-- dump date 20140620_032221 -- class Genbank::misc_feature -- table misc_feature_note -- id note 648757000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 648757000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 648757000003 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 648757000004 Walker A motif; other site 648757000005 ATP binding site [chemical binding]; other site 648757000006 Walker B motif; other site 648757000007 arginine finger; other site 648757000008 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 648757000009 DnaA box-binding interface [nucleotide binding]; other site 648757000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 648757000011 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 648757000012 putative DNA binding surface [nucleotide binding]; other site 648757000013 dimer interface [polypeptide binding]; other site 648757000014 beta-clamp/clamp loader binding surface; other site 648757000015 beta-clamp/translesion DNA polymerase binding surface; other site 648757000016 recombination protein F; Reviewed; Region: recF; PRK00064 648757000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757000018 Walker A/P-loop; other site 648757000019 ATP binding site [chemical binding]; other site 648757000020 Q-loop/lid; other site 648757000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757000022 ABC transporter signature motif; other site 648757000023 Walker B; other site 648757000024 D-loop; other site 648757000025 H-loop/switch region; other site 648757000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 648757000027 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 648757000028 Mg2+ binding site [ion binding]; other site 648757000029 G-X-G motif; other site 648757000030 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 648757000031 anchoring element; other site 648757000032 dimer interface [polypeptide binding]; other site 648757000033 ATP binding site [chemical binding]; other site 648757000034 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 648757000035 active site 648757000036 putative metal-binding site [ion binding]; other site 648757000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 648757000038 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 648757000039 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 648757000040 hexamer interface [polypeptide binding]; other site 648757000041 metal binding site [ion binding]; metal-binding site 648757000042 substrate binding site [chemical binding]; other site 648757000043 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 648757000044 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 648757000045 Walker A motif; other site 648757000046 ATP binding site [chemical binding]; other site 648757000047 Walker B motif; other site 648757000048 arginine finger; other site 648757000049 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 648757000050 multimerization interface [polypeptide binding]; other site 648757000051 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 648757000052 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 648757000053 homodimer interface [polypeptide binding]; other site 648757000054 active site 648757000055 heterodimer interface [polypeptide binding]; other site 648757000056 catalytic residue [active] 648757000057 metal binding site [ion binding]; metal-binding site 648757000058 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 648757000059 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 648757000060 TPP-binding site [chemical binding]; other site 648757000061 dimer interface [polypeptide binding]; other site 648757000062 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 648757000063 PYR/PP interface [polypeptide binding]; other site 648757000064 dimer interface [polypeptide binding]; other site 648757000065 TPP binding site [chemical binding]; other site 648757000066 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 648757000067 phosphoribulokinase; Provisional; Region: PRK15453 648757000068 active site 648757000069 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 648757000070 metal binding site [ion binding]; metal-binding site 648757000071 active site 648757000072 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 648757000073 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 648757000074 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 648757000075 putative dimerization interface [polypeptide binding]; other site 648757000076 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 648757000077 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 648757000078 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 648757000079 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 648757000080 DNA binding site [nucleotide binding] 648757000081 active site 648757000082 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 648757000083 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 648757000084 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757000085 catalytic residue [active] 648757000086 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 648757000087 dimerization interface [polypeptide binding]; other site 648757000088 putative DNA binding site [nucleotide binding]; other site 648757000089 putative Zn2+ binding site [ion binding]; other site 648757000090 Methyltransferase domain; Region: Methyltransf_31; pfam13847 648757000091 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 648757000092 S-adenosylmethionine binding site [chemical binding]; other site 648757000093 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 648757000094 FAD binding site [chemical binding]; other site 648757000095 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 648757000096 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 648757000097 Uncharacterized conserved protein [Function unknown]; Region: COG2308 648757000098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 648757000099 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 648757000100 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 648757000101 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 648757000102 NAD(P) binding site [chemical binding]; other site 648757000103 homotetramer interface [polypeptide binding]; other site 648757000104 homodimer interface [polypeptide binding]; other site 648757000105 active site 648757000106 putative acyltransferase; Provisional; Region: PRK05790 648757000107 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 648757000108 dimer interface [polypeptide binding]; other site 648757000109 active site 648757000110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 648757000111 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 648757000112 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 648757000113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 648757000114 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 648757000115 NAD(P) binding site [chemical binding]; other site 648757000116 active site 648757000117 Homeodomain-like domain; Region: HTH_23; pfam13384 648757000118 Winged helix-turn helix; Region: HTH_29; pfam13551 648757000119 Homeodomain-like domain; Region: HTH_32; pfam13565 648757000120 DDE superfamily endonuclease; Region: DDE_3; pfam13358 648757000121 putative glycosyl transferase; Provisional; Region: PRK10307 648757000122 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 648757000123 glycine dehydrogenase subunit 2; Validated; Region: PRK04366 648757000124 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757000125 catalytic residue [active] 648757000126 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 648757000127 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 648757000128 tetramer interface [polypeptide binding]; other site 648757000129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757000130 catalytic residue [active] 648757000131 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 648757000132 lipoyl attachment site [posttranslational modification]; other site 648757000133 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 648757000134 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 648757000135 6-hydroxycyclohex-1-ene-1-carboxyl-CoA dehydrogenase, N-benzyl-3-pyrrolidinol dehydrogenase, and other MDR family members; Region: hydroxyacyl_CoA_DH; cd08254 648757000136 6-hydroxycyclohex-1-ene-1-carbonyl-CoA dehydrogenase; Region: dearomat_had; TIGR03201 648757000137 putative NAD(P) binding site [chemical binding]; other site 648757000138 catalytic Zn binding site [ion binding]; other site 648757000139 structural Zn binding site [ion binding]; other site 648757000140 6-oxocyclohex-1-ene-1-carbonyl-CoA hydrolase; Region: dearomat_oah; TIGR03200 648757000141 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 648757000142 substrate binding site [chemical binding]; other site 648757000143 oxyanion hole (OAH) forming residues; other site 648757000144 trimer interface [polypeptide binding]; other site 648757000145 cyclohexa-1,5-dienecarbonyl-CoA hydratase; Region: dienoyl_CoA_hyt; TIGR03189 648757000146 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 648757000147 substrate binding site [chemical binding]; other site 648757000148 oxyanion hole (OAH) forming residues; other site 648757000149 trimer interface [polypeptide binding]; other site 648757000150 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 648757000151 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 648757000152 benzoyl-CoA reductase, bcr type, subunit B; Region: benz_CoA_red_B; TIGR02260 648757000153 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 648757000154 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 648757000155 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 648757000156 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 648757000157 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 648757000158 NAD(P) binding site [chemical binding]; other site 648757000159 active site 648757000160 Rrf2 family protein; Region: rrf2_super; TIGR00738 648757000161 Transcriptional regulator; Region: Rrf2; pfam02082 648757000162 putative acetyltransferase; Provisional; Region: PRK03624 648757000163 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 648757000164 Coenzyme A binding pocket [chemical binding]; other site 648757000165 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 648757000166 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 648757000167 acyl-activating enzyme (AAE) consensus motif; other site 648757000168 AMP binding site [chemical binding]; other site 648757000169 active site 648757000170 CoA binding site [chemical binding]; other site 648757000171 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 648757000172 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 648757000173 dimer interface [polypeptide binding]; other site 648757000174 active site 648757000175 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 648757000176 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 648757000177 Walker A/P-loop; other site 648757000178 ATP binding site [chemical binding]; other site 648757000179 Q-loop/lid; other site 648757000180 ABC transporter signature motif; other site 648757000181 Walker B; other site 648757000182 D-loop; other site 648757000183 H-loop/switch region; other site 648757000184 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 648757000185 cobalt transport protein CbiM; Validated; Region: PRK06265 648757000186 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 648757000187 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 648757000188 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 648757000189 nickel responsive regulator; Provisional; Region: PRK02967 648757000190 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 648757000191 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 648757000192 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 648757000193 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 648757000194 S-adenosylmethionine binding site [chemical binding]; other site 648757000195 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 648757000196 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 648757000197 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 648757000198 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 648757000199 HIGH motif; other site 648757000200 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 648757000201 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 648757000202 active site 648757000203 KMSKS motif; other site 648757000204 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 648757000205 tRNA binding surface [nucleotide binding]; other site 648757000206 anticodon binding site; other site 648757000207 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 648757000208 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 648757000209 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 648757000210 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 648757000211 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 648757000212 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 648757000213 P-loop; other site 648757000214 Magnesium ion binding site [ion binding]; other site 648757000215 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757000216 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 648757000217 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 648757000218 active site 648757000219 DNA binding site [nucleotide binding] 648757000220 Int/Topo IB signature motif; other site 648757000221 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 648757000222 active site 648757000223 intersubunit interactions; other site 648757000224 catalytic residue [active] 648757000225 thiamine pyrophosphate protein; Validated; Region: PRK08199 648757000226 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 648757000227 PYR/PP interface [polypeptide binding]; other site 648757000228 dimer interface [polypeptide binding]; other site 648757000229 TPP binding site [chemical binding]; other site 648757000230 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 648757000231 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 648757000232 TPP-binding site [chemical binding]; other site 648757000233 Domain of unknown function (DUF336); Region: DUF336; cl01249 648757000234 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 648757000235 Peptidase M15; Region: Peptidase_M15_3; cl01194 648757000236 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 648757000237 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 648757000238 active site 648757000239 Zn binding site [ion binding]; other site 648757000240 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 648757000241 ABC1 family; Region: ABC1; cl17513 648757000242 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 648757000243 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 648757000244 RNase E interface [polypeptide binding]; other site 648757000245 trimer interface [polypeptide binding]; other site 648757000246 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 648757000247 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 648757000248 RNase E interface [polypeptide binding]; other site 648757000249 trimer interface [polypeptide binding]; other site 648757000250 active site 648757000251 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 648757000252 putative nucleic acid binding region [nucleotide binding]; other site 648757000253 G-X-X-G motif; other site 648757000254 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 648757000255 RNA binding site [nucleotide binding]; other site 648757000256 domain interface; other site 648757000257 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 648757000258 16S/18S rRNA binding site [nucleotide binding]; other site 648757000259 S13e-L30e interaction site [polypeptide binding]; other site 648757000260 25S rRNA binding site [nucleotide binding]; other site 648757000261 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 648757000262 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 648757000263 RNA binding site [nucleotide binding]; other site 648757000264 active site 648757000265 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 648757000266 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 648757000267 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 648757000268 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 648757000269 active site 648757000270 HIGH motif; other site 648757000271 dimer interface [polypeptide binding]; other site 648757000272 KMSKS motif; other site 648757000273 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 648757000274 RNA binding surface [nucleotide binding]; other site 648757000275 Protein of unknown function; Region: DUF3971; pfam13116 648757000276 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 648757000277 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 648757000278 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 648757000279 catalytic triad [active] 648757000280 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 648757000281 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 648757000282 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 648757000283 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 648757000284 RNA/DNA hybrid binding site [nucleotide binding]; other site 648757000285 active site 648757000286 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 648757000287 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 648757000288 FeS/SAM binding site; other site 648757000289 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 648757000290 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 648757000291 Probable Catalytic site; other site 648757000292 Uncharacterized protein conserved in bacteria (DUF2064); Region: DUF2064; cl17492 648757000293 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 648757000294 putative substrate translocation pore; other site 648757000295 Major Facilitator Superfamily; Region: MFS_1; pfam07690 648757000296 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 648757000297 nudix motif; other site 648757000298 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 648757000299 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 648757000300 dimerization interface [polypeptide binding]; other site 648757000301 DPS ferroxidase diiron center [ion binding]; other site 648757000302 ion pore; other site 648757000303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 648757000304 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 648757000305 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 648757000306 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 648757000307 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757000308 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 648757000309 L-aspartate oxidase; Provisional; Region: PRK06175 648757000310 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 648757000311 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 648757000312 putative SdhC subunit interface [polypeptide binding]; other site 648757000313 putative proximal heme binding site [chemical binding]; other site 648757000314 putative Iron-sulfur protein interface [polypeptide binding]; other site 648757000315 putative proximal quinone binding site; other site 648757000316 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 648757000317 Iron-sulfur protein interface; other site 648757000318 proximal quinone binding site [chemical binding]; other site 648757000319 SdhD (CybS) interface [polypeptide binding]; other site 648757000320 proximal heme binding site [chemical binding]; other site 648757000321 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 648757000322 putative active site [active] 648757000323 putative catalytic site [active] 648757000324 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 648757000325 putative active site [active] 648757000326 putative catalytic site [active] 648757000327 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 648757000328 MoaE interaction surface [polypeptide binding]; other site 648757000329 MoeB interaction surface [polypeptide binding]; other site 648757000330 thiocarboxylated glycine; other site 648757000331 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 648757000332 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 648757000333 dimer interface [polypeptide binding]; other site 648757000334 motif 1; other site 648757000335 active site 648757000336 motif 2; other site 648757000337 motif 3; other site 648757000338 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 648757000339 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 648757000340 metal binding site [ion binding]; metal-binding site 648757000341 dimer interface [polypeptide binding]; other site 648757000342 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 648757000343 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 648757000344 GDP-binding site [chemical binding]; other site 648757000345 ACT binding site; other site 648757000346 IMP binding site; other site 648757000347 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 648757000348 EamA-like transporter family; Region: EamA; pfam00892 648757000349 EamA-like transporter family; Region: EamA; pfam00892 648757000350 Protein of unknown function (DUF466); Region: DUF466; pfam04328 648757000351 carbon starvation protein A; Provisional; Region: PRK15015 648757000352 Carbon starvation protein CstA; Region: CstA; pfam02554 648757000353 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 648757000354 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 648757000355 MutS domain I; Region: MutS_I; pfam01624 648757000356 MutS domain II; Region: MutS_II; pfam05188 648757000357 MutS domain III; Region: MutS_III; pfam05192 648757000358 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 648757000359 Walker A/P-loop; other site 648757000360 ATP binding site [chemical binding]; other site 648757000361 Q-loop/lid; other site 648757000362 ABC transporter signature motif; other site 648757000363 Walker B; other site 648757000364 D-loop; other site 648757000365 H-loop/switch region; other site 648757000366 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 648757000367 S-adenosylmethionine binding site [chemical binding]; other site 648757000368 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 648757000369 PAS domain; Region: PAS_9; pfam13426 648757000370 putative active site [active] 648757000371 heme pocket [chemical binding]; other site 648757000372 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 648757000373 Histidine kinase; Region: HisKA_2; pfam07568 648757000374 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 648757000375 ATP binding site [chemical binding]; other site 648757000376 Mg2+ binding site [ion binding]; other site 648757000377 G-X-G motif; other site 648757000378 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 648757000379 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 648757000380 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 648757000381 putative active site [active] 648757000382 putative catalytic site [active] 648757000383 MraW methylase family; Region: Methyltransf_5; cl17771 648757000384 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 648757000385 cell division protein MraZ; Reviewed; Region: PRK00326 648757000386 MraZ protein; Region: MraZ; pfam02381 648757000387 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 648757000388 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 648757000389 acyl-activating enzyme (AAE) consensus motif; other site 648757000390 putative AMP binding site [chemical binding]; other site 648757000391 putative active site [active] 648757000392 putative CoA binding site [chemical binding]; other site 648757000393 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 648757000394 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 648757000395 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 648757000396 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 648757000397 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 648757000398 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 648757000399 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757000400 Walker A/P-loop; other site 648757000401 ATP binding site [chemical binding]; other site 648757000402 Q-loop/lid; other site 648757000403 ABC transporter signature motif; other site 648757000404 Walker B; other site 648757000405 D-loop; other site 648757000406 H-loop/switch region; other site 648757000407 TOBE domain; Region: TOBE; pfam03459 648757000408 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 648757000409 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 648757000410 dimer interface [polypeptide binding]; other site 648757000411 conserved gate region; other site 648757000412 putative PBP binding loops; other site 648757000413 ABC-ATPase subunit interface; other site 648757000414 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 648757000415 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 648757000416 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 648757000417 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 648757000418 TOBE domain; Region: TOBE; cl01440 648757000419 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 648757000420 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 648757000421 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 648757000422 acyl-activating enzyme (AAE) consensus motif; other site 648757000423 putative AMP binding site [chemical binding]; other site 648757000424 putative active site [active] 648757000425 putative CoA binding site [chemical binding]; other site 648757000426 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 648757000427 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 648757000428 heme binding pocket [chemical binding]; other site 648757000429 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 648757000430 domain interactions; other site 648757000431 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 648757000432 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 648757000433 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 648757000434 heterotetramer interface [polypeptide binding]; other site 648757000435 active site pocket [active] 648757000436 cleavage site 648757000437 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 648757000438 active site 648757000439 8-oxo-dGMP binding site [chemical binding]; other site 648757000440 nudix motif; other site 648757000441 metal binding site [ion binding]; metal-binding site 648757000442 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 648757000443 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 648757000444 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 648757000445 SEC-C motif; Region: SEC-C; pfam02810 648757000446 Transglycosylase SLT domain; Region: SLT_2; pfam13406 648757000447 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 648757000448 N-acetyl-D-glucosamine binding site [chemical binding]; other site 648757000449 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 648757000450 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 648757000451 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 648757000452 ATP binding site [chemical binding]; other site 648757000453 substrate interface [chemical binding]; other site 648757000454 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 648757000455 Coenzyme A binding pocket [chemical binding]; other site 648757000456 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 648757000457 PAS domain; Region: PAS_5; pfam07310 648757000458 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 648757000459 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 648757000460 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 648757000461 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 648757000462 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 648757000463 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 648757000464 active site 648757000465 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 648757000466 catalytic triad [active] 648757000467 dimer interface [polypeptide binding]; other site 648757000468 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 648757000469 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 648757000470 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 648757000471 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 648757000472 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 648757000473 TPR repeat; Region: TPR_11; pfam13414 648757000474 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 648757000475 MG2 domain; Region: A2M_N; pfam01835 648757000476 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 648757000477 surface patch; other site 648757000478 thioester region; other site 648757000479 specificity defining residues; other site 648757000480 