding]; other site 363253003680 DNA utilization protein GntX; Provisional; Region: PRK11595 363253003681 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 363253003682 active site 363253003683 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 363253003684 ornithine carbamoyltransferase; Provisional; Region: PRK00779 363253003685 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 363253003686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003687 periplasmic folding chaperone; Provisional; Region: PRK10788 363253003688 SurA N-terminal domain; Region: SurA_N_3; cl07813 363253003689 PPIC-type PPIASE domain; Region: Rotamase; cl08278 363253003690 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 363253003691 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 363253003692 active site 363253003693 phosphorylation site [posttranslational modification] 363253003694 intermolecular recognition site; other site 363253003695 dimerization interface [polypeptide binding]; other site 363253003696 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 363253003697 Walker A motif; other site 363253003698 ATP binding site [chemical binding]; other site 363253003699 Walker B motif; other site 363253003700 arginine finger; other site 363253003701 Helix-turn-helix domains; Region: HTH; cl00088 363253003702 hybrid cluster protein; Provisional; Region: PRK05290 363253003703 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 363253003704 ACS interaction site; other site 363253003705 CODH interaction site; other site 363253003706 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 363253003707 ACS interaction site; other site 363253003708 CODH interaction site; other site 363253003709 metal cluster binding site [ion binding]; other site 363253003710 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 363253003711 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 363253003712 active site 363253003713 phosphorylation site [posttranslational modification] 363253003714 intermolecular recognition site; other site 363253003715 dimerization interface [polypeptide binding]; other site 363253003716 LabA_like proteins; Region: LabA_like/DUF88; cl10034 363253003717 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 363253003718 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003719 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 363253003720 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 363253003721 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 363253003722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003723 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 363253003724 active site 363253003725 multimer interface [polypeptide binding]; other site 363253003726 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 363253003727 NodB motif; other site 363253003728 putative active site [active] 363253003729 putative catalytic site [active] 363253003730 Zn binding site [ion binding]; other site 363253003731 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 363253003732 C-terminal peptidase (prc); Region: prc; TIGR00225 363253003733 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 363253003734 protein binding site [polypeptide binding]; other site 363253003735 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 363253003736 Catalytic dyad [active] 363253003737 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 363253003738 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 363253003739 minor groove reading motif; other site 363253003740 helix-hairpin-helix signature motif; other site 363253003741 substrate binding pocket [chemical binding]; other site 363253003742 active site 363253003743 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 363253003744 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 363253003745 metal-binding site [ion binding] 363253003746 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 363253003747 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 363253003748 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 363253003749 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 363253003750 MatE; Region: MatE; cl10513 363253003751 MatE; Region: MatE; cl10513 363253003752 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 363253003753 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 363253003754 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 363253003755 Walker A/P-loop; other site 363253003756 ATP binding site [chemical binding]; other site 363253003757 Q-loop/lid; other site 363253003758 ABC transporter signature motif; other site 363253003759 Walker B; other site 363253003760 D-loop; other site 363253003761 H-loop/switch region; other site 363253003762 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 363253003763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003764 Preprotein translocase SecG subunit; Region: SecG; cl09123 363253003765 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 363253003766 substrate binding site [chemical binding]; other site 363253003767 dimer interface [polypeptide binding]; other site 363253003768 catalytic triad [active] 363253003769 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 363253003770 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 363253003771 Coenzyme A binding pocket [chemical binding]; other site 363253003772 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 363253003773 nudix motif; other site 363253003774 rod shape-determining protein MreB; Provisional; Region: PRK13930 363253003775 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 363253003776 Cell division protein FtsA; Region: FtsA; cl11496 363253003777 GAF domain; Region: GAF; cl15785 363253003778 GAF domain; Region: GAF_2; pfam13185 363253003779 GAF domain; Region: GAF_2; pfam13185 363253003780 GAF domain; Region: GAF; cl15785 363253003781 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 363253003782 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 363253003783 active site 363253003784 phosphorylation site [posttranslational modification] 363253003785 intermolecular recognition site; other site 363253003786 CheB methylesterase; Region: CheB_methylest; pfam01339 363253003787 HEAT repeats; Region: HEAT_2; pfam13646 363253003788 HEAT repeats; Region: HEAT_2; pfam13646 363253003789 HEAT repeats; Region: HEAT_2; pfam13646 363253003790 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 363253003791 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 363253003792 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 363253003793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003794 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 363253003795 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 363253003796 P-loop; other site 363253003797 Magnesium ion binding site [ion binding]; other site 363253003798 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 363253003799 Magnesium ion binding site [ion binding]; other site 363253003800 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 363253003801 Response regulator receiver domain; Region: Response_reg; pfam00072 363253003802 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 363253003803 active site 363253003804 phosphorylation site [posttranslational modification] 363253003805 intermolecular recognition site; other site 363253003806 dimerization interface [polypeptide binding]; other site 363253003807 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 363253003808 putative binding surface; other site 363253003809 active site 363253003810 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 363253003811 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 363253003812 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 363253003813 ATP binding site [chemical binding]; other site 363253003814 Mg2+ binding site [ion binding]; other site 363253003815 G-X-G motif; other site 363253003816 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 363253003817 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 363253003818 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 363253003819 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 363253003820 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 363253003821 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 363253003822 Walker A motif; other site 363253003823 ATP binding site [chemical binding]; other site 363253003824 Walker B motif; other site 363253003825 Helix-turn-helix domains; Region: HTH; cl00088 363253003826 HrpJ-like domain; Region: HrpJ; cl15454 363253003827 TyeA; Region: TyeA; cl07611 363253003828 pathogenicity island 2 chaperone protein SscA; Provisional; Region: PRK15363 363253003829 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 363253003830 binding surface 363253003831 TPR motif; other site 363253003832 Secretion system effector C (SseC) like family; Region: SseC; pfam04888 363253003833 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 363253003834 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 363253003835 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 363253003836 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 363253003837 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 363253003838 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 363253003839 type III secretion system protein; Reviewed; Region: PRK06937 363253003840 Flagellar assembly protein FliH; Region: FliH; pfam02108 363253003841 type III secretion system needle length determinant; Region: type_III_yscP; TIGR02514 363253003842 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 363253003843 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 363253003844 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 363253003845 anti sigma factor interaction site; other site 363253003846 regulatory phosphorylation site [posttranslational modification]; other site 363253003847 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 363253003848 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 363253003849 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 363253003850 N-acetyl-D-glucosamine binding site [chemical binding]; other site 363253003851 catalytic residue [active] 363253003852 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 363253003853 putative CheA interaction surface; other site 363253003854 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 363253003855 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 363253003856 active site 363253003857 metal binding site [ion binding]; metal-binding site 363253003858 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 363253003859 Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits...; Region: Prefoldin; cl09111 363253003860 Mechanosensitive ion channel; Region: MS_channel; pfam00924 363253003861 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 363253003862 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 363253003863 N-acetyl-D-glucosamine binding site [chemical binding]; other site 363253003864 catalytic residue [active] 363253003865 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 363253003866 4Fe-4S binding domain; Region: Fer4; cl02805 363253003867 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 363253003868 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 363253003869 Nitroreductase family. Members of this family utilize FMN as a cofactor. This family is involved in the reduction of flavin or nitroaromatic compounds by using NAD(P)H as electron donor in a obligatory two-electron transfer. Nitrogenase is homodimer; Region: NADH_nitroreductase; cd02143 363253003870 putative FMN binding site [chemical binding]; other site 363253003871 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 363253003872 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 363253003873 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 363253003874 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 363253003875 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 363253003876 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 363253003877 Walker A/P-loop; other site 363253003878 ATP binding site [chemical binding]; other site 363253003879 Q-loop/lid; other site 363253003880 ABC transporter signature motif; other site 363253003881 Walker B; other site 363253003882 D-loop; other site 363253003883 H-loop/switch region; other site 363253003884 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 363253003885 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 363253003886 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 363253003887 motif 1; other site 363253003888 active site 363253003889 motif 2; other site 363253003890 motif 3; other site 363253003891 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 363253003892 DHHA1 domain; Region: DHHA1; pfam02272 363253003893 recombinase A; Provisional; Region: recA; PRK09354 363253003894 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 363253003895 hexamer interface [polypeptide binding]; other site 363253003896 Walker A motif; other site 363253003897 ATP binding site [chemical binding]; other site 363253003898 Walker B motif; other site 363253003899 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 363253003900 