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 648757000481 Transglycosylase; Region: Transgly; pfam00912 648757000482 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 648757000483 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 648757000484 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 648757000485 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 648757000486 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 648757000487 PAS fold; Region: PAS_3; pfam08447 648757000488 putative active site [active] 648757000489 heme pocket [chemical binding]; other site 648757000490 PAS domain S-box; Region: sensory_box; TIGR00229 648757000491 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 648757000492 putative active site [active] 648757000493 heme pocket [chemical binding]; other site 648757000494 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 648757000495 PAS domain; Region: PAS_9; pfam13426 648757000496 putative active site [active] 648757000497 heme pocket [chemical binding]; other site 648757000498 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 648757000499 dimer interface [polypeptide binding]; other site 648757000500 phosphorylation site [posttranslational modification] 648757000501 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 648757000502 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 648757000503 ATP binding site [chemical binding]; other site 648757000504 Mg2+ binding site [ion binding]; other site 648757000505 G-X-G motif; other site 648757000506 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 648757000507 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 648757000508 active site 648757000509 phosphorylation site [posttranslational modification] 648757000510 intermolecular recognition site; other site 648757000511 dimerization interface [polypeptide binding]; other site 648757000512 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 648757000513 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 648757000514 active site 648757000515 phosphorylation site [posttranslational modification] 648757000516 intermolecular recognition site; other site 648757000517 dimerization interface [polypeptide binding]; other site 648757000518 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 648757000519 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 648757000520 substrate binding pocket [chemical binding]; other site 648757000521 chain length determination region; other site 648757000522 substrate-Mg2+ binding site; other site 648757000523 catalytic residues [active] 648757000524 aspartate-rich region 1; other site 648757000525 active site lid residues [active] 648757000526 aspartate-rich region 2; other site 648757000527 Transglycosylase; Region: Transgly; cl17702 648757000528 Ferredoxin [Energy production and conversion]; Region: COG1146 648757000529 4Fe-4S binding domain; Region: Fer4; pfam00037 648757000530 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 648757000531 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 648757000532 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 648757000533 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 648757000534 RNA binding surface [nucleotide binding]; other site 648757000535 Lycopene cyclase protein; Region: Lycopene_cycl; pfam05834 648757000536 lycopene cyclase; Region: lycopene_cycl; TIGR01789 648757000537 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 648757000538 active site lid residues [active] 648757000539 substrate binding pocket [chemical binding]; other site 648757000540 catalytic residues [active] 648757000541 substrate-Mg2+ binding site; other site 648757000542 aspartate-rich region 1; other site 648757000543 aspartate-rich region 2; other site 648757000544 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 648757000545 Coenzyme A binding pocket [chemical binding]; other site 648757000546 beta-carotene hydroxylase; Region: PLN02601 648757000547 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 648757000548 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 648757000549 substrate binding pocket [chemical binding]; other site 648757000550 chain length determination region; other site 648757000551 substrate-Mg2+ binding site; other site 648757000552 catalytic residues [active] 648757000553 aspartate-rich region 1; other site 648757000554 active site lid residues [active] 648757000555 aspartate-rich region 2; other site 648757000556 Uncharacterized conserved protein [Function unknown]; Region: COG5470 648757000557 phytoene desaturase; Region: crtI_fam; TIGR02734 648757000558 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 648757000559 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 648757000560 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 648757000561 homodimer interface [polypeptide binding]; other site 648757000562 substrate-cofactor binding pocket; other site 648757000563 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757000564 catalytic residue [active] 648757000565 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 648757000566 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 648757000567 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 648757000568 S-adenosylmethionine binding site [chemical binding]; other site 648757000569 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 648757000570 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 648757000571 malonyl-CoA binding site [chemical binding]; other site 648757000572 dimer interface [polypeptide binding]; other site 648757000573 active site 648757000574 product binding site; other site 648757000575 Transglycosylase SLT domain; Region: SLT_2; pfam13406 648757000576 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 648757000577 N-acetyl-D-glucosamine binding site [chemical binding]; other site 648757000578 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 648757000579 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 648757000580 classical (c) SDRs; Region: SDR_c; cd05233 648757000581 NAD(P) binding site [chemical binding]; other site 648757000582 active site 648757000583 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 648757000584 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 648757000585 substrate binding pocket [chemical binding]; other site 648757000586 membrane-bound complex binding site; other site 648757000587 hinge residues; other site 648757000588 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 648757000589 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 648757000590 DXD motif; other site 648757000591 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 648757000592 AAA-like domain; Region: AAA_10; pfam12846 648757000593 Domain of unknown function DUF87; Region: DUF87; pfam01935 648757000594 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 648757000595 active site 648757000596 metal binding site [ion binding]; metal-binding site 648757000597 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 648757000598 Predicted permeases [General function prediction only]; Region: COG0730 648757000599 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 648757000600 Sel1-like repeats; Region: SEL1; smart00671 648757000601 Sel1-like repeats; Region: SEL1; smart00671 648757000602 Response regulator receiver domain; Region: Response_reg; pfam00072 648757000603 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 648757000604 active site 648757000605 phosphorylation site [posttranslational modification] 648757000606 intermolecular recognition site; other site 648757000607 dimerization interface [polypeptide binding]; other site 648757000608 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 648757000609 Peptidase family M50; Region: Peptidase_M50; pfam02163 648757000610 active site 648757000611 putative substrate binding region [chemical binding]; other site 648757000612 FOG: CBS domain [General function prediction only]; Region: COG0517 648757000613 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 648757000614 Isochorismatase family; Region: Isochorismatase; pfam00857 648757000615 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 648757000616 catalytic triad [active] 648757000617 conserved cis-peptide bond; other site 648757000618 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 648757000619 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 648757000620 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 648757000621 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 648757000622 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 648757000623 dimer interface [polypeptide binding]; other site 648757000624 putative functional site; other site 648757000625 putative MPT binding site; other site 648757000626 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 648757000627 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 648757000628 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 648757000629 putative NAD(P) binding site [chemical binding]; other site 648757000630 active site 648757000631 putative substrate binding site [chemical binding]; other site 648757000632 Predicted transcriptional regulators [Transcription]; Region: COG1695 648757000633 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 648757000634 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 648757000635 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 648757000636 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 648757000637 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 648757000638 Predicted membrane protein [Function unknown]; Region: COG1238 648757000639 Ribulose bisphosphate carboxylase like proteins (RLPs) similar to R.rubrum RLP; Region: RLP_RrRLP; cd08210 648757000640 dimer interface [polypeptide binding]; other site 648757000641 active site 648757000642 catalytic residue [active] 648757000643 metal binding site [ion binding]; metal-binding site 648757000644 Cupin domain; Region: Cupin_2; pfam07883 648757000645 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 648757000646 TPR repeat; Region: TPR_11; pfam13414 648757000647 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 648757000648 binding surface 648757000649 TPR motif; other site 648757000650 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 648757000651 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 648757000652 binding surface 648757000653 TPR motif; other site 648757000654 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 648757000655 TPR motif; other site 648757000656 binding surface 648757000657 Tetratricopeptide repeat; Region: TPR_16; pfam13432 648757000658 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 648757000659 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 648757000660 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757000661 MAPEG family; Region: MAPEG; cl09190 648757000662 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 648757000663 Domain of unknown function DUF20; Region: UPF0118; pfam01594 648757000664 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 648757000665 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 648757000666 polyphosphate kinase; Provisional; Region: PRK05443 648757000667 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 648757000668 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 648757000669 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 648757000670 putative domain interface [polypeptide binding]; other site 648757000671 putative active site [active] 648757000672 catalytic site [active] 648757000673 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 648757000674 putative active site [active] 648757000675 catalytic site [active] 648757000676 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 648757000677 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 648757000678 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 648757000679 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 648757000680 HSP70 interaction site [polypeptide binding]; other site 648757000681 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 648757000682 substrate binding site [polypeptide binding]; other site 648757000683 dimer interface [polypeptide binding]; other site 648757000684 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 648757000685 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 648757000686 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 648757000687 phytoene desaturase; Region: crtI_fam; TIGR02734 648757000688 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 648757000689 O-methyltransferase; Region: Methyltransf_2; pfam00891 648757000690 Methyltransferase domain; Region: Methyltransf_23; pfam13489 648757000691 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase; Region: bchC; TIGR01202 648757000692 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 648757000693 putative NAD(P) binding site [chemical binding]; other site 648757000694 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757000695 chlorophyllide reductase iron protein subunit X; Region: BchX; TIGR02016 648757000696 chlorophyllide reductase subunit Y; Region: BchY; TIGR02015 648757000697 Chlide_reductase_Y : Y subunit of chlorophyllide (chlide) reductase (BchY). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase...; Region: Chlide_reductase_Y; cd01980 648757000698 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 648757000699 chlorophyllide reductase subunit Z; Region: BchZ; TIGR02014 648757000700 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 648757000701 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 648757000702 Subunit L of bacterial photosynthetic reaction center; Region: Photo-RC_L; cd09290 648757000703 subunit M interface; other site 648757000704 subunit H interface; other site 648757000705 quinone binding site; other site 648757000706 bacteriopheophytin binding site; other site 648757000707 bacteriochlorophyll binding site; other site 648757000708 cytochrome C subunit interface; other site 648757000709 Fe binding site [ion binding]; other site 648757000710 Subunit M of bacterial photosynthetic reaction center; Region: Photo-RC_M; cd09291 648757000711 subunit H interface; other site 648757000712 subunit L interface; other site 648757000713 bacteriopheophytin binding site; other site 648757000714 carotenoid binding site; other site 648757000715 bacteriochlorophyll binding site; other site 648757000716 cytochrome C interface; other site 648757000717 quinone binding site; other site 648757000718 Fe binding site [ion binding]; other site 648757000719 Cytochrome C subunit of the bacterial photosynthetic reaction center; Region: CytoC_RC; cd09224 648757000720 subunit interface [polypeptide binding]; other site 648757000721 Heme binding sites [chemical binding]; other site 648757000722 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 648757000723 Part of AAA domain; Region: AAA_19; pfam13245 648757000724 Family description; Region: UvrD_C_2; pfam13538 648757000725 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 648757000726 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 648757000727 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 648757000728 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 648757000729 Substrate binding site; other site 648757000730 metal-binding site 648757000731 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 648757000732 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 648757000733 homodimer interface [polypeptide binding]; other site 648757000734 substrate-cofactor binding pocket; other site 648757000735 catalytic residue [active] 648757000736 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 648757000737 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 648757000738 active site 648757000739 phosphorylation site [posttranslational modification] 648757000740 intermolecular recognition site; other site 648757000741 dimerization interface [polypeptide binding]; other site 648757000742 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 648757000743 DNA binding site [nucleotide binding] 648757000744 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 648757000745 HAMP domain; Region: HAMP; pfam00672 648757000746 dimerization interface [polypeptide binding]; other site 648757000747 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 648757000748 dimer interface [polypeptide binding]; other site 648757000749 phosphorylation site [posttranslational modification] 648757000750 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 648757000751 ATP binding site [chemical binding]; other site 648757000752 Mg2+ binding site [ion binding]; other site 648757000753 G-X-G motif; other site 648757000754 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 648757000755 active site 648757000756 Dihydroneopterin aldolase; Region: FolB; pfam02152 648757000757 active site 648757000758 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 648757000759 PRC-barrel domain; Region: PRC; pfam05239 648757000760 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 648757000761 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 648757000762 dimer interface [polypeptide binding]; other site 648757000763 phosphorylation site [posttranslational modification] 648757000764 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 648757000765 ATP binding site [chemical binding]; other site 648757000766 Mg2+ binding site [ion binding]; other site 648757000767 G-X-G motif; other site 648757000768 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 648757000769 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 648757000770 putative C-terminal domain interface [polypeptide binding]; other site 648757000771 putative GSH binding site (G-site) [chemical binding]; other site 648757000772 putative dimer interface [polypeptide binding]; other site 648757000773 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 648757000774 putative N-terminal domain interface [polypeptide binding]; other site 648757000775 putative dimer interface [polypeptide binding]; other site 648757000776 putative substrate binding pocket (H-site) [chemical binding]; other site 648757000777 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 648757000778 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 648757000779 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 648757000780 putative DNA binding site [nucleotide binding]; other site 648757000781 putative Zn2+ binding site [ion binding]; other site 648757000782 AsnC family; Region: AsnC_trans_reg; pfam01037 648757000783 gamma-glutamyl kinase; Provisional; Region: PRK05429 648757000784 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 648757000785 nucleotide binding site [chemical binding]; other site 648757000786 homotetrameric interface [polypeptide binding]; other site 648757000787 putative phosphate binding site [ion binding]; other site 648757000788 putative allosteric binding site; other site 648757000789 PUA domain; Region: PUA; pfam01472 648757000790 YcxB-like protein; Region: YcxB; pfam14317 648757000791 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 648757000792 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 648757000793 putative catalytic cysteine [active] 648757000794 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 648757000795 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 648757000796 active site 648757000797 (T/H)XGH motif; other site 648757000798 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 648757000799 active site 648757000800 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 648757000801 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 648757000802 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 648757000803 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 648757000804 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 648757000805 Cu(I) binding site [ion binding]; other site 648757000806 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 648757000807 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 648757000808 dimer interface [polypeptide binding]; other site 648757000809 phosphorylation site [posttranslational modification] 648757000810 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 648757000811 ATP binding site [chemical binding]; other site 648757000812 Mg2+ binding site [ion binding]; other site 648757000813 G-X-G motif; other site 648757000814 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 648757000815 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 648757000816 active site 648757000817 phosphorylation site [posttranslational modification] 648757000818 intermolecular recognition site; other site 648757000819 dimerization interface [polypeptide binding]; other site 648757000820 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 648757000821 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 648757000822 nucleoside/Zn binding site; other site 648757000823 dimer interface [polypeptide binding]; other site 648757000824 catalytic motif [active] 648757000825 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 648757000826 pseudouridine synthase; Region: TIGR00093 648757000827 probable active site [active] 648757000828 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 648757000829 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 648757000830 S-adenosylmethionine binding site [chemical binding]; other site 648757000831 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 648757000832 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 648757000833 S-adenosylmethionine binding site [chemical binding]; other site 648757000834 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 648757000835 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 648757000836 Uncharacterized conserved protein [Function unknown]; Region: COG3743 648757000837 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 648757000838 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 648757000839 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757000840 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 648757000841 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 648757000842 Walker A/P-loop; other site 648757000843 ATP binding site [chemical binding]; other site 648757000844 Q-loop/lid; other site 648757000845 ABC transporter signature motif; other site 648757000846 Walker B; other site 648757000847 D-loop; other site 648757000848 H-loop/switch region; other site 648757000849 DevC protein; Region: devC; TIGR01185 648757000850 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 648757000851 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 648757000852 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 648757000853 Malic enzyme, N-terminal domain; Region: malic; pfam00390 648757000854 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 648757000855 putative NAD(P) binding site [chemical binding]; other site 648757000856 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 648757000857 Uncharacterized conserved protein [Function unknown]; Region: COG1262 648757000858 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 648757000859 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 648757000860 quinolinate synthetase; Provisional; Region: PRK09375 648757000861 L-aspartate oxidase; Provisional; Region: PRK06175 648757000862 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 648757000863 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 648757000864 Part of AAA domain; Region: AAA_19; pfam13245 648757000865 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 648757000866 AAA domain; Region: AAA_12; pfam13087 648757000867 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 648757000868 putative active site [active] 648757000869 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 648757000870 ABC1 family; Region: ABC1; cl17513 648757000871 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 648757000872 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 648757000873 putative catalytic site [active] 648757000874 putative phosphate binding site [ion binding]; other site 648757000875 active site 648757000876 metal binding site A [ion binding]; metal-binding site 648757000877 DNA binding site [nucleotide binding] 648757000878 putative AP binding site [nucleotide binding]; other site 648757000879 putative metal binding site B [ion binding]; other site 648757000880 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 648757000881 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 648757000882 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 648757000883 Zn2+ binding site [ion binding]; other site 648757000884 Mg2+ binding site [ion binding]; other site 648757000885 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 648757000886 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 648757000887 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 648757000888 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 648757000889 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 648757000890 homotetramer interface [polypeptide binding]; other site 648757000891 ligand binding site [chemical binding]; other site 648757000892 catalytic site [active] 648757000893 NAD binding site [chemical binding]; other site 648757000894 hypothetical protein; Reviewed; Region: PRK00024 648757000895 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 648757000896 MPN+ (JAMM) motif; other site 648757000897 Zinc-binding site [ion binding]; other site 648757000898 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 648757000899 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 648757000900 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 648757000901 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 648757000902 Walker A/P-loop; other site 648757000903 ATP binding site [chemical binding]; other site 648757000904 Q-loop/lid; other site 648757000905 ABC transporter signature motif; other site 648757000906 Walker B; other site 648757000907 D-loop; other site 648757000908 H-loop/switch region; other site 648757000909 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 648757000910 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 648757000911 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 648757000912 putative substrate translocation pore; other site 648757000913 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 648757000914 rRNA binding site [nucleotide binding]; other site 648757000915 predicted 30S ribosome binding site; other site 648757000916 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 648757000917 active site 648757000918 dimer interface [polypeptide binding]; other site 648757000919 Domain of unknown function (DUF329); Region: DUF329; cl01144 648757000920 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 648757000921 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 648757000922 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 648757000923 non-specific DNA binding site [nucleotide binding]; other site 648757000924 salt bridge; other site 648757000925 sequence-specific DNA binding site [nucleotide binding]; other site 648757000926 hydrogenase 4 subunit B; Validated; Region: PRK06521 648757000927 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 648757000928 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 648757000929 NADH dehydrogenase; Region: NADHdh; cl00469 648757000930 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 648757000931 hydrogenase 4 subunit F; Validated; Region: PRK06458 648757000932 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 648757000933 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 648757000934 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 648757000935 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 648757000936 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 648757000937 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 648757000938 CPxP motif; other site 648757000939 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 648757000940 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 648757000941 putative MPT binding site; other site 648757000942 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 648757000943 active site 648757000944 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 648757000945 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 648757000946 active site 648757000947 catalytic tetrad [active] 648757000948 Helix-turn-helix domain; Region: HTH_31; pfam13560 648757000949 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 648757000950 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 648757000951 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 648757000952 dimerization interface [polypeptide binding]; other site 648757000953 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 648757000954 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 648757000955 tetramer interface [polypeptide binding]; other site 648757000956 heme binding pocket [chemical binding]; other site 648757000957 NADPH binding site [chemical binding]; other site 