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 363253003901 HIGH motif; other site 363253003902 active site 363253003903 KMSKS motif; other site 363253003904 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 363253003905 tRNA binding surface [nucleotide binding]; other site 363253003906 anticodon binding site; other site 363253003907 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 363253003908 dimer interface [polypeptide binding]; other site 363253003909 putative tRNA-binding site [nucleotide binding]; other site 363253003910 PSP1 C-terminal conserved region; Region: PSP1; cl00770 363253003911 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14602 363253003912 RuvA N terminal domain; Region: RuvA_N; pfam01330 363253003913 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 363253003914 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 363253003915 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 363253003916 Walker A motif; other site 363253003917 ATP binding site [chemical binding]; other site 363253003918 Walker B motif; other site 363253003919 arginine finger; other site 363253003920 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 363253003921 Thymidylate synthase complementing protein; Region: Thy1; cl03630 363253003922 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 363253003923 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 363253003924 DNA binding site [nucleotide binding] 363253003925 Int/Topo IB signature motif; other site 363253003926 active site 363253003927 Uncharacterized conserved protein [Function unknown]; Region: COG3347 363253003928 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 363253003929 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 363253003930 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 363253003931 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 363253003932 active site 363253003933 Substrate binding site; other site 363253003934 Mg++ binding site; other site 363253003935 D,D-heptose 1,7-bisphosphate phosphatase; Region: GmhB_yaeD; TIGR00213 363253003936 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 363253003937 active site 363253003938 motif I; other site 363253003939 motif II; other site 363253003940 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 363253003941 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 363253003942 active site 363253003943 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003945 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 363253003946 S-adenosylmethionine binding site [chemical binding]; other site 363253003947 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 363253003948 S-adenosylmethionine binding site [chemical binding]; other site 363253003949 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 363253003950 Radical SAM superfamily; Region: Radical_SAM; pfam04055 363253003951 FeS/SAM binding site; other site 363253003952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253003953 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 363253003954 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 363253003955 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 363253003956 FeS/SAM binding site; other site 363253003957 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 363253003958 dimer interface [polypeptide binding]; other site 363253003959 active site 363253003960 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 363253003961 DXD motif; other site 363253003962 Putative Catalytic site; other site 363253003963 UDP-glucose 4-epimerase; Region: PLN02240 363253003964 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 363253003965 NAD binding site [chemical binding]; other site 363253003966 homodimer interface [polypeptide binding]; other site 363253003967 active site 363253003968 substrate binding site [chemical binding]; other site 363253003969 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 363253003970 Ligand binding site; other site 363253003971 Putative Catalytic site; other site 363253003972 DXD motif; other site 363253003973 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 363253003974 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 363253003975 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 363253003976 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 363253003977 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 363253003978 P-loop; other site 363253003979 Magnesium ion binding site [ion binding]; other site 363253003980 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 363253003981 Magnesium ion binding site [ion binding]; other site 363253003982 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 363253003983 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 363253003984 non-specific DNA binding site [nucleotide binding]; other site 363253003985 salt bridge; other site 363253003986 sequence-specific DNA binding site [nucleotide binding]; other site 363253003987 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253003988 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 363253003989 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 363253003990 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253003991 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 363253003992 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 363253003993 active site 363253003994 dimer interface [polypeptide binding]; other site 363253003995 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 363253003996 Ligand Binding Site [chemical binding]; other site 363253003997 Molecular Tunnel; other site 363253003998 Catalytic domain of a putative polysaccharide deacetylase WbmS from Bordetella bronchiseptica and similar proteins; Region: CE4_WbmS; cd10920 363253003999 active site 363253004000 Zn binding site [ion binding]; other site 363253004001 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 363253004002 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 363253004003 S-adenosylmethionine binding site [chemical binding]; other site 363253004004 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 363253004005 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 363253004006 inhibitor-cofactor binding pocket; inhibition site 363253004007 pyridoxal 5'-phosphate binding site [chemical binding]; other site 363253004008 catalytic residue [active] 363253004009 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 363253004010 Radical SAM superfamily; Region: Radical_SAM; pfam04055 363253004011 FeS/SAM binding site; other site 363253004012 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 363253004013 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 363253004014 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 363253004015 putative trimer interface [polypeptide binding]; other site 363253004016 putative CoA binding site [chemical binding]; other site 363253004017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 363253004018 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 363253004019 S-adenosylmethionine binding site [chemical binding]; other site 363253004020 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 363253004021 S-adenosylmethionine binding site [chemical binding]; other site 363253004022 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 363253004023 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 363253004024 inhibitor-cofactor binding pocket; inhibition site 363253004025 pyridoxal 5'-phosphate binding site [chemical binding]; other site 363253004026 catalytic residue [active] 363253004027 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 363253004028 ATP-grasp domain; Region: ATP-grasp_4; cl03087 363253004029 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 363253004030 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 363253004031 FeS/SAM binding site; other site 363253004032 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 363253004033 MAEBL; Provisional; Region: PTZ00121 363253004034 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004035 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 363253004036 DNA binding site [nucleotide binding] 363253004037 Int/Topo IB signature motif; other site 363253004038 active site 363253004039 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 363253004040 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 363253004041 P-loop; other site 363253004042 Magnesium ion binding site [ion binding]; other site 363253004043 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 363253004044 Magnesium ion binding site [ion binding]; other site 363253004045 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 363253004046 DNA binding site [nucleotide binding] 363253004047 Int/Topo IB signature motif; other site 363253004048 active site 363253004049 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 363253004050 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 363253004051 Cupin domain; Region: Cupin_2; cl09118 363253004052 ABC-2 type transporter; Region: ABC2_membrane; cl11417 363253004053 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 363253004054 active site 363253004055 Rhamnan synthesis protein F; Region: RgpF; cl01529 363253004056 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 363253004057 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 363253004058 S-adenosylmethionine binding site [chemical binding]; other site 363253004059 WcbM_like is a subfamily of nucleotidyl transferases; Region: NTP_transferase_WcbM_like; cd06915 363253004060 Substrate binding site; other site 363253004061 Mg++ binding site; other site 363253004062 metal-binding site 363253004063 Mg++ binding site; other site 363253004064 metal-binding site 363253004065 Predicted kinase related to galactokinase and mevalonate kinase [General function prediction only]; Region: COG2605 363253004066 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 363253004067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253004068 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 363253004069 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 363253004070 classical (c) SDRs; Region: SDR_c; cd05233 363253004071 NAD(P) binding site [chemical binding]; other site 363253004072 active site 363253004073 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 363253004074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253004075 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 363253004076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253004077 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 363253004078 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 363253004079 catalytic residue [active] 363253004080 Histidinol phosphatase and related phosphatases [Amino acid transport and metabolism]; Region: HisB; COG0241 363253004081 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 363253004082 active site 363253004083 motif I; other site 363253004084 motif II; other site 363253004085 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 363253004086 dimer interface [polypeptide binding]; other site 363253004087 active site 363253004088 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 363253004089 UDP-glucose 4 epimerase, subgroup 2, extended (e) SDRs; Region: UDP_G4E_2_SDR_e; cd05234 363253004090 NAD binding site [chemical binding]; other site 363253004091 homodimer interface [polypeptide binding]; other site 363253004092 active site 363253004093 putative substrate binding site [chemical binding]; other site 363253004094 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 363253004095 Ligand binding site; other site 363253004096 Putative Catalytic site; other site 363253004097 DXD motif; other site 363253004098 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 363253004099 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 363253004100 non-specific DNA binding site [nucleotide binding]; other site 363253004101 salt bridge; other site 363253004102 sequence-specific DNA binding site [nucleotide binding]; other site 363253004103 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 363253004104 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 363253004105 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 363253004106 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 363253004107 N-acetyl-D-glucosamine binding site [chemical binding]; other site 363253004108 catalytic residue [active] 363253004109 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004110 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 363253004111 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 363253004112 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004113 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 363253004114 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004115 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004116 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004117 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004118 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004119 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004120 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004121 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004122 