648757000958 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 648757000959 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 648757000960 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 648757000961 metal ion-dependent adhesion site (MIDAS); other site 648757000962 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 648757000963 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 648757000964 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 648757000965 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 648757000966 HSP70 interaction site [polypeptide binding]; other site 648757000967 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 648757000968 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 648757000969 putative hydrolase; Provisional; Region: PRK11460 648757000970 Protein of unknown function (DUF1614); Region: DUF1614; pfam07758 648757000971 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 648757000972 catalytic motif [active] 648757000973 Catalytic residue [active] 648757000974 Predicted aspartyl protease [General function prediction only]; Region: COG3577 648757000975 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 648757000976 catalytic motif [active] 648757000977 Catalytic residue [active] 648757000978 DNA primase; Validated; Region: dnaG; PRK05667 648757000979 CHC2 zinc finger; Region: zf-CHC2; pfam01807 648757000980 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 648757000981 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 648757000982 active site 648757000983 metal binding site [ion binding]; metal-binding site 648757000984 interdomain interaction site; other site 648757000985 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 648757000986 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 648757000987 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 648757000988 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 648757000989 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 648757000990 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 648757000991 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 648757000992 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 648757000993 DNA binding residues [nucleotide binding] 648757000994 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 648757000995 putative GSH binding site [chemical binding]; other site 648757000996 catalytic residues [active] 648757000997 BolA-like protein; Region: BolA; pfam01722 648757000998 peptide S-glycosyltransferase, SunS family; Region: S_glycosyl_SunS; TIGR04195 648757000999 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 648757001000 active site 648757001001 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 648757001002 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 648757001003 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 648757001004 Sel1-like repeats; Region: SEL1; smart00671 648757001005 Sel1-like repeats; Region: SEL1; smart00671 648757001006 Sel1-like repeats; Region: SEL1; smart00671 648757001007 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 648757001008 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 648757001009 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757001010 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 648757001011 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 648757001012 putative active site [active] 648757001013 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 648757001014 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757001015 Walker A/P-loop; other site 648757001016 ATP binding site [chemical binding]; other site 648757001017 Q-loop/lid; other site 648757001018 ABC transporter signature motif; other site 648757001019 Walker B; other site 648757001020 D-loop; other site 648757001021 H-loop/switch region; other site 648757001022 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 648757001023 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 648757001024 active site 648757001025 Methyltransferase domain; Region: Methyltransf_23; pfam13489 648757001026 Methyltransferase domain; Region: Methyltransf_12; pfam08242 648757001027 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 648757001028 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 648757001029 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 648757001030 S-adenosylmethionine binding site [chemical binding]; other site 648757001031 Homeodomain-like domain; Region: HTH_23; pfam13384 648757001032 Winged helix-turn helix; Region: HTH_29; pfam13551 648757001033 Homeodomain-like domain; Region: HTH_32; pfam13565 648757001034 DDE superfamily endonuclease; Region: DDE_3; pfam13358 648757001035 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 648757001036 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 648757001037 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 648757001038 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 648757001039 Peptidase family M23; Region: Peptidase_M23; pfam01551 648757001040 malonyl-CoA synthase; Validated; Region: PRK07514 648757001041 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 648757001042 acyl-activating enzyme (AAE) consensus motif; other site 648757001043 active site 648757001044 AMP binding site [chemical binding]; other site 648757001045 CoA binding site [chemical binding]; other site 648757001046 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 648757001047 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 648757001048 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 648757001049 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 648757001050 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 648757001051 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 648757001052 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 648757001053 trigger factor; Provisional; Region: tig; PRK01490 648757001054 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 648757001055 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 648757001056 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 648757001057 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 648757001058 oligomer interface [polypeptide binding]; other site 648757001059 active site residues [active] 648757001060 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 648757001061 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 648757001062 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 648757001063 Walker A motif; other site 648757001064 ATP binding site [chemical binding]; other site 648757001065 Walker B motif; other site 648757001066 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 648757001067 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 648757001068 Found in ATP-dependent protease La (LON); Region: LON; smart00464 648757001069 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 648757001070 Walker A motif; other site 648757001071 ATP binding site [chemical binding]; other site 648757001072 Walker B motif; other site 648757001073 arginine finger; other site 648757001074 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 648757001075 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 648757001076 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 648757001077 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 648757001078 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 648757001079 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 648757001080 putative dimer interface [polypeptide binding]; other site 648757001081 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 648757001082 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 648757001083 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 648757001084 S-adenosylmethionine binding site [chemical binding]; other site 648757001085 SET domain; Region: SET; pfam00856 648757001086 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 648757001087 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 648757001088 Sporulation related domain; Region: SPOR; pfam05036 648757001089 Uncharacterized conserved protein [Function unknown]; Region: COG2127 648757001090 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 648757001091 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 648757001092 Walker A motif; other site 648757001093 ATP binding site [chemical binding]; other site 648757001094 Walker B motif; other site 648757001095 arginine finger; other site 648757001096 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 648757001097 Walker A motif; other site 648757001098 ATP binding site [chemical binding]; other site 648757001099 Walker B motif; other site 648757001100 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 648757001101 AzlC protein; Region: AzlC; pfam03591 648757001102 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 648757001103 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 648757001104 homotrimer interaction site [polypeptide binding]; other site 648757001105 putative active site [active] 648757001106 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 648757001107 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 648757001108 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 648757001109 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 648757001110 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 648757001111 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 648757001112 catalytic residues [active] 648757001113 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 648757001114 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 648757001115 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 648757001116 protein binding site [polypeptide binding]; other site 648757001117 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 648757001118 protein binding site [polypeptide binding]; other site 648757001119 Peptidase family M48; Region: Peptidase_M48; cl12018 648757001120 NusB family; Region: NusB; pfam01029 648757001121 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 648757001122 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 648757001123 S-adenosylmethionine binding site [chemical binding]; other site 648757001124 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 648757001125 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 648757001126 CTP synthetase; Validated; Region: pyrG; PRK05380 648757001127 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 648757001128 Catalytic site [active] 648757001129 active site 648757001130 UTP binding site [chemical binding]; other site 648757001131 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 648757001132 active site 648757001133 putative oxyanion hole; other site 648757001134 catalytic triad [active] 648757001135 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 648757001136 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 648757001137 Isochorismatase family; Region: Isochorismatase; pfam00857 648757001138 catalytic triad [active] 648757001139 conserved cis-peptide bond; other site 648757001140 triosephosphate isomerase; Provisional; Region: PRK14565 648757001141 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 648757001142 substrate binding site [chemical binding]; other site 648757001143 dimer interface [polypeptide binding]; other site 648757001144 catalytic triad [active] 648757001145 SurA N-terminal domain; Region: SurA_N_3; cl07813 648757001146 periplasmic folding chaperone; Provisional; Region: PRK10788 648757001147 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 648757001148 anthranilate synthase component I; Provisional; Region: PRK13573 648757001149 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 648757001150 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 648757001151 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 648757001152 catalytic core [active] 648757001153 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 648757001154 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 648757001155 glutamine binding [chemical binding]; other site 648757001156 catalytic triad [active] 648757001157 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 648757001158 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 648757001159 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 648757001160 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 648757001161 active site 648757001162 ribulose/triose binding site [chemical binding]; other site 648757001163 phosphate binding site [ion binding]; other site 648757001164 substrate (anthranilate) binding pocket [chemical binding]; other site 648757001165 product (indole) binding pocket [chemical binding]; other site 648757001166 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 648757001167 trimer interface [polypeptide binding]; other site 648757001168 dimer interface [polypeptide binding]; other site 648757001169 putative active site [active] 648757001170 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 648757001171 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 648757001172 ArgK protein; Region: ArgK; pfam03308 648757001173 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757001174 pyruvate phosphate dikinase; Provisional; Region: PRK09279 648757001175 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 648757001176 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 648757001177 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 648757001178 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 648757001179 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 648757001180 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 648757001181 Soluble P-type ATPase [General function prediction only]; Region: COG4087 648757001182 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 648757001183 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 648757001184 substrate binding pocket [chemical binding]; other site 648757001185 membrane-bound complex binding site; other site 648757001186 hinge residues; other site 648757001187 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 648757001188 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 648757001189 Walker A/P-loop; other site 648757001190 ATP binding site [chemical binding]; other site 648757001191 Q-loop/lid; other site 648757001192 ABC transporter signature motif; other site 648757001193 Walker B; other site 648757001194 D-loop; other site 648757001195 H-loop/switch region; other site 648757001196 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 648757001197 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 648757001198 dimer interface [polypeptide binding]; other site 648757001199 conserved gate region; other site 648757001200 putative PBP binding loops; other site 648757001201 ABC-ATPase subunit interface; other site 648757001202 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 648757001203 Sel1 repeat; Region: Sel1; cl02723 648757001204 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 648757001205 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; cl02542 648757001206 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 648757001207 Chain length determinant protein; Region: Wzz; pfam02706 648757001208 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 648757001209 Chain length determinant protein; Region: Wzz; cl15801 648757001210 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757001211 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 648757001212 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 648757001213 SLBB domain; Region: SLBB; pfam10531 648757001214 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757001215 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757001216 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757001217 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757001218 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757001219 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757001220 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757001221 Transposase; Region: HTH_Tnp_1; pfam01527 648757001222 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757001223 O-Antigen ligase; Region: Wzy_C; pfam04932 648757001224 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757001225 Winged helix-turn helix; Region: HTH_29; pfam13551 648757001226 Integrase core domain; Region: rve; pfam00665 648757001227 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757001228 Integrase core domain; Region: rve_3; pfam13683 648757001229 Homeodomain-like domain; Region: HTH_23; pfam13384 648757001230 Winged helix-turn helix; Region: HTH_29; pfam13551 648757001231 Homeodomain-like domain; Region: HTH_32; pfam13565 648757001232 DDE superfamily endonuclease; Region: DDE_3; pfam13358 648757001233 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757001234 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757001235 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 648757001236 Bacterial sugar transferase; Region: Bac_transf; pfam02397 648757001237 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 648757001238 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 648757001239 NAD binding site [chemical binding]; other site 648757001240 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 648757001241 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 648757001242 Methyltransferase domain; Region: Methyltransf_23; pfam13489 648757001243 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 648757001244 S-adenosylmethionine binding site [chemical binding]; other site 648757001245 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 648757001246 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 648757001247 putative NAD(P) binding site [chemical binding]; other site 648757001248 active site 648757001249 putative substrate binding site [chemical binding]; other site 648757001250 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 648757001251 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 648757001252 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 648757001253 active site 648757001254 dimer interface [polypeptide binding]; other site 648757001255 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 648757001256 Ligand Binding Site [chemical binding]; other site 648757001257 Molecular Tunnel; other site 648757001258 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 648757001259 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 648757001260 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u5; cd10929 648757001261 putative active site [active] 648757001262 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757001263 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 648757001264 putative ADP-binding pocket [chemical binding]; other site 648757001265 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 648757001266 Transposase; Region: HTH_Tnp_1; pfam01527 648757001267 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757001268 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757001269 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757001270 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757001271 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757001272 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757001273 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757001274 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757001275 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 648757001276 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 648757001277 active site 648757001278 dimer interface [polypeptide binding]; other site 648757001279 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 648757001280 Ligand Binding Site [chemical binding]; other site 648757001281 Molecular Tunnel; other site 648757001282 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 648757001283 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757001284 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 648757001285 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 648757001286 putative ADP-binding pocket [chemical binding]; other site 648757001287 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 648757001288 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 648757001289 active site 648757001290 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 648757001291 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 648757001292 active site 648757001293 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 648757001294 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 648757001295 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 648757001296 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 648757001297 trimer interface [polypeptide binding]; other site 648757001298 active site 648757001299 substrate binding site [chemical binding]; other site 648757001300 CoA binding site [chemical binding]; other site 648757001301 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 648757001302 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 648757001303 inhibitor-cofactor binding pocket; inhibition site 648757001304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757001305 catalytic residue [active] 648757001306 Acyltransferase family; Region: Acyl_transf_3; pfam01757 648757001307 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 648757001308 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 648757001309 putative trimer interface [polypeptide binding]; other site 648757001310 putative CoA binding site [chemical binding]; other site 648757001311 WxcM-like, C-terminal; Region: FdtA; pfam05523 648757001312 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 648757001313 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757001314 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 648757001315 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 648757001316 S-adenosylmethionine binding site [chemical binding]; other site 648757001317 transcriptional activator RfaH; Region: RfaH; TIGR01955 648757001318 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 648757001319 KOW: an acronym for the authors' surnames (Kyrpides, Ouzounis and Woese); Region: KOW; cl00354 648757001320 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 648757001321 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757001322 putative ADP-binding pocket [chemical binding]; other site 648757001323 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757001324 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 648757001325 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757001326 Winged helix-turn helix; Region: HTH_29; pfam13551 648757001327 Integrase core domain; Region: rve; pfam00665 648757001328 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757001329 Integrase core domain; Region: rve_3; pfam13683 648757001330 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 648757001331 NAD binding site [chemical binding]; other site 648757001332 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 648757001333 Bacterial sugar transferase; Region: Bac_transf; pfam02397 648757001334 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 648757001335 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 648757001336 dimerization interface [polypeptide binding]; other site 648757001337 ATP binding site [chemical binding]; other site 648757001338 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 648757001339 dimerization interface [polypeptide binding]; other site 648757001340 ATP binding site [chemical binding]; other site 648757001341 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 648757001342 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 648757001343 putative active site [active] 648757001344 catalytic triad [active] 648757001345 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 648757001346 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 648757001347 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 648757001348 ATP binding site [chemical binding]; other site 648757001349 active site 648757001350 substrate binding site [chemical binding]; other site 648757001351 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 648757001352 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 648757001353 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 648757001354 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 648757001355 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 648757001356 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 648757001357 catalytic loop [active] 648757001358 iron binding site [ion binding]; other site 648757001359 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 648757001360 nitrile hydratase, alpha subunit; Region: nitrile_alph; TIGR01323 648757001361 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 648757001362 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 648757001363 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 648757001364 active site 648757001365 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 648757001366 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 648757001367 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 648757001368 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 648757001369 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 648757001370 NAD binding site [chemical binding]; other site 648757001371 homotetramer interface [polypeptide binding]; other site 648757001372 homodimer interface [polypeptide binding]; other site 648757001373 substrate binding site [chemical binding]; other site 648757001374 active site 648757001375 Protein of unknown function (DUF3138); Region: DUF3138; pfam11336 648757001376 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 648757001377 catalytic core [active] 648757001378 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 648757001379 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 648757001380 Tetramer interface [polypeptide binding]; other site 648757001381 active site 648757001382 FMN-binding site [chemical binding]; other site 648757001383 short chain dehydrogenase; Provisional; Region: PRK07201 648757001384 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 648757001385 putative NAD(P) binding site [chemical binding]; other site 648757001386 active site 648757001387 putative substrate binding site [chemical binding]; other site 648757001388 classical (c) SDRs; Region: SDR_c; cd05233 648757001389 NAD(P) binding site [chemical binding]; other site 648757001390 active site 648757001391 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 648757001392 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 648757001393 nucleophile elbow; other site 648757001394 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 648757001395 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 648757001396 Bacterial transcriptional repressor; Region: TetR; pfam13972 648757001397 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 648757001398 TPR motif; other site 648757001399 binding surface 648757001400 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 648757001401 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 648757001402 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757001403 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 648757001404 putative ADP-binding pocket [chemical binding]; other site 648757001405 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 648757001406 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 648757001407 manganese transport regulator MntR; Provisional; Region: PRK11050 648757001408 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 648757001409 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 648757001410 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 648757001411 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 648757001412 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 648757001413 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 648757001414 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 648757001415 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 648757001416 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 648757001417 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 648757001418 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 648757001419 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 648757001420 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 648757001421 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 648757001422 Ribonuclease P; Region: Ribonuclease_P; cl00457 648757001423 membrane protein insertase; Provisional; Region: PRK01318 648757001424 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 648757001425 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 648757001426 G1 box; other site 648757001427 GTP/Mg2+ binding site [chemical binding]; other site 648757001428 Switch I region; other site 648757001429 G2 box; other site 648757001430 G3 box; other site 648757001431 Switch II region; other site 648757001432 G4 box; other site 648757001433 G5 box; other site 648757001434 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 648757001435 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 648757001436 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 648757001437 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 648757001438 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 648757001439 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 648757001440 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 648757001441 DNA binding residues [nucleotide binding] 648757001442 Protein of unknown function (DUF2611); Region: DUF2611; pfam11022 648757001443 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 648757001444 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757001445 multidrug efflux protein; Reviewed; Region: PRK09579 648757001446 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 648757001447 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 648757001448 intersubunit interface [polypeptide binding]; other site 648757001449 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 648757001450 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757001451 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 648757001452 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757001453 Walker A/P-loop; other site 648757001454 ATP binding site [chemical binding]; other site 648757001455 Q-loop/lid; other site 648757001456 ABC transporter signature motif; other site 648757001457 Walker B; other site 648757001458 D-loop; other site 648757001459 H-loop/switch region; other site 648757001460 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 648757001461 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 648757001462 intersubunit interface [polypeptide binding]; other site 648757001463 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 648757001464 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 648757001465 ABC-ATPase subunit interface; other site 648757001466 dimer interface [polypeptide binding]; other site 648757001467 putative PBP binding regions; other site 648757001468 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 648757001469 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 648757001470 Walker A/P-loop; other site 648757001471 ATP binding site [chemical binding]; other site 648757001472 Q-loop/lid; other site 648757001473 ABC transporter signature motif; other site 648757001474 Walker B; other site 648757001475 D-loop; other site 648757001476 H-loop/switch region; other site 648757001477 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 648757001478 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 648757001479 N-terminal plug; other site 648757001480 ligand-binding site [chemical binding]; other site 648757001481 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 648757001482 putative FMN binding site [chemical binding]; other site 648757001483 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 648757001484 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757001485 Walker A/P-loop; other site 648757001486 ATP binding site [chemical binding]; other site 648757001487 Q-loop/lid; other site 648757001488 ABC transporter signature motif; other site 648757001489 Walker B; other site 648757001490 D-loop; other site 648757001491 H-loop/switch region; other site 648757001492 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757001493 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 648757001494 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. The protein...; Region: NifX; cd00853 648757001495 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 648757001496 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 648757001497 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 648757001498 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 648757001499 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 648757001500 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 648757001501 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 648757001502 Walker A motif; other site 648757001503 ATP binding site [chemical binding]; other site 648757001504 Walker B motif; other site 648757001505 arginine finger; other site 648757001506 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 648757001507 Nitrogen fixation protein of unknown function; Region: Nif11; pfam07862 648757001508 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 648757001509 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 648757001510 dimer interface [polypeptide binding]; other site 648757001511 active site 648757001512 metal binding site [ion binding]; metal-binding site 648757001513 glutathione binding site [chemical binding]; other site 648757001514 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 648757001515 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 648757001516 Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase...; Region: Nitrogenase_VFe_alpha; cd01977 648757001517 Vanadium/alternative nitrogenase delta subunit; Region: AnfG_VnfG; cl03910 648757001518 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 648757001519 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 648757001520 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 648757001521 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 648757001522 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 648757001523 dimer interface [polypeptide binding]; other site 648757001524 conserved gate region; other site 648757001525 ABC-ATPase subunit interface; other site 648757001526 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 648757001527 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 648757001528 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 648757001529 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757001530 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 648757001531 Walker A/P-loop; other site 648757001532 ATP binding site [chemical binding]; other site 648757001533 Q-loop/lid; other site 648757001534 ABC transporter signature motif; other site 648757001535 Walker B; other site 648757001536 D-loop; other site 648757001537 H-loop/switch region; other site 648757001538 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 648757001539 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 648757001540 putative NAD(P) binding site [chemical binding]; other site 648757001541 active site 648757001542 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 648757001543 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 648757001544 C-terminal domain interface [polypeptide binding]; other site 648757001545 GSH binding site (G-site) [chemical binding]; other site 648757001546 dimer interface [polypeptide binding]; other site 648757001547 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 648757001548 N-terminal domain interface [polypeptide binding]; other site 648757001549 dimer interface [polypeptide binding]; other site 648757001550 substrate binding pocket (H-site) [chemical binding]; other site 648757001551 epoxyqueuosine reductase; Region: TIGR00276 648757001552 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 648757001553 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 648757001554 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 648757001555 putative NAD(P) binding site [chemical binding]; other site 648757001556 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 648757001557 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757001558 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 648757001559 putative ADP-binding pocket [chemical binding]; other site 648757001560 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 648757001561 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 648757001562 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 648757001563 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 648757001564 30S subunit binding site; other site 648757001565 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 648757001566 active site 648757001567 phosphorylation site [posttranslational modification] 648757001568 Predicted periplasmic protein [Function unknown]; Region: COG3698 648757001569 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 648757001570 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 648757001571 magnesium chelatase subunit I; Provisional; Region: bchI; PRK13407 648757001572 magnesium chelatase subunit D; Provisional; Region: bchD; PRK13406 648757001573 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 648757001574 metal ion-dependent adhesion site (MIDAS); other site 648757001575 putative magnesium chelatase accessory protein; Region: bchO_mg_che_rel; TIGR03056 648757001576 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 648757001577 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 648757001578 binding surface 648757001579 TPR motif; other site 648757001580 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 648757001581 binding surface 648757001582 TPR motif; other site 648757001583 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 648757001584 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 648757001585 binding surface 648757001586 TPR motif; other site 648757001587 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 648757001588 binding surface 648757001589 TPR motif; other site 648757001590 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 648757001591 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 648757001592 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 648757001593 putative active site [active] 648757001594 putative metal binding site [ion binding]; other site 648757001595 fructokinase; Reviewed; Region: PRK09557 648757001596 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 648757001597 nucleotide binding site [chemical binding]; other site 648757001598 Uncharacterized conserved protein [Function unknown]; Region: COG0062 648757001599 putative carbohydrate kinase; Provisional; Region: PRK10565 648757001600 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 648757001601 putative substrate binding site [chemical binding]; other site 648757001602 putative ATP binding site [chemical binding]; other site 648757001603 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 648757001604 Nitrogen regulatory protein P-II; Region: P-II; smart00938 648757001605 glutamine synthetase; Provisional; Region: glnA; PRK09469 648757001606 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 648757001607 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 648757001608 hypothetical protein; Provisional; Region: PRK02853 648757001609 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 648757001610 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 648757001611 NAD binding site [chemical binding]; other site 648757001612 dimerization interface [polypeptide binding]; other site 648757001613 product binding site; other site 648757001614 substrate binding site [chemical binding]; other site 648757001615 zinc binding site [ion binding]; other site 648757001616 catalytic residues [active] 648757001617 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 648757001618 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 648757001619 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 648757001620 hinge; other site 648757001621 active site 648757001622 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 648757001623 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 648757001624 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 648757001625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 648757001626 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 648757001627 NAD(P) binding site [chemical binding]; other site 648757001628 active site 648757001629 SCP-2 sterol transfer family; Region: SCP2; pfam02036 648757001630 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 648757001631 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 648757001632 DNA binding residues [nucleotide binding] 648757001633 putative dimer interface [polypeptide binding]; other site 648757001634 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 648757001635 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 648757001636 dimer interface [polypeptide binding]; other site 648757001637 active site 648757001638 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 648757001639 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 648757001640 substrate binding site [chemical binding]; other site 648757001641 oxyanion hole (OAH) forming residues; other site 648757001642 trimer interface [polypeptide binding]; other site 648757001643 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 648757001644 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 648757001645 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 648757001646 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 648757001647 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 648757001648 substrate binding pocket [chemical binding]; other site 648757001649 membrane-bound complex binding site; other site 648757001650 hinge residues; other site 648757001651 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 648757001652 serine acetyltransferase; Provisional; Region: cysE; PRK11132 648757001653 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 648757001654 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 648757001655 trimer interface [polypeptide binding]; other site 648757001656 active site 648757001657 substrate binding site [chemical binding]; other site 648757001658 CoA binding site [chemical binding]; other site 648757001659 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 648757001660 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 648757001661 PhnA protein; Region: PhnA; pfam03831 648757001662 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 648757001663 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 648757001664 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 648757001665 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 648757001666 Walker A/P-loop; other site 648757001667 ATP binding site [chemical binding]; other site 648757001668 Q-loop/lid; other site 648757001669 ABC transporter signature motif; other site 648757001670 Walker B; other site 648757001671 D-loop; other site 648757001672 H-loop/switch region; other site 648757001673 FtsH Extracellular; Region: FtsH_ext; pfam06480 648757001674 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 648757001675 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 648757001676 Walker A motif; other site 648757001677 ATP binding site [chemical binding]; other site 648757001678 Walker B motif; other site 648757001679 arginine finger; other site 648757001680 Peptidase family M41; Region: Peptidase_M41; pfam01434 648757001681 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 648757001682 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 648757001683 Protein export membrane protein; Region: SecD_SecF; cl14618 648757001684 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 648757001685 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 648757001686 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757001687 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 648757001688 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 648757001689 binding surface 648757001690 TPR motif; other site 648757001691 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 648757001692 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 648757001693 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 648757001694 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 648757001695 Walker A/P-loop; other site 648757001696 ATP binding site [chemical binding]; other site 648757001697 Q-loop/lid; other site 648757001698 ABC transporter signature motif; other site 648757001699 Walker B; other site 648757001700 D-loop; other site 648757001701 H-loop/switch region; other site 648757001702 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 648757001703 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 648757001704 FtsX-like permease family; Region: FtsX; pfam02687 648757001705 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 648757001706 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 648757001707 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 648757001708 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 648757001709 ligand binding site [chemical binding]; other site 648757001710 flexible hinge region; other site 648757001711 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 648757001712 putative switch regulator; other site 648757001713 non-specific DNA interactions [nucleotide binding]; other site 648757001714 DNA binding site [nucleotide binding] 648757001715 sequence specific DNA binding site [nucleotide binding]; other site 648757001716 putative cAMP binding site [chemical binding]; other site 648757001717 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 648757001718 dimerization interface [polypeptide binding]; other site 648757001719 putative DNA binding site [nucleotide binding]; other site 648757001720 putative Zn2+ binding site [ion binding]; other site 648757001721 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 648757001722 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; cd00562 648757001723 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 648757001724 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 648757001725 ligand binding site [chemical binding]; other site 648757001726 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 648757001727 putative switch regulator; other site 648757001728 non-specific DNA interactions [nucleotide binding]; other site 648757001729 DNA binding site [nucleotide binding] 648757001730 sequence specific DNA binding site [nucleotide binding]; other site 648757001731 putative cAMP binding site [chemical binding]; other site 648757001732 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 648757001733 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757001734 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 648757001735 catalytic triad [active] 648757001736 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 648757001737 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 648757001738 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 648757001739 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 648757001740 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 648757001741 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 648757001742 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 648757001743 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 648757001744 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 648757001745 DsrC like protein; Region: DsrC; pfam04358 648757001746 DsrH like protein; Region: DsrH; pfam04077 648757001747 DsrE/DsrF-like family; Region: DrsE; cl00672 648757001748 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 648757001749 sulfite reductase, dissimilatory-type beta subunit; Region: dsrB; TIGR02066 648757001750 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 648757001751 sulfite reductase, dissimilatory-type alpha subunit; Region: dsrA; TIGR02064 648757001752 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 648757001753 siroheme synthase; Provisional; Region: cysG; PRK10637 648757001754 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 648757001755 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 648757001756 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 648757001757 active site 648757001758 SAM binding site [chemical binding]; other site 648757001759 homodimer interface [polypeptide binding]; other site 648757001760 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 648757001761 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 648757001762 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 648757001763 CPxP motif; other site 648757001764 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 648757001765 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 648757001766 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757001767 catalytic residue [active] 648757001768 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 648757001769 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 648757001770 ATP binding site [chemical binding]; other site 648757001771 Mg2+ binding site [ion binding]; other site 648757001772 G-X-G motif; other site 648757001773 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 648757001774 intermolecular recognition site; other site 648757001775 active site 648757001776 dimerization interface [polypeptide binding]; other site 648757001777 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 648757001778 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 648757001779 N-terminal plug; other site 648757001780 ligand-binding site [chemical binding]; other site 648757001781 ribonuclease PH; Reviewed; Region: rph; PRK00173 648757001782 Ribonuclease PH; Region: RNase_PH_bact; cd11362 648757001783 hexamer interface [polypeptide binding]; other site 648757001784 active site 648757001785 pyruvate kinase; Provisional; Region: PRK06247 648757001786 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 648757001787 domain interfaces; other site 648757001788 active site 648757001789 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 648757001790 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 648757001791 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 648757001792 MOFRL family; Region: MOFRL; pfam05161 648757001793 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 648757001794 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 648757001795 dimerization interface [polypeptide binding]; other site 648757001796 active site 648757001797 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 648757001798 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 648757001799 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 648757001800 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 648757001801 Sel1-like repeats; Region: SEL1; smart00671 648757001802 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 648757001803 Sel1-like repeats; Region: SEL1; smart00671 648757001804 Sel1-like repeats; Region: SEL1; smart00671 648757001805 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 648757001806 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 648757001807 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 648757001808 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 648757001809 Staphylococcal nuclease homologues; Region: SNc; smart00318 648757001810 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 648757001811 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 648757001812 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 648757001813 N-terminal domain interface [polypeptide binding]; other site 648757001814 dimer interface [polypeptide binding]; other site 648757001815 substrate binding pocket (H-site) [chemical binding]; other site 648757001816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 648757001817 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 648757001818 NAD(P) binding site [chemical binding]; other site 648757001819 active site 648757001820 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 648757001821 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 648757001822 putative DNA binding site [nucleotide binding]; other site 648757001823 putative homodimer interface [polypeptide binding]; other site 648757001824 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 648757001825 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 648757001826 active site 648757001827 DNA binding site [nucleotide binding] 648757001828 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 648757001829 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 648757001830 DNA binding site [nucleotide binding] 648757001831 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 648757001832 nucleotide binding site [chemical binding]; other site 648757001833 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 648757001834 Sel1-like repeats; Region: SEL1; smart00671 648757001835 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 648757001836 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 648757001837 Walker A motif; other site 648757001838 ATP binding site [chemical binding]; other site 648757001839 Walker B motif; other site 648757001840 arginine finger; other site 648757001841 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 648757001842 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 648757001843 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 648757001844 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 648757001845 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 648757001846 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 648757001847 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 648757001848 active site 648757001849 phosphorylation site [posttranslational modification] 648757001850 intermolecular recognition site; other site 648757001851 dimerization interface [polypeptide binding]; other site 648757001852 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 648757001853 DNA binding site [nucleotide binding] 648757001854 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 648757001855 ATP binding site [chemical binding]; other site 648757001856 Mg2+ binding site [ion binding]; other site 648757001857 G-X-G motif; other site 648757001858 Uncharacterized conserved protein [Function unknown]; Region: COG2835 648757001859 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 648757001860 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 648757001861 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 648757001862 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 648757001863 binding surface 648757001864 TPR motif; other site 648757001865 putative acyl transferase; Provisional; Region: PRK10502 648757001866 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 648757001867 putative trimer interface [polypeptide binding]; other site 648757001868 putative active site [active] 648757001869 putative substrate binding site [chemical binding]; other site 648757001870 putative CoA binding site [chemical binding]; other site 648757001871 malate dehydrogenase; Reviewed; Region: PRK06223 648757001872 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 648757001873 NAD(P) binding site [chemical binding]; other site 648757001874 dimer interface [polypeptide binding]; other site 648757001875 tetramer (dimer of dimers) interface [polypeptide binding]; other site 648757001876 substrate binding site [chemical binding]; other site 648757001877 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 648757001878 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 648757001879 CoA-ligase; Region: Ligase_CoA; pfam00549 648757001880 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 648757001881 putative active site [active] 648757001882 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 648757001883 CoA binding domain; Region: CoA_binding; pfam02629 648757001884 CoA-ligase; Region: Ligase_CoA; pfam00549 648757001885 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 648757001886 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 648757001887 TPP-binding site [chemical binding]; other site 648757001888 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 648757001889 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 648757001890 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 648757001891 E3 interaction surface; other site 648757001892 lipoyl attachment site [posttranslational modification]; other site 648757001893 e3 binding domain; Region: E3_binding; pfam02817 648757001894 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 648757001895 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06115 648757001896 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 648757001897 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 648757001898 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 648757001899 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 648757001900 dimerization domain swap beta strand [polypeptide binding]; other site 648757001901 regulatory protein interface [polypeptide binding]; other site 648757001902 active site 648757001903 regulatory phosphorylation site [posttranslational modification]; other site 648757001904 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 648757001905 active pocket/dimerization site; other site 648757001906 active site 648757001907 phosphorylation site [posttranslational modification] 648757001908 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_HprK; cl00270 648757001909 active site 648757001910 metal-binding site [ion binding] 648757001911 nucleotide-binding site [chemical binding]; other site 648757001912 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 