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004123 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004124 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004125 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 363253004126 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004127 Arenavirus RNA polymerase; Region: Arena_RNA_pol; pfam06317 363253004128 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004129 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004130 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004131 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004132 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 363253004133 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 363253004134 P-loop; other site 363253004135 Magnesium ion binding site [ion binding]; other site 363253004136 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 363253004137 Magnesium ion binding site [ion binding]; other site 363253004138 Helix-turn-helix domains; Region: HTH; cl00088 363253004139 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004140 Mu-like prophage I protein [General function prediction only]; Region: COG4388 363253004141 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 363253004142 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 363253004143 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 363253004144 Domain of unknown function (DUF1834); Region: DUF1834; cl02087 363253004145 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 363253004146 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 363253004147 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 363253004148 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 363253004149 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 363253004150 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 363253004151 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 363253004152 homotrimer interaction site [polypeptide binding]; other site 363253004153 putative active site [active] 363253004154 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 363253004155 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 363253004156 NADP binding site [chemical binding]; other site 363253004157 active site 363253004158 putative substrate binding site [chemical binding]; other site 363253004159 replicative DNA helicase; Region: DnaB; TIGR00665 363253004160 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 363253004161 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 363253004162 Walker A motif; other site 363253004163 ATP binding site [chemical binding]; other site 363253004164 Walker B motif; other site 363253004165 DNA binding loops [nucleotide binding] 363253004166 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 363253004167 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 363253004168 NADP-binding site; other site 363253004169 homotetramer interface [polypeptide binding]; other site 363253004170 substrate binding site [chemical binding]; other site 363253004171 homodimer interface [polypeptide binding]; other site 363253004172 active site 363253004173 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 363253004174 non-specific DNA binding site [nucleotide binding]; other site 363253004175 salt bridge; other site 363253004176 sequence-specific DNA binding site [nucleotide binding]; other site 363253004177 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 363253004178 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 363253004179 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 363253004180 active site 363253004181 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 363253004182 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 363253004183 Probable Catalytic site; other site 363253004184 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 363253004185 Phage protein GP46; Region: GP46; cl01814 363253004186 Baseplate J-like protein; Region: Baseplate_J; cl01294 363253004187 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 363253004188 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 363253004189 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 363253004190 putative substrate translocation pore; other site 363253004191 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 363253004192 phosphodiesterase; Provisional; Region: PRK12704 363253004193 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 363253004194 PhoPQ-activated pathogenicity-related protein; Region: PhoPQ_related; cl01750 363253004195 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 363253004196 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 363253004197 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253004198 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 363253004199 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 363253004200 putative trimer interface [polypeptide binding]; other site 363253004201 putative active site [active] 363253004202 putative substrate binding site [chemical binding]; other site 363253004203 putative CoA binding site [chemical binding]; other site 363253004204 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 363253004205 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 363253004206 inhibitor-cofactor binding pocket; inhibition site 363253004207 pyridoxal 5'-phosphate binding site [chemical binding]; other site 363253004208 catalytic residue [active] 363253004209 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 363253004210 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 363253004211 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 363253004212 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 363253004213 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 363253004214 dimer interface [polypeptide binding]; other site 363253004215 putative CheW interface [polypeptide binding]; other site 363253004216 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 363253004217 Haem-binding domain; Region: Haem_bd; pfam14376 363253004218 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 363253004219 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 363253004220 dimerization interface [polypeptide binding]; other site 363253004221 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 363253004222 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 363253004223 dimer interface [polypeptide binding]; other site 363253004224 putative CheW interface [polypeptide binding]; other site 363253004225 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 363253004226 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931