648757001913 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 648757001914 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 648757001915 dimer interface [polypeptide binding]; other site 648757001916 phosphorylation site [posttranslational modification] 648757001917 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 648757001918 ATP binding site [chemical binding]; other site 648757001919 Mg2+ binding site [ion binding]; other site 648757001920 G-X-G motif; other site 648757001921 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 648757001922 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 648757001923 active site 648757001924 phosphorylation site [posttranslational modification] 648757001925 intermolecular recognition site; other site 648757001926 dimerization interface [polypeptide binding]; other site 648757001927 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 648757001928 DNA binding site [nucleotide binding] 648757001929 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 648757001930 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 648757001931 active site 648757001932 substrate-binding site [chemical binding]; other site 648757001933 metal-binding site [ion binding] 648757001934 ATP binding site [chemical binding]; other site 648757001935 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 648757001936 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 648757001937 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 648757001938 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 648757001939 Walker A motif; other site 648757001940 ATP binding site [chemical binding]; other site 648757001941 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 648757001942 B1 nucleotide binding pocket [chemical binding]; other site 648757001943 B2 nucleotide binding pocket [chemical binding]; other site 648757001944 CAS motifs; other site 648757001945 active site 648757001946 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 648757001947 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 648757001948 dimerization interface 3.5A [polypeptide binding]; other site 648757001949 active site 648757001950 transposase; Validated; Region: PRK08181 648757001951 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 648757001952 Walker A motif; other site 648757001953 ATP binding site [chemical binding]; other site 648757001954 Phasin protein; Region: Phasin_2; cl11491 648757001955 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 648757001956 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 648757001957 amidase catalytic site [active] 648757001958 Zn binding residues [ion binding]; other site 648757001959 substrate binding site [chemical binding]; other site 648757001960 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 648757001961 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 648757001962 ligand binding site [chemical binding]; other site 648757001963 flexible hinge region; other site 648757001964 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 648757001965 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 648757001966 substrate binding site [chemical binding]; other site 648757001967 ATP binding site [chemical binding]; other site 648757001968 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 648757001969 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 648757001970 minor groove reading motif; other site 648757001971 helix-hairpin-helix signature motif; other site 648757001972 substrate binding pocket [chemical binding]; other site 648757001973 active site 648757001974 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 648757001975 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 648757001976 catalytic core [active] 648757001977 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 648757001978 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 648757001979 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 648757001980 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 648757001981 dimer interface [polypeptide binding]; other site 648757001982 substrate binding site [chemical binding]; other site 648757001983 metal binding sites [ion binding]; metal-binding site 648757001984 hypothetical protein; Validated; Region: PRK00110 648757001985 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 648757001986 putative homodimer interface [polypeptide binding]; other site 648757001987 putative homotetramer interface [polypeptide binding]; other site 648757001988 putative allosteric switch controlling residues; other site 648757001989 putative metal binding site [ion binding]; other site 648757001990 putative homodimer-homodimer interface [polypeptide binding]; other site 648757001991 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 648757001992 PhoU domain; Region: PhoU; pfam01895 648757001993 PhoU domain; Region: PhoU; pfam01895 648757001994 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 648757001995 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 648757001996 substrate binding site [chemical binding]; other site 648757001997 catalytic Zn binding site [ion binding]; other site 648757001998 NAD binding site [chemical binding]; other site 648757001999 structural Zn binding site [ion binding]; other site 648757002000 dimer interface [polypeptide binding]; other site 648757002001 Protein of unknown function (DUF2380); Region: DUF3280; pfam11684 648757002002 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 648757002003 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 648757002004 FeS/SAM binding site; other site 648757002005 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 648757002006 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 648757002007 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 648757002008 ATP12 chaperone protein; Region: ATP12; cl02228 648757002009 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 648757002010 substrate binding pocket [chemical binding]; other site 648757002011 aspartate-rich region 2; other site 648757002012 substrate-Mg2+ binding site; other site 648757002013 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 648757002014 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 648757002015 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 648757002016 Protein export membrane protein; Region: SecD_SecF; pfam02355 648757002017 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 648757002018 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 648757002019 Preprotein translocase subunit; Region: YajC; pfam02699 648757002020 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 648757002021 Protein of unknown function (DUF815); Region: DUF815; pfam05673 648757002022 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 648757002023 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 648757002024 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 648757002025 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 648757002026 putative DNA binding site [nucleotide binding]; other site 648757002027 putative Zn2+ binding site [ion binding]; other site 648757002028 AsnC family; Region: AsnC_trans_reg; pfam01037 648757002029 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 648757002030 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 648757002031 dimer interface [polypeptide binding]; other site 648757002032 PYR/PP interface [polypeptide binding]; other site 648757002033 TPP binding site [chemical binding]; other site 648757002034 substrate binding site [chemical binding]; other site 648757002035 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 648757002036 TPP-binding site; other site 648757002037 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 648757002038 isovaleryl-CoA dehydrogenase; Region: PLN02519 648757002039 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 648757002040 substrate binding site [chemical binding]; other site 648757002041 FAD binding site [chemical binding]; other site 648757002042 catalytic base [active] 648757002043 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 648757002044 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 648757002045 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 648757002046 putative active site [active] 648757002047 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 648757002048 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 648757002049 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 648757002050 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 648757002051 ATP-grasp domain; Region: ATP-grasp_4; cl17255 648757002052 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 648757002053 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 648757002054 carboxyltransferase (CT) interaction site; other site 648757002055 biotinylation site [posttranslational modification]; other site 648757002056 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 648757002057 active site 648757002058 catalytic residues [active] 648757002059 metal binding site [ion binding]; metal-binding site 648757002060 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 648757002061 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 648757002062 FAD binding site [chemical binding]; other site 648757002063 substrate binding pocket [chemical binding]; other site 648757002064 catalytic base [active] 648757002065 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 648757002066 CoA-transferase family III; Region: CoA_transf_3; pfam02515 648757002067 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 648757002068 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 648757002069 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 648757002070 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 648757002071 classical (c) SDRs; Region: SDR_c; cd05233 648757002072 NAD(P) binding site [chemical binding]; other site 648757002073 active site 648757002074 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 648757002075 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 648757002076 FMN binding site [chemical binding]; other site 648757002077 active site 648757002078 catalytic residues [active] 648757002079 substrate binding site [chemical binding]; other site 648757002080 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 648757002081 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 648757002082 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 648757002083 ABC transporter; Region: ABC_tran_2; pfam12848 648757002084 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 648757002085 Homeodomain-like domain; Region: HTH_23; pfam13384 648757002086 Winged helix-turn helix; Region: HTH_29; pfam13551 648757002087 Homeodomain-like domain; Region: HTH_32; pfam13565 648757002088 DDE superfamily endonuclease; Region: DDE_3; pfam13358 648757002089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757002090 AAA domain; Region: AAA_21; pfam13304 648757002091 Walker A/P-loop; other site 648757002092 ATP binding site [chemical binding]; other site 648757002093 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757002094 Walker B; other site 648757002095 D-loop; other site 648757002096 H-loop/switch region; other site 648757002097 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 648757002098 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 648757002099 putative active site [active] 648757002100 putative metal binding site [ion binding]; other site 648757002101 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 648757002102 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 648757002103 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 648757002104 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 648757002105 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 648757002106 active site 648757002107 phosphorylation site [posttranslational modification] 648757002108 intermolecular recognition site; other site 648757002109 dimerization interface [polypeptide binding]; other site 648757002110 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 648757002111 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 648757002112 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 648757002113 potassium uptake protein; Region: kup; TIGR00794 648757002114 Predicted hydrocarbon binding protein (contains V4R domain) [General function prediction only]; Region: COG1719 648757002115 V4R domain; Region: V4R; cl15268 648757002116 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 648757002117 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 648757002118 FeS/SAM binding site; other site 648757002119 HemN C-terminal domain; Region: HemN_C; pfam06969 648757002120 Uncharacterized conserved protein [Function unknown]; Region: COG3791 648757002121 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 648757002122 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 648757002123 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 648757002124 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 648757002125 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 648757002126 Serine hydrolase; Region: Ser_hydrolase; cl17834 648757002127 thiamine monophosphate kinase; Provisional; Region: PRK05731 648757002128 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 648757002129 ATP binding site [chemical binding]; other site 648757002130 dimerization interface [polypeptide binding]; other site 648757002131 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 648757002132 putative RNA binding site [nucleotide binding]; other site 648757002133 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 648757002134 homopentamer interface [polypeptide binding]; other site 648757002135 active site 648757002136 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 648757002137 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 648757002138 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 648757002139 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 648757002140 Lumazine binding domain; Region: Lum_binding; pfam00677 648757002141 Lumazine binding domain; Region: Lum_binding; pfam00677 648757002142 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 648757002143 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 648757002144 catalytic motif [active] 648757002145 Zn binding site [ion binding]; other site 648757002146 RibD C-terminal domain; Region: RibD_C; cl17279 648757002147 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 648757002148 ATP cone domain; Region: ATP-cone; pfam03477 648757002149 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 648757002150 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 648757002151 dimer interface [polypeptide binding]; other site 648757002152 active site 648757002153 glycine-pyridoxal phosphate binding site [chemical binding]; other site 648757002154 folate binding site [chemical binding]; other site 648757002155 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 648757002156 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 648757002157 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 648757002158 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 648757002159 active site 648757002160 substrate binding site [chemical binding]; other site 648757002161 Mg2+ binding site [ion binding]; other site 648757002162 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 648757002163 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 648757002164 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 648757002165 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 648757002166 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 648757002167 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 648757002168 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 648757002169 dimerization interface [polypeptide binding]; other site 648757002170 DPS ferroxidase diiron center [ion binding]; other site 648757002171 ion pore; other site 648757002172 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 648757002173 MPT binding site; other site 648757002174 trimer interface [polypeptide binding]; other site 648757002175 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 648757002176 MoaE homodimer interface [polypeptide binding]; other site 648757002177 MoaD interaction [polypeptide binding]; other site 648757002178 active site residues [active] 648757002179 Protein of unknown function (DUF563); Region: DUF563; pfam04577 648757002180 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 648757002181 endonuclease III; Region: ENDO3c; smart00478 648757002182 minor groove reading motif; other site 648757002183 helix-hairpin-helix signature motif; other site 648757002184 substrate binding pocket [chemical binding]; other site 648757002185 active site 648757002186 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 648757002187 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 648757002188 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 648757002189 ligand binding site [chemical binding]; other site 648757002190 flexible hinge region; other site 648757002191 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 648757002192 putative switch regulator; other site 648757002193 non-specific DNA interactions [nucleotide binding]; other site 648757002194 DNA binding site [nucleotide binding] 648757002195 sequence specific DNA binding site [nucleotide binding]; other site 648757002196 putative cAMP binding site [chemical binding]; other site 648757002197 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 648757002198 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 648757002199 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 648757002200 [2Fe-2S] cluster binding site [ion binding]; other site 648757002201 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 648757002202 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; cl10015 648757002203 homotrimer interaction site [polypeptide binding]; other site 648757002204 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_5; cd06153 648757002205 homotrimer interaction site [polypeptide binding]; other site 648757002206 putative active site [active] 648757002207 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 648757002208 Domain of unknown function (DUF892); Region: DUF892; pfam05974 648757002209 YceI-like domain; Region: YceI; pfam04264 648757002210 YHS domain; Region: YHS; pfam04945 648757002211 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 648757002212 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 648757002213 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 648757002214 motif II; other site 648757002215 NAD-dependent deacetylase; Provisional; Region: PRK00481 648757002216 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 648757002217 NAD+ binding site [chemical binding]; other site 648757002218 substrate binding site [chemical binding]; other site 648757002219 Zn binding site [ion binding]; other site 648757002220 Methyltransferase domain; Region: Methyltransf_23; pfam13489 648757002221 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 648757002222 S-adenosylmethionine binding site [chemical binding]; other site 648757002223 short chain dehydrogenase; Provisional; Region: PRK06197 648757002224 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 648757002225 putative NAD(P) binding site [chemical binding]; other site 648757002226 active site 648757002227 helicase 45; Provisional; Region: PTZ00424 648757002228 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 648757002229 ATP binding site [chemical binding]; other site 648757002230 Mg++ binding site [ion binding]; other site 648757002231 motif III; other site 648757002232 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 648757002233 nucleotide binding region [chemical binding]; other site 648757002234 ATP-binding site [chemical binding]; other site 648757002235 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 648757002236 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 648757002237 putative active site [active] 648757002238 YdjC motif; other site 648757002239 Mg binding site [ion binding]; other site 648757002240 putative homodimer interface [polypeptide binding]; other site 648757002241 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 648757002242 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 648757002243 Ligand binding site; other site 648757002244 Putative Catalytic site; other site 648757002245 DXD motif; other site 648757002246 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 648757002247 YceI-like domain; Region: YceI; pfam04264 648757002248 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 648757002249 dimer interface [polypeptide binding]; other site 648757002250 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 648757002251 active site 648757002252 metal binding site [ion binding]; metal-binding site 648757002253 glutathione binding site [chemical binding]; other site 648757002254 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 648757002255 DNA-binding site [nucleotide binding]; DNA binding site 648757002256 RNA-binding motif; other site 648757002257 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 648757002258 DNA-binding site [nucleotide binding]; DNA binding site 648757002259 RNA-binding motif; other site 648757002260 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 648757002261 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 648757002262 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 648757002263 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 648757002264 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 648757002265 putative active site; other site 648757002266 catalytic triad [active] 648757002267 putative dimer interface [polypeptide binding]; other site 648757002268 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 648757002269 FAD binding domain; Region: FAD_binding_4; pfam01565 648757002270 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 648757002271 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 648757002272 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 648757002273 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 648757002274 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 648757002275 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 648757002276 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 648757002277 NodB motif; other site 648757002278 active site 648757002279 catalytic site [active] 648757002280 metal binding site [ion binding]; metal-binding site 648757002281 EF-hand domain pair; Region: EF_hand_5; pfam13499 648757002282 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 648757002283 Ca2+ binding site [ion binding]; other site 648757002284 Predicted periplasmic protein [Function unknown]; Region: COG3904 648757002285 Transcriptional regulators [Transcription]; Region: GntR; COG1802 648757002286 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 648757002287 DNA-binding site [nucleotide binding]; DNA binding site 648757002288 FCD domain; Region: FCD; pfam07729 648757002289 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 648757002290 Predicted metalloprotease [General function prediction only]; Region: COG2321 648757002291 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 648757002292 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 648757002293 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 648757002294 Substrate binding site; other site 648757002295 Mg++ binding site; other site 648757002296 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 648757002297 active site 648757002298 substrate binding site [chemical binding]; other site 648757002299 CoA binding site [chemical binding]; other site 648757002300 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 648757002301 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 648757002302 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 648757002303 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 648757002304 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 648757002305 glutaminase active site [active] 648757002306 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 648757002307 dimer interface [polypeptide binding]; other site 648757002308 active site 648757002309 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 648757002310 dimer interface [polypeptide binding]; other site 648757002311 active site 648757002312 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 648757002313 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 648757002314 Transcriptional regulator [Transcription]; Region: LysR; COG0583 648757002315 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 648757002316 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 648757002317 dimerization interface [polypeptide binding]; other site 648757002318 EamA-like transporter family; Region: EamA; pfam00892 648757002319 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 648757002320 EamA-like transporter family; Region: EamA; pfam00892 648757002321 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 648757002322 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 648757002323 active site 648757002324 phosphorylation site [posttranslational modification] 648757002325 intermolecular recognition site; other site 648757002326 dimerization interface [polypeptide binding]; other site 648757002327 CheB methylesterase; Region: CheB_methylest; pfam01339 648757002328 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 648757002329 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 648757002330 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 648757002331 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 648757002332 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 648757002333 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 648757002334 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 648757002335 dimer interface [polypeptide binding]; other site 648757002336 putative CheW interface [polypeptide binding]; other site 648757002337 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 648757002338 putative CheA interaction surface; other site 648757002339 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 648757002340 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 648757002341 putative binding surface; other site 648757002342 active site 648757002343 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 648757002344 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 648757002345 ATP binding site [chemical binding]; other site 648757002346 Mg2+ binding site [ion binding]; other site 648757002347 G-X-G motif; other site 648757002348 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 648757002349 Response regulator receiver domain; Region: Response_reg; pfam00072 648757002350 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 648757002351 active site 648757002352 phosphorylation site [posttranslational modification] 648757002353 intermolecular recognition site; other site 648757002354 dimerization interface [polypeptide binding]; other site 648757002355 STAS domain; Region: STAS_2; pfam13466 648757002356 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757002357 Winged helix-turn helix; Region: HTH_29; pfam13551 648757002358 Integrase core domain; Region: rve; pfam00665 648757002359 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757002360 Integrase core domain; Region: rve_3; pfam13683 648757002361 Sporulation related domain; Region: SPOR; pfam05036 648757002362 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 648757002363 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 648757002364 active site pocket [active] 648757002365 cleavage site 648757002366 glutamate racemase; Provisional; Region: PRK00865 648757002367 adenylosuccinate lyase; Provisional; Region: PRK07492 648757002368 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 648757002369 tetramer interface [polypeptide binding]; other site 648757002370 active site 648757002371 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 648757002372 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 648757002373 active site 648757002374 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 648757002375 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 648757002376 23S rRNA binding site [nucleotide binding]; other site 648757002377 L21 binding site [polypeptide binding]; other site 648757002378 L13 binding site [polypeptide binding]; other site 648757002379 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 648757002380 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 648757002381 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 648757002382 dimer interface [polypeptide binding]; other site 648757002383 motif 1; other site 648757002384 active site 648757002385 motif 2; other site 648757002386 motif 3; other site 648757002387 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 648757002388 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 648757002389 generic binding surface II; other site 648757002390 ssDNA binding site; other site 648757002391 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 648757002392 ATP binding site [chemical binding]; other site 648757002393 putative Mg++ binding site [ion binding]; other site 648757002394 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 648757002395 nucleotide binding region [chemical binding]; other site 648757002396 ATP-binding site [chemical binding]; other site 648757002397 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 648757002398 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 648757002399 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 648757002400 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 648757002401 ATP binding site [chemical binding]; other site 648757002402 putative Mg++ binding site [ion binding]; other site 648757002403 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 648757002404 nucleotide binding region [chemical binding]; other site 648757002405 ATP-binding site [chemical binding]; other site 648757002406 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 648757002407 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 648757002408 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 648757002409 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 648757002410 dimerization interface [polypeptide binding]; other site 648757002411 ligand binding site [chemical binding]; other site 648757002412 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 648757002413 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 648757002414 Walker A/P-loop; other site 648757002415 ATP binding site [chemical binding]; other site 648757002416 Q-loop/lid; other site 648757002417 ABC transporter signature motif; other site 648757002418 Walker B; other site 648757002419 D-loop; other site 648757002420 H-loop/switch region; other site 648757002421 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 648757002422 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 648757002423 Walker A/P-loop; other site 648757002424 ATP binding site [chemical binding]; other site 648757002425 Q-loop/lid; other site 648757002426 ABC transporter signature motif; other site 648757002427 Walker B; other site 648757002428 D-loop; other site 648757002429 H-loop/switch region; other site 648757002430 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 648757002431 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 648757002432 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 648757002433 TM-ABC transporter signature motif; other site 648757002434 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 648757002435 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 648757002436 TM-ABC transporter signature motif; other site 648757002437 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 648757002438 dimerization interface [polypeptide binding]; other site 648757002439 putative DNA binding site [nucleotide binding]; other site 648757002440 putative Zn2+ binding site [ion binding]; other site 648757002441 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 648757002442 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 648757002443 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757002444 catalytic residue [active] 648757002445 Chain length determinant protein; Region: Wzz; cl15801 648757002446 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; cl01495 648757002447 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 648757002448 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 648757002449 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757002450 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 648757002451 extended (e) SDRs; Region: SDR_e; cd08946 648757002452 NAD(P) binding site [chemical binding]; other site 648757002453 active site 648757002454 substrate binding site [chemical binding]; other site 648757002455 M28 Zn-Peptidases; Region: M28_like_3; cd05644 648757002456 Domain of unknown function (DUF2172); Region: DUF2172; pfam09940 648757002457 active site 648757002458 metal binding site [ion binding]; metal-binding site 648757002459 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 648757002460 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757002461 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 648757002462 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 648757002463 Methyltransferase domain; Region: Methyltransf_24; pfam13578 648757002464 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 648757002465 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 648757002466 SLBB domain; Region: SLBB; pfam10531 648757002467 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 648757002468 Bacterial sugar transferase; Region: Bac_transf; pfam02397 648757002469 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 648757002470 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 648757002471 active site 648757002472 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 648757002473 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 648757002474 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 648757002475 substrate binding site; other site 648757002476 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 648757002477 Methyltransferase domain; Region: Methyltransf_23; pfam13489 648757002478 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 648757002479 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 648757002480 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 648757002481 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 648757002482 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 648757002483 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 648757002484 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 648757002485 active site 648757002486 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 648757002487 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 648757002488 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 648757002489 substrate binding site [chemical binding]; other site 648757002490 oxyanion hole (OAH) forming residues; other site 648757002491 trimer interface [polypeptide binding]; other site 648757002492 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 648757002493 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 648757002494 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 648757002495 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 648757002496 dimer interface [polypeptide binding]; other site 648757002497 active site 648757002498 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 648757002499 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 648757002500 active site 648757002501 HIGH motif; other site 648757002502 nucleotide binding site [chemical binding]; other site 648757002503 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 648757002504 active site 648757002505 KMSKS motif; other site 648757002506 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 648757002507 tRNA binding surface [nucleotide binding]; other site 648757002508 anticodon binding site; other site 648757002509 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 648757002510 active site 648757002511 multimer interface [polypeptide binding]; other site 648757002512 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 648757002513 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 648757002514 catalytic site [active] 648757002515 putative active site [active] 648757002516 putative substrate binding site [chemical binding]; other site 648757002517 HRDC domain; Region: HRDC; pfam00570 648757002518 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 648757002519 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 648757002520 dimer interface [polypeptide binding]; other site 648757002521 anticodon binding site; other site 648757002522 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 648757002523 homodimer interface [polypeptide binding]; other site 648757002524 motif 1; other site 648757002525 active site 648757002526 motif 2; other site 648757002527 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 648757002528 active site 648757002529 motif 3; other site 648757002530 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 648757002531 Predicted membrane protein [Function unknown]; Region: COG4325 648757002532 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 648757002533 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 648757002534 active site 1 [active] 648757002535 dimer interface [polypeptide binding]; other site 648757002536 hexamer interface [polypeptide binding]; other site 648757002537 active site 2 [active] 648757002538 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 648757002539 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 648757002540 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 648757002541 thiamine phosphate binding site [chemical binding]; other site 648757002542 active site 648757002543 pyrophosphate binding site [ion binding]; other site 648757002544 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 648757002545 ThiS interaction site; other site 648757002546 putative active site [active] 648757002547 tetramer interface [polypeptide binding]; other site 648757002548 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 648757002549 thiS-thiF/thiG interaction site; other site 648757002550 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 648757002551 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 648757002552 dimer interface [polypeptide binding]; other site 648757002553 allosteric magnesium binding site [ion binding]; other site 648757002554 active site 648757002555 aspartate-rich active site metal binding site; other site 648757002556 Schiff base residues; other site 648757002557 threonine dehydratase; Provisional; Region: PRK07334 648757002558 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 648757002559 tetramer interface [polypeptide binding]; other site 648757002560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757002561 catalytic residue [active] 648757002562 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 648757002563 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 648757002564 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 648757002565 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 648757002566 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 648757002567 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 648757002568 dimer interface [polypeptide binding]; other site 648757002569 active site 648757002570 Phosphopantetheine attachment site; Region: PP-binding; cl09936 648757002571 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 648757002572 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 648757002573 acyl-activating enzyme (AAE) consensus motif; other site 648757002574 putative AMP binding site [chemical binding]; other site 648757002575 putative active site [active] 648757002576 putative CoA binding site [chemical binding]; other site 648757002577 Predicted membrane protein [Function unknown]; Region: COG2323 648757002578 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 648757002579 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 648757002580 homodimer interface [polypeptide binding]; other site 648757002581 metal binding site [ion binding]; metal-binding site 648757002582 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 648757002583 homodimer interface [polypeptide binding]; other site 648757002584 active site 648757002585 putative chemical substrate binding site [chemical binding]; other site 648757002586 metal binding site [ion binding]; metal-binding site 648757002587 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 648757002588 multifunctional aminopeptidase A; Provisional; Region: PRK00913 648757002589 interface (dimer of trimers) [polypeptide binding]; other site 648757002590 Substrate-binding/catalytic site; other site 648757002591 Zn-binding sites [ion binding]; other site 648757002592 Predicted permeases [General function prediction only]; Region: COG0795 648757002593 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 648757002594 Predicted permeases [General function prediction only]; Region: COG0795 648757002595 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 648757002596 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 648757002597 OstA-like protein; Region: OstA; cl00844 648757002598 Organic solvent tolerance protein; Region: OstA_C; pfam04453 648757002599 SurA N-terminal domain; Region: SurA_N_3; cl07813 648757002600 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 648757002601 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 648757002602 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 648757002603 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 648757002604 S-adenosylmethionine binding site [chemical binding]; other site 648757002605 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 648757002606 active site residue [active] 648757002607 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 648757002608 dimerization interface [polypeptide binding]; other site 648757002609 putative DNA binding site [nucleotide binding]; other site 648757002610 putative Zn2+ binding site [ion binding]; other site 648757002611 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 648757002612 L-lactate permease; Provisional; Region: PRK10420 648757002613 glycolate transporter; Provisional; Region: PRK09695 648757002614 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 648757002615 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 648757002616 DNA-binding site [nucleotide binding]; DNA binding site 648757002617 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 648757002618 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 648757002619 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 648757002620 active site 648757002621 substrate binding site [chemical binding]; other site 648757002622 FMN binding site [chemical binding]; other site 648757002623 putative catalytic residues [active] 648757002624 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 648757002625 HI0933-like protein; Region: HI0933_like; pfam03486 648757002626 Phasin protein; Region: Phasin_2; cl11491 648757002627 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 648757002628 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 648757002629 Walker A/P-loop; other site 648757002630 ATP binding site [chemical binding]; other site 648757002631 Q-loop/lid; other site 648757002632 ABC transporter signature motif; other site 648757002633 Walker B; other site 648757002634 D-loop; other site 648757002635 H-loop/switch region; other site 648757002636 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 648757002637 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 648757002638 Walker A/P-loop; other site 648757002639 ATP binding site [chemical binding]; other site 648757002640 Q-loop/lid; other site 648757002641 ABC transporter signature motif; other site 648757002642 Walker B; other site 648757002643 D-loop; other site 648757002644 H-loop/switch region; other site 648757002645 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 648757002646 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 648757002647 putative ligand binding site [chemical binding]; other site 648757002648 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 648757002649 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 648757002650 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 648757002651 TM-ABC transporter signature motif; other site 648757002652 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 648757002653 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 648757002654 TM-ABC transporter signature motif; other site 648757002655 Domain of unknown function DUF21; Region: DUF21; pfam01595 648757002656 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 648757002657 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 648757002658 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; cd02205 648757002659 Transporter associated domain; Region: CorC_HlyC; smart01091 648757002660 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 648757002661 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 648757002662 Transglycosylase SLT domain; Region: SLT_2; pfam13406 648757002663 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 648757002664 N-acetyl-D-glucosamine binding site [chemical binding]; other site 648757002665 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 648757002666 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 648757002667 C-terminal peptidase (prc); Region: prc; TIGR00225 648757002668 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 648757002669 protein binding site [polypeptide binding]; other site 648757002670 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 648757002671 Catalytic dyad [active] 648757002672 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 648757002673 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 648757002674 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 648757002675 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 648757002676 substrate binding site [chemical binding]; other site 648757002677 active site 648757002678 catalytic residues [active] 648757002679 heterodimer interface [polypeptide binding]; other site 648757002680 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 648757002681 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 648757002682 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757002683 catalytic residue [active] 648757002684 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 648757002685 active site 648757002686 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 648757002687 IHF - DNA interface [nucleotide binding]; other site 648757002688 IHF dimer interface [polypeptide binding]; other site 648757002689 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 648757002690 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 648757002691 tandem repeat interface [polypeptide binding]; other site 648757002692 oligomer interface [polypeptide binding]; other site 648757002693 active site residues [active] 648757002694 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 648757002695 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 648757002696 RNA binding site [nucleotide binding]; other site 648757002697 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 648757002698 RNA binding site [nucleotide binding]; other site 648757002699 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 648757002700 RNA binding site [nucleotide binding]; other site 648757002701 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 648757002702 RNA binding site [nucleotide binding]; other site 648757002703 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 648757002704 RNA binding site [nucleotide binding]; other site 648757002705 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 648757002706 RNA binding site [nucleotide binding]; other site 648757002707 cytidylate kinase; Provisional; Region: cmk; PRK00023 648757002708 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 648757002709 CMP-binding site; other site 648757002710 The sites determining sugar specificity; other site 648757002711 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 648757002712 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 648757002713 hinge; other site 648757002714 active site 648757002715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 648757002716 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 648757002717 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 648757002718 putative NAD(P) binding site [chemical binding]; other site 648757002719 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 648757002720 hypothetical protein; Provisional; Region: PRK00736 648757002721 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 648757002722 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 648757002723 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 648757002724 active site 648757002725 metal binding site [ion binding]; metal-binding site 648757002726 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 648757002727 oligomer interface [polypeptide binding]; other site 648757002728 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 648757002729 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 648757002730 active site 648757002731 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 648757002732 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 648757002733 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 648757002734 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 648757002735 active site 648757002736 phosphorylation site [posttranslational modification] 648757002737 intermolecular recognition site; other site 648757002738 dimerization interface [polypeptide binding]; other site 648757002739 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 648757002740 DNA binding site [nucleotide binding] 648757002741 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 648757002742 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 648757002743 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 648757002744 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 648757002745 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 648757002746 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 648757002747 putative C-terminal domain interface [polypeptide binding]; other site 648757002748 putative GSH binding site (G-site) [chemical binding]; other site 648757002749 putative dimer interface [polypeptide binding]; other site 648757002750 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 648757002751 putative N-terminal domain interface [polypeptide binding]; other site 648757002752 putative dimer interface [polypeptide binding]; other site 648757002753 putative substrate binding pocket (H-site) [chemical binding]; other site 648757002754 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 648757002755 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 648757002756 catalytic site [active] 648757002757 G-X2-G-X-G-K; other site 648757002758 YceG-like family; Region: YceG; pfam02618 648757002759 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 648757002760 dimerization interface [polypeptide binding]; other site 648757002761 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 648757002762 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 648757002763 dimer interface [polypeptide binding]; other site 648757002764 active site 648757002765 acyl carrier protein; Provisional; Region: acpP; PRK00982 648757002766 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 648757002767 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 648757002768 NAD(P) binding site [chemical binding]; other site 648757002769 homotetramer interface [polypeptide binding]; other site 648757002770 homodimer interface [polypeptide binding]; other site 648757002771 active site 648757002772 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 648757002773 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 648757002774 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 648757002775 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 648757002776 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 648757002777 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 648757002778 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 648757002779 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 648757002780 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 648757002781 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 648757002782 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 648757002783 transmembrane helices; other site 648757002784 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 648757002785 TrkA-C domain; Region: TrkA_C; pfam02080 648757002786 TrkA-C domain; Region: TrkA_C; pfam02080 648757002787 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 648757002788 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 648757002789 replicative DNA helicase; Provisional; Region: PRK09165 648757002790 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 648757002791 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 648757002792 Walker A motif; other site 648757002793 ATP binding site [chemical binding]; other site 648757002794 Walker B motif; other site 648757002795 DNA binding loops [nucleotide binding] 648757002796 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 648757002797 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 648757002798 active site 648757002799 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 648757002800 dimer interface [polypeptide binding]; other site 648757002801 substrate binding site [chemical binding]; other site 648757002802 catalytic residues [active] 648757002803 DNA repair protein RadA; Provisional; Region: PRK11823 648757002804 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 648757002805 Walker A motif/ATP binding site; other site 648757002806 ATP binding site [chemical binding]; other site 648757002807 Walker B motif; other site 648757002808 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 648757002809 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 648757002810 Colicin V production protein; Region: Colicin_V; pfam02674 648757002811 amidophosphoribosyltransferase; Provisional; Region: PRK09123 648757002812 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 648757002813 active site 648757002814 tetramer interface [polypeptide binding]; other site 648757002815 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 648757002816 active site 648757002817 short chain dehydrogenase; Provisional; Region: PRK06500 648757002818 classical (c) SDRs; Region: SDR_c; cd05233 648757002819 NAD(P) binding site [chemical binding]; other site 648757002820 active site 648757002821 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 648757002822 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 648757002823 Coenzyme A binding pocket [chemical binding]; other site 648757002824 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 648757002825 Exopolysaccharide synthesis, ExoD; Region: ExoD; pfam06055 648757002826 PAS fold; Region: PAS_7; pfam12860 648757002827 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 648757002828 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 648757002829 dimer interface [polypeptide binding]; other site 648757002830 phosphorylation site [posttranslational modification] 648757002831 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 648757002832 ATP binding site [chemical binding]; other site 648757002833 Mg2+ binding site [ion binding]; other site 648757002834 G-X-G motif; other site 648757002835 aminopeptidase N; Provisional; Region: pepN; PRK14015 648757002836 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 648757002837 active site 648757002838 Zn binding site [ion binding]; other site 648757002839 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 648757002840 active site 648757002841 putative DNA-binding cleft [nucleotide binding]; other site 648757002842 dimer interface [polypeptide binding]; other site 648757002843 Cupin domain; Region: Cupin_2; cl17218 648757002844 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 648757002845 RuvA N terminal domain; Region: RuvA_N; pfam01330 648757002846 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 648757002847 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 648757002848 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 648757002849 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 648757002850 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 648757002851 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 648757002852 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 648757002853 hydrogenase 1 large subunit; Provisional; Region: PRK10170 648757002854 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 648757002855 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 648757002856 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 648757002857 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 648757002858 putative substrate-binding site; other site 648757002859 nickel binding site [ion binding]; other site 648757002860 HupF/HypC family; Region: HupF_HypC; pfam01455 648757002861 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 648757002862 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 648757002863 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 648757002864 coenzyme F420 hydrogenase, subunit alpha; Region: frhA; TIGR03295 648757002865 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 648757002866 Hydrogenase expression/synthesis hypA family; Region: HypA; cl17671 648757002867 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757002868 HupF/HypC family; Region: HupF_HypC; pfam01455 648757002869 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 648757002870 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 648757002871 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 648757002872 dimerization interface [polypeptide binding]; other site 648757002873 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 648757002874 ATP binding site [chemical binding]; other site 648757002875 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 648757002876 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 648757002877 active site 648757002878 phosphorylation site [posttranslational modification] 648757002879 intermolecular recognition site; other site 648757002880 dimerization interface [polypeptide binding]; other site 648757002881 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 648757002882 Walker A motif; other site 648757002883 ATP binding site [chemical binding]; other site 648757002884 Walker B motif; other site 648757002885 arginine finger; other site 648757002886 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 648757002887 PAS fold; Region: PAS_4; pfam08448 648757002888 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 648757002889 putative active site [active] 648757002890 heme pocket [chemical binding]; other site 648757002891 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 648757002892 dimer interface [polypeptide binding]; other site 648757002893 phosphorylation site [posttranslational modification] 648757002894 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 648757002895 ATP binding site [chemical binding]; other site 648757002896 Mg2+ binding site [ion binding]; other site 648757002897 G-X-G motif; other site 648757002898 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 648757002899 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 648757002900 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 648757002901 Acylphosphatase; Region: Acylphosphatase; pfam00708 648757002902 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 648757002903 HypF finger; Region: zf-HYPF; pfam07503 648757002904 HypF finger; Region: zf-HYPF; pfam07503 648757002905 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 648757002906 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 648757002907 active site 648757002908 metal binding site [ion binding]; metal-binding site 648757002909 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 648757002910 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 648757002911 S-methyl-5-thioribose-1-phosphate isomerase; Region: salvage_mtnA; TIGR00512 648757002912 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 648757002913 Protein of unknown function (DUF3623); Region: DUF3623; pfam12291 648757002914 putative photosynthetic complex assembly protein; Region: photo_alph_chp1; TIGR03054 648757002915 Bacterial PH domain; Region: DUF304; pfam03703 648757002916 photosynthetic reaction center, subunit H, bacterial; Region: puhA; TIGR01150 648757002917 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; cl17581 648757002918 subunit C interaction residues; other site 648757002919 subunit M interaction residues [polypeptide binding]; other site 648757002920 subunit L interaction residues [polypeptide binding]; other site 648757002921 putative proton transfer pathway, P1; other site 648757002922 putative proton transfer pathway, P2; other site 648757002923 PUCC protein; Region: PUCC; pfam03209 648757002924 Mg-protoporphyrin IX methyl transferase; Validated; Region: PRK07580 648757002925 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 648757002926 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 648757002927 S-adenosylmethionine binding site [chemical binding]; other site 648757002928 Magnesium-protoporphyrin IX methyltransferase C-terminus; Region: Mg-por_mtran_C; pfam07109 648757002929 protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional; Region: chlL; PRK13185 648757002930 This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are...; Region: Bchl_like; cd02032 648757002931 P-loop; other site 648757002932 magnesium chelatase subunit H; Provisional; Region: bchH; PRK13405 648757002933 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 648757002934 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 648757002935 light-independent protochlorophyllide reductase subunit B; Provisional; Region: PRK02910 648757002936 Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and...; Region: Pchlide_reductase_B; cd01981 648757002937 Proto-chlorophyllide reductase 57 kD subunit; Region: PCP_red; pfam08369 648757002938 light-independent protochlorophyllide reductase subunit N; Provisional; Region: PRK02842 648757002939 light-independent protochlorophyllide reductase, N subunit; Region: DPOR_bchN; TIGR01279 648757002940 2-vinyl bacteriochlorophyllide hydratase (BCHF); Region: BCHF; pfam07284 648757002941 B12 binding domain; Region: B12-binding_2; pfam02607 648757002942 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; cd02065 648757002943 B12 binding site [chemical binding]; other site 648757002944 transcriptional regulator PpsR; Region: PpsR-CrtJ; TIGR02040 648757002945 PAS domain; Region: PAS_8; pfam13188 648757002946 PAS domain; Region: PAS; smart00091 648757002947 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 648757002948 bacteriochlorophyll/chlorophyll a synthase; Reviewed; Region: PRK07566 648757002949 UbiA prenyltransferase family; Region: UbiA; pfam01040 648757002950 PUCC protein; Region: PUCC; pfam03209 648757002951 geranylgeranyl reductase; Region: BchP-ChlP; TIGR02023 648757002952 TspO/MBR family; Region: TspO_MBR; pfam03073 648757002953 Cytochrome c2 [Energy production and conversion]; Region: COG3474 648757002954 thymidylate synthase; Reviewed; Region: thyA; PRK01827 648757002955 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 648757002956 dimerization interface [polypeptide binding]; other site 648757002957 active site 648757002958 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 648757002959 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 648757002960 folate binding site [chemical binding]; other site 648757002961 NADP+ binding site [chemical binding]; other site 648757002962 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 648757002963 HflK protein; Region: hflK; TIGR01933 648757002964 HflC protein; Region: hflC; TIGR01932 648757002965 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 648757002966 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 648757002967 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 648757002968 protein binding site [polypeptide binding]; other site 648757002969 Haemolytic domain; Region: Haemolytic; pfam01809 648757002970 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 648757002971 dimer interface [polypeptide binding]; other site 648757002972 phosphorylation site [posttranslational modification] 648757002973 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 648757002974 ATP binding site [chemical binding]; other site 648757002975 Mg2+ binding site [ion binding]; other site 648757002976 G-X-G motif; other site 648757002977 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 648757002978 photoactive yellow protein; Region: photo_yellow; TIGR02373 648757002979 Acyltransferase family; Region: Acyl_transf_3; pfam01757 648757002980 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 648757002981 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 648757002982 ligand binding site [chemical binding]; other site 648757002983 CAAX protease self-immunity; Region: Abi; pfam02517 648757002984 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 648757002985 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 648757002986 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 648757002987 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 648757002988 active site 648757002989 dimer interface [polypeptide binding]; other site 648757002990 motif 1; other site 648757002991 motif 2; other site 648757002992 motif 3; other site 648757002993 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 648757002994 anticodon binding site; other site 648757002995 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 648757002996 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 648757002997 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 648757002998 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 648757002999 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 648757003000 active site 648757003001 NTP binding site [chemical binding]; other site 648757003002 metal binding triad [ion binding]; metal-binding site 648757003003 Protein of unknown function DUF86; Region: DUF86; cl01031 648757003004 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 648757003005 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 648757003006 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 648757003007 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 648757003008 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 648757003009 intersubunit interface [polypeptide binding]; other site 648757003010 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 648757003011 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 648757003012 ABC-ATPase subunit interface; other site 648757003013 dimer interface [polypeptide binding]; other site 648757003014 putative PBP binding regions; other site 648757003015 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 648757003016 GAF domain; Region: GAF; pfam01590 648757003017 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 648757003018 Walker A motif; other site 648757003019 ATP binding site [chemical binding]; other site 648757003020 Walker B motif; other site 648757003021 arginine finger; other site 648757003022 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 648757003023 putative alcohol dehydrogenase; Provisional; Region: PRK09860 648757003024 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 648757003025 dimer interface [polypeptide binding]; other site 648757003026 active site 648757003027 metal binding site [ion binding]; metal-binding site 648757003028 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 648757003029 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 648757003030 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 648757003031 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 648757003032 serine acetyltransferase; Provisional; Region: cysE; PRK11132 648757003033 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 648757003034 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 648757003035 trimer interface [polypeptide binding]; other site 648757003036 active site 648757003037 substrate binding site [chemical binding]; other site 648757003038 CoA binding site [chemical binding]; other site 648757003039 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 648757003040 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 648757003041 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 648757003042 trimer interface [polypeptide binding]; other site 648757003043 putative metal binding site [ion binding]; other site 648757003044 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 648757003045 FOG: CBS domain [General function prediction only]; Region: COG0517 648757003046 hypothetical protein; Provisional; Region: PRK10279 648757003047 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 648757003048 nucleophile elbow; other site 648757003049 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 648757003050 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 648757003051 GTP cyclohydrolase I; Provisional; Region: PLN03044 648757003052 active site 648757003053 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 648757003054 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 648757003055 trimerization site [polypeptide binding]; other site 648757003056 active site 648757003057 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 648757003058 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 648757003059 putative tRNA-binding site [nucleotide binding]; other site 648757003060 B3/4 domain; Region: B3_4; pfam03483 648757003061 tRNA synthetase B5 domain; Region: B5; smart00874 648757003062 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 648757003063 dimer interface [polypeptide binding]; other site 648757003064 motif 1; other site 648757003065 motif 3; other site 648757003066 motif 2; other site 648757003067 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 648757003068 Uncharacterized conserved protein [Function unknown]; Region: COG1262 648757003069 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 648757003070 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 648757003071 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 648757003072 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 648757003073 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 648757003074 catalytic residues [active] 648757003075 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 648757003076 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 648757003077 TAP-like protein; Region: Abhydrolase_4; pfam08386 648757003078 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 648757003079 active site 648757003080 DNA binding site [nucleotide binding] 648757003081 Int/Topo IB signature motif; other site 648757003082 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 648757003083 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 648757003084 non-specific DNA binding site [nucleotide binding]; other site 648757003085 salt bridge; other site 648757003086 sequence-specific DNA binding site [nucleotide binding]; other site 648757003087 CHC2 zinc finger; Region: zf-CHC2; cl17510 648757003088 Toprim domain; Region: Toprim_3; pfam13362 648757003089 Domain of unknown function (DUF927); Region: DUF927; pfam06048 648757003090 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757003091 Winged helix-turn helix; Region: HTH_29; pfam13551 648757003092 Integrase core domain; Region: rve; pfam00665 648757003093 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757003094 Integrase core domain; Region: rve_3; pfam13683 648757003095 Transcriptional regulator [Transcription]; Region: LysR; COG0583 648757003096 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 648757003097 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 648757003098 putative effector binding pocket; other site 648757003099 putative dimerization interface [polypeptide binding]; other site 648757003100 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 648757003101 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 648757003102 putative NAD(P) binding site [chemical binding]; other site 648757003103 putative substrate binding site [chemical binding]; other site 648757003104 catalytic Zn binding site [ion binding]; other site 648757003105 structural Zn binding site [ion binding]; other site 648757003106 dimer interface [polypeptide binding]; other site 648757003107 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 648757003108 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 648757003109 putative NAD(P) binding site [chemical binding]; other site 648757003110 putative substrate binding site [chemical binding]; other site 648757003111 catalytic Zn binding site [ion binding]; other site 648757003112 structural Zn binding site [ion binding]; other site 648757003113 dimer interface [polypeptide binding]; other site 648757003114 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 648757003115 NADH(P)-binding; Region: NAD_binding_10; pfam13460 648757003116 NAD(P) binding site [chemical binding]; other site 648757003117 putative active site [active] 648757003118 short chain dehydrogenase; Provisional; Region: PRK06940 648757003119 classical (c) SDRs; Region: SDR_c; cd05233 648757003120 NAD(P) binding site [chemical binding]; other site 648757003121 active site 648757003122 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 648757003123 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 648757003124 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 648757003125 active site 648757003126 catalytic tetrad [active] 648757003127 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 648757003128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 648757003129 NAD(P) binding site [chemical binding]; other site 648757003130 active site 648757003131 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 648757003132 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 648757003133 putative substrate translocation pore; other site 648757003134 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 648757003135 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 648757003136 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 648757003137 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 648757003138 non-specific DNA binding site [nucleotide binding]; other site 648757003139 salt bridge; other site 648757003140 sequence-specific DNA binding site [nucleotide binding]; other site 648757003141 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 648757003142 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 648757003143 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 648757003144 VirB7 interaction site; other site 648757003145 VirB8 protein; Region: VirB8; cl01500 648757003146 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 648757003147 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 648757003148 conjugal transfer protein TrbE; Provisional; Region: PRK13891 648757003149 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 648757003150 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 648757003151 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757003152 Walker B; other site 648757003153 D-loop; other site 648757003154 H-loop/switch region; other site 648757003155 conjugal transfer protein TrbD; Provisional; Region: PRK13823 648757003156 TrbC/VIRB2 family; Region: TrbC; cl01583 648757003157 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 648757003158 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 648757003159 ATP binding site [chemical binding]; other site 648757003160 Walker A motif; other site 648757003161 hexamer interface [polypeptide binding]; other site 648757003162 Walker B motif; other site 648757003163 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 648757003164 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 648757003165 non-specific DNA binding site [nucleotide binding]; other site 648757003166 salt bridge; other site 648757003167 sequence-specific DNA binding site [nucleotide binding]; other site 648757003168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 648757003169 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 648757003170 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 648757003171 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 648757003172 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 648757003173 Walker A motif; other site 648757003174 ATP binding site [chemical binding]; other site 648757003175 Walker B motif; other site 648757003176 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 648757003177 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 648757003178 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 648757003179 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 648757003180 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 648757003181 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 648757003182 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 648757003183 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 648757003184 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 648757003185 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 648757003186 universal stress protein UspE; Provisional; Region: PRK11175 648757003187 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 648757003188 Ligand Binding Site [chemical binding]; other site 648757003189 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 648757003190 Ligand Binding Site [chemical binding]; other site 648757003191 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 648757003192 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 648757003193 putative FMN binding site [chemical binding]; other site 648757003194 Putative phosphatase (DUF442); Region: DUF442; cl17385 648757003195 Putative phosphatase (DUF442); Region: DUF442; cl17385 648757003196 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 648757003197 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 648757003198 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 648757003199 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 648757003200 active site 648757003201 Protein of unknown function, DUF486; Region: DUF486; cl01236 648757003202 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 648757003203 Putative phosphatase (DUF442); Region: DUF442; cl17385 648757003204 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 648757003205 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 648757003206 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 648757003207 Walker A/P-loop; other site 648757003208 ATP binding site [chemical binding]; other site 648757003209 Q-loop/lid; other site 648757003210 ABC transporter signature motif; other site 648757003211 Walker B; other site 648757003212 D-loop; other site 648757003213 H-loop/switch region; other site 648757003214 enolase; Provisional; Region: eno; PRK00077 648757003215 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 648757003216 dimer interface [polypeptide binding]; other site 648757003217 metal binding site [ion binding]; metal-binding site 648757003218 substrate binding pocket [chemical binding]; other site 648757003219 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 648757003220 Ligand Binding Site [chemical binding]; other site 648757003221 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 648757003222 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 648757003223 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 648757003224 dimerization interface [polypeptide binding]; other site 648757003225 putative DNA binding site [nucleotide binding]; other site 648757003226 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 648757003227 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 648757003228 active site 648757003229 nucleotide binding site [chemical binding]; other site 648757003230 HIGH motif; other site 648757003231 KMSKS motif; other site 648757003232 Protein of unknown function (DUF952); Region: DUF952; cl01393 648757003233 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 648757003234 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 648757003235 quinone interaction residues [chemical binding]; other site 648757003236 active site 648757003237 catalytic residues [active] 648757003238 FMN binding site [chemical binding]; other site 648757003239 substrate binding site [chemical binding]; other site 648757003240 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 648757003241 homotrimer interface [polypeptide binding]; other site 648757003242 Walker A motif; other site 648757003243 GTP binding site [chemical binding]; other site 648757003244 Walker B motif; other site 648757003245 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 648757003246 AAA domain; Region: AAA_26; pfam13500 648757003247 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 648757003248 iron-sulfur cluster [ion binding]; other site 648757003249 [2Fe-2S] cluster binding site [ion binding]; other site 648757003250 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 648757003251 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 648757003252 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 648757003253 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 648757003254 Walker A motif; other site 648757003255 ATP binding site [chemical binding]; other site 648757003256 Walker B motif; other site 648757003257 arginine finger; other site 648757003258 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 648757003259 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 648757003260 diiron binding motif [ion binding]; other site 648757003261 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 648757003262 oxidoreductase; Provisional; Region: PRK10015 648757003263 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 648757003264 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 648757003265 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 648757003266 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 648757003267 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 648757003268 Ligand binding site [chemical binding]; other site 648757003269 Electron transfer flavoprotein domain; Region: ETF; pfam01012 648757003270 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK00810 648757003271 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 648757003272 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 648757003273 active site 648757003274 catalytic residues [active] 648757003275 metal binding site [ion binding]; metal-binding site 648757003276 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 648757003277 Peptidase family M50; Region: Peptidase_M50; pfam02163 648757003278 active site 648757003279 putative substrate binding region [chemical binding]; other site 648757003280 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 648757003281 homodimer interface [polypeptide binding]; other site 648757003282 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 648757003283 active site pocket [active] 648757003284 glycogen branching enzyme; Provisional; Region: PRK05402 648757003285 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 648757003286 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 648757003287 active site 648757003288 catalytic site [active] 648757003289 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 648757003290 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 648757003291 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 648757003292 ligand binding site; other site 648757003293 oligomer interface; other site 648757003294 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 648757003295 dimer interface [polypeptide binding]; other site 648757003296 N-terminal domain interface [polypeptide binding]; other site 648757003297 sulfate 1 binding site; other site 648757003298 glycogen synthase; Provisional; Region: PRK14099 648757003299 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 648757003300 ADP-binding pocket [chemical binding]; other site 648757003301 homodimer interface [polypeptide binding]; other site 648757003302 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 648757003303 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 648757003304 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 648757003305 active site 648757003306 catalytic site [active] 648757003307 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 648757003308 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 648757003309 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 648757003310 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 648757003311 ArsC family; Region: ArsC; pfam03960 648757003312 putative catalytic residues [active] 648757003313 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 648757003314 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 648757003315 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 648757003316 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 648757003317 nudix motif; other site 648757003318 PII uridylyl-transferase; Provisional; Region: PRK05092 648757003319 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 648757003320 metal binding triad; other site 648757003321 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 648757003322 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 648757003323 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 648757003324 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 648757003325 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 648757003326 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 648757003327 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 648757003328 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 648757003329 Predicted amidohydrolase [General function prediction only]; Region: COG0388 648757003330 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 648757003331 putative active site [active] 648757003332 catalytic triad [active] 648757003333 putative dimer interface [polypeptide binding]; other site 648757003334 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 648757003335 Coenzyme A binding pocket [chemical binding]; other site 648757003336 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 648757003337 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 648757003338 B12 binding site [chemical binding]; other site 648757003339 cobalt ligand [ion binding]; other site 648757003340 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 648757003341 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 648757003342 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 648757003343 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 648757003344 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 648757003345 dimer interface [polypeptide binding]; other site 648757003346 decamer (pentamer of dimers) interface [polypeptide binding]; other site 648757003347 catalytic triad [active] 648757003348 peroxidatic and resolving cysteines [active] 648757003349 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 648757003350 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 648757003351 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 648757003352 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 648757003353 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 648757003354 catalytic residues [active] 648757003355 central insert; other site 648757003356 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 648757003357 heme exporter protein CcmC; Region: ccmC; TIGR01191 648757003358 heme exporter protein CcmB; Region: ccmB; TIGR01190 648757003359 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 648757003360 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757003361 Walker A/P-loop; other site 648757003362 ATP binding site [chemical binding]; other site 648757003363 Q-loop/lid; other site 648757003364 ABC transporter signature motif; other site 648757003365 Walker B; other site 648757003366 D-loop; other site 648757003367 H-loop/switch region; other site 648757003368 aconitate hydratase; Validated; Region: PRK09277 648757003369 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 648757003370 substrate binding site [chemical binding]; other site 648757003371 ligand binding site [chemical binding]; other site 648757003372 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 648757003373 substrate binding site [chemical binding]; other site 648757003374 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 648757003375 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 648757003376 DNA methylase; Region: N6_N4_Mtase; pfam01555 648757003377 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 648757003378 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 648757003379 ATP-grasp domain; Region: ATP-grasp_4; cl17255 648757003380 osmolarity response regulator; Provisional; Region: ompR; PRK09468 648757003381 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 648757003382 active site 648757003383 phosphorylation site [posttranslational modification] 648757003384 intermolecular recognition site; other site 648757003385 dimerization interface [polypeptide binding]; other site 648757003386 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 648757003387 DNA binding site [nucleotide binding] 648757003388 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 648757003389 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 648757003390 dimerization interface [polypeptide binding]; other site 648757003391 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 648757003392 dimer interface [polypeptide binding]; other site 648757003393 phosphorylation site [posttranslational modification] 648757003394 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 648757003395 ATP binding site [chemical binding]; other site 648757003396 Mg2+ binding site [ion binding]; other site 648757003397 G-X-G motif; other site 648757003398 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 648757003399 cyclase homology domain; Region: CHD; cd07302 648757003400 nucleotidyl binding site; other site 648757003401 metal binding site [ion binding]; metal-binding site 648757003402 dimer interface [polypeptide binding]; other site 648757003403 Predicted integral membrane protein [Function unknown]; Region: COG5616 648757003404 TPR repeat; Region: TPR_11; pfam13414 648757003405 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 648757003406 TPR motif; other site 648757003407 TPR repeat; Region: TPR_11; pfam13414 648757003408 binding surface 648757003409 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 648757003410 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 648757003411 ligand binding site [chemical binding]; other site 648757003412 flexible hinge region; other site 648757003413 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 648757003414 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 648757003415 active site 648757003416 TspO/MBR family; Region: TspO_MBR; pfam03073 648757003417 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 648757003418 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 648757003419 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 648757003420 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 648757003421 active site 648757003422 HIGH motif; other site 648757003423 dimer interface [polypeptide binding]; other site 648757003424 KMSKS motif; other site 648757003425 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 648757003426 Ligand Binding Site [chemical binding]; other site 648757003427 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 648757003428 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 648757003429 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 648757003430 putative FMN binding site [chemical binding]; other site 648757003431 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 648757003432 Glycoprotease family; Region: Peptidase_M22; pfam00814 648757003433 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 648757003434 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 648757003435 Coenzyme A binding pocket [chemical binding]; other site 648757003436 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 648757003437 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 648757003438 putative acyl-acceptor binding pocket; other site 648757003439 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 648757003440 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 648757003441 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 648757003442 FeS/SAM binding site; other site 648757003443 TRAM domain; Region: TRAM; cl01282 648757003444 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 648757003445 PhoH-like protein; Region: PhoH; pfam02562 648757003446 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 648757003447 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 648757003448 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 648757003449 Transporter associated domain; Region: CorC_HlyC; smart01091 648757003450 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757003451 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 648757003452 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 648757003453 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 648757003454 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 648757003455 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 648757003456 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 648757003457 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 648757003458 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 648757003459 Walker A/P-loop; other site 648757003460 ATP binding site [chemical binding]; other site 648757003461 Q-loop/lid; other site 648757003462 ABC transporter signature motif; other site 648757003463 Walker B; other site 648757003464 D-loop; other site 648757003465 H-loop/switch region; other site 648757003466 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 648757003467 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 648757003468 Walker A/P-loop; other site 648757003469 ATP binding site [chemical binding]; other site 648757003470 Q-loop/lid; other site 648757003471 ABC transporter signature motif; other site 648757003472 Walker B; other site 648757003473 D-loop; other site 648757003474 H-loop/switch region; other site 648757003475 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 648757003476 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 648757003477 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757003478 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 648757003479 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 648757003480 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 648757003481 Proline dehydrogenase; Region: Pro_dh; pfam01619 648757003482 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 648757003483 Glutamate binding site [chemical binding]; other site 648757003484 NAD binding site [chemical binding]; other site 648757003485 catalytic residues [active] 648757003486 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 648757003487 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 648757003488 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 648757003489 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 648757003490 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 648757003491 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 648757003492 purine monophosphate binding site [chemical binding]; other site 648757003493 dimer interface [polypeptide binding]; other site 648757003494 putative catalytic residues [active] 648757003495 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 648757003496 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 648757003497 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 648757003498 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 648757003499 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 648757003500 LrgB-like family; Region: LrgB; pfam04172 648757003501 LrgA family; Region: LrgA; pfam03788 648757003502 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 648757003503 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 648757003504 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 648757003505 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 648757003506 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 648757003507 active site 648757003508 substrate binding site [chemical binding]; other site 648757003509 metal binding site [ion binding]; metal-binding site 648757003510 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 648757003511 dihydropteroate synthase; Region: DHPS; TIGR01496 648757003512 substrate binding pocket [chemical binding]; other site 648757003513 dimer interface [polypeptide binding]; other site 648757003514 inhibitor binding site; inhibition site 648757003515 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 648757003516 Pantoate-beta-alanine ligase; Region: PanC; cd00560 648757003517 pantoate--beta-alanine ligase; Region: panC; TIGR00018 648757003518 active site 648757003519 ATP-binding site [chemical binding]; other site 648757003520 pantoate-binding site; other site 648757003521 HXXH motif; other site 648757003522 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 648757003523 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 648757003524 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 648757003525 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 648757003526 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 648757003527 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 648757003528 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 648757003529 salt bridge; other site 648757003530 non-specific DNA binding site [nucleotide binding]; other site 648757003531 Helix-turn-helix; Region: HTH_3; pfam01381 648757003532 sequence-specific DNA binding site [nucleotide binding]; other site 648757003533 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 648757003534 polymerase nucleotide-binding site; other site 648757003535 DNA-binding residues [nucleotide binding]; DNA binding site 648757003536 nucleotide binding site [chemical binding]; other site 648757003537 primase nucleotide-binding site [nucleotide binding]; other site 648757003538 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 648757003539 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 648757003540 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 648757003541 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 648757003542 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 648757003543 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 648757003544 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 648757003545 CRISPR-associated protein Cas7/Csd2, subtype I-C/DVULG; Region: cas_Csd2; TIGR02589 648757003546 CRISPR-associated protein Cas4; Region: cas4; TIGR00372 648757003547 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 648757003548 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 648757003549 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 648757003550 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 648757003551 Walker A/P-loop; other site 648757003552 ATP binding site [chemical binding]; other site 648757003553 Q-loop/lid; other site 648757003554 ABC transporter signature motif; other site 648757003555 Walker B; other site 648757003556 D-loop; other site 648757003557 H-loop/switch region; other site 648757003558 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 648757003559 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 648757003560 ABC-ATPase subunit interface; other site 648757003561 dimer interface [polypeptide binding]; other site 648757003562 putative PBP binding regions; other site 648757003563 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 648757003564 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 648757003565 ABC-ATPase subunit interface; other site 648757003566 dimer interface [polypeptide binding]; other site 648757003567 putative PBP binding regions; other site 648757003568 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 648757003569 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 648757003570 intersubunit interface [polypeptide binding]; other site 648757003571 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 648757003572 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 648757003573 N-terminal plug; other site 648757003574 ligand-binding site [chemical binding]; other site 648757003575 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 648757003576 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 648757003577 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 648757003578 FAD binding pocket [chemical binding]; other site 648757003579 FAD binding motif [chemical binding]; other site 648757003580 phosphate binding motif [ion binding]; other site 648757003581 NAD binding pocket [chemical binding]; other site 648757003582 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 648757003583 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757003584 Winged helix-turn helix; Region: HTH_29; pfam13551 648757003585 Integrase core domain; Region: rve; pfam00665 648757003586 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757003587 Integrase core domain; Region: rve_3; pfam13683 648757003588 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 648757003589 FecR protein; Region: FecR; pfam04773 648757003590 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 648757003591 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 648757003592 DNA binding residues [nucleotide binding] 648757003593 Caspase domain; Region: Peptidase_C14; pfam00656 648757003594 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 648757003595 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 648757003596 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 648757003597 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 648757003598 active site 648757003599 metal binding site [ion binding]; metal-binding site 648757003600 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 648757003601 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 648757003602 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 648757003603 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757003604 Winged helix-turn helix; Region: HTH_29; pfam13551 648757003605 Integrase core domain; Region: rve; pfam00665 648757003606 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757003607 Integrase core domain; Region: rve_3; pfam13683 648757003608 Transposase domain (DUF772); Region: DUF772; pfam05598 648757003609 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 648757003610 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 648757003611 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 648757003612 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 648757003613 Sel1-like repeats; Region: SEL1; smart00671 648757003614 Sel1-like repeats; Region: SEL1; smart00671 648757003615 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 648757003616 transposase/IS protein; Provisional; Region: PRK09183 648757003617 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 648757003618 Walker A motif; other site 648757003619 ATP binding site [chemical binding]; other site 648757003620 Walker B motif; other site 648757003621 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 648757003622 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 648757003623 ligand binding site [chemical binding]; other site 648757003624 Caspase domain; Region: Peptidase_C14; pfam00656 648757003625 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 648757003626 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; cd00190 648757003627 cleavage site 648757003628 active site 648757003629 substrate binding sites [chemical binding]; other site 648757003630 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 648757003631 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 648757003632 reactive center loop; other site 648757003633 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 648757003634 TPR motif; other site 648757003635 TPR repeat; Region: TPR_11; pfam13414 648757003636 binding surface 648757003637 TPR repeat; Region: TPR_11; pfam13414 648757003638 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 648757003639 binding surface 648757003640 TPR motif; other site 648757003641 Tetratricopeptide repeat; Region: TPR_16; pfam13432 648757003642 Caspase domain; Region: Peptidase_C14; pfam00656 648757003643 integrase; Provisional; Region: PRK09692 648757003644 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 648757003645 active site 648757003646 Int/Topo IB signature motif; other site 648757003647 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 648757003648 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 648757003649 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 648757003650 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 648757003651 active site 648757003652 nucleophile elbow; other site 648757003653 Methyltransferase domain; Region: Methyltransf_23; pfam13489 648757003654 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 648757003655 S-adenosylmethionine binding site [chemical binding]; other site 648757003656 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 648757003657 RNA polymerase sigma-70 factor, sigma-E family; Region: SigE-fam_strep; TIGR02983 648757003658 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 648757003659 DNA binding residues [nucleotide binding] 648757003660 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 648757003661 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 648757003662 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 648757003663 putative active site [active] 648757003664 putative substrate binding site [chemical binding]; other site 648757003665 putative cosubstrate binding site; other site 648757003666 catalytic site [active] 648757003667 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 648757003668 Cation efflux family; Region: Cation_efflux; pfam01545 648757003669 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 648757003670 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 648757003671 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 648757003672 AP (apurinic/apyrimidinic) site pocket; other site 648757003673 DNA interaction; other site 648757003674 Metal-binding active site; metal-binding site 648757003675 aspartate aminotransferase; Provisional; Region: PRK05764 648757003676 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 648757003677 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757003678 homodimer interface [polypeptide binding]; other site 648757003679 catalytic residue [active] 648757003680 Methyltransferase domain; Region: Methyltransf_23; pfam13489 648757003681 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 648757003682 S-adenosylmethionine binding site [chemical binding]; other site 648757003683 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 648757003684 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 648757003685 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 648757003686 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 648757003687 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 648757003688 active site 648757003689 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 648757003690 Methyltransferase domain; Region: Methyltransf_23; pfam13489 648757003691 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 648757003692 S-adenosylmethionine binding site [chemical binding]; other site 648757003693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 648757003694 Protein of unknown function, DUF482; Region: DUF482; pfam04339 648757003695 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 648757003696 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 648757003697 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 648757003698 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 648757003699 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 648757003700 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 648757003701 Walker A/P-loop; other site 648757003702 ATP binding site [chemical binding]; other site 648757003703 Q-loop/lid; other site 648757003704 ABC transporter signature motif; other site 648757003705 Walker B; other site 648757003706 D-loop; other site 648757003707 H-loop/switch region; other site 648757003708 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 648757003709 OstA-like protein; Region: OstA; pfam03968 648757003710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 648757003711 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 648757003712 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 648757003713 catalytic site [active] 648757003714 putative active site [active] 648757003715 putative substrate binding site [chemical binding]; other site 648757003716 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 648757003717 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 648757003718 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 648757003719 Cytochrome c; Region: Cytochrom_C; pfam00034 648757003720 Homeodomain-like domain; Region: HTH_23; pfam13384 648757003721 Winged helix-turn helix; Region: HTH_29; pfam13551 648757003722 Homeodomain-like domain; Region: HTH_32; pfam13565 648757003723 DDE superfamily endonuclease; Region: DDE_3; pfam13358 648757003724 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 648757003725 cytochrome b; Provisional; Region: CYTB; MTH00156 648757003726 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 648757003727 interchain domain interface [polypeptide binding]; other site 648757003728 intrachain domain interface; other site 648757003729 heme bH binding site [chemical binding]; other site 648757003730 heme bL binding site [chemical binding]; other site 648757003731 Qo binding site; other site 648757003732 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 648757003733 interchain domain interface [polypeptide binding]; other site 648757003734 intrachain domain interface; other site 648757003735 Qi binding site; other site 648757003736 Qo binding site; other site 648757003737 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 648757003738 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 648757003739 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 648757003740 [2Fe-2S] cluster binding site [ion binding]; other site 648757003741 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 648757003742 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 648757003743 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 648757003744 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 648757003745 IHF dimer interface [polypeptide binding]; other site 648757003746 IHF - DNA interface [nucleotide binding]; other site 648757003747 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 648757003748 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 648757003749 dimer interface [polypeptide binding]; other site 648757003750 active site 648757003751 CoA binding pocket [chemical binding]; other site 648757003752 putative phosphate acyltransferase; Provisional; Region: PRK05331 648757003753 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 648757003754 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 648757003755 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 648757003756 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 648757003757 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 648757003758 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 648757003759 dimerization interface [polypeptide binding]; other site 648757003760 putative ATP binding site [chemical binding]; other site 648757003761 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 648757003762 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 648757003763 active site 648757003764 substrate binding site [chemical binding]; other site 648757003765 cosubstrate binding site; other site 648757003766 catalytic site [active] 648757003767 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 648757003768 putative di-iron ligands [ion binding]; other site 648757003769 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 648757003770 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 648757003771 dimer interface [polypeptide binding]; other site 648757003772 active site 648757003773 CoA binding pocket [chemical binding]; other site 648757003774 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 648757003775 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 648757003776 active site 648757003777 homotetramer interface [polypeptide binding]; other site 648757003778 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 648757003779 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 648757003780 putative active site [active] 648757003781 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 648757003782 glucose-1-phosphate thymidylyltransferase RfbA; Provisional; Region: PRK15480 648757003783 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 648757003784 active site 648757003785 tetramer interface; other site 648757003786 Transglycosylase SLT domain; Region: SLT_2; pfam13406 648757003787 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 648757003788 N-acetyl-D-glucosamine binding site [chemical binding]; other site 648757003789 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 648757003790 active site 648757003791 catalytic triad [active] 648757003792 oxyanion hole [active] 648757003793 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 648757003794 active site 648757003795 oxyanion hole [active] 648757003796 catalytic triad [active] 648757003797 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 648757003798 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 648757003799 HflX GTPase family; Region: HflX; cd01878 648757003800 G1 box; other site 648757003801 GTP/Mg2+ binding site [chemical binding]; other site 648757003802 Switch I region; other site 648757003803 G2 box; other site 648757003804 G3 box; other site 648757003805 Switch II region; other site 648757003806 G4 box; other site 648757003807 G5 box; other site 648757003808 bacterial Hfq-like; Region: Hfq; cd01716 648757003809 hexamer interface [polypeptide binding]; other site 648757003810 Sm1 motif; other site 648757003811 RNA binding site [nucleotide binding]; other site 648757003812 Sm2 motif; other site 648757003813 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 648757003814 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 648757003815 homodimer interface [polypeptide binding]; other site 648757003816 substrate-cofactor binding pocket; other site 648757003817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757003818 catalytic residue [active] 648757003819 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 648757003820 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 648757003821 active site 648757003822 phosphorylation site [posttranslational modification] 648757003823 intermolecular recognition site; other site 648757003824 dimerization interface [polypeptide binding]; other site 648757003825 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 648757003826 Walker A motif; other site 648757003827 ATP binding site [chemical binding]; other site 648757003828 Walker B motif; other site 648757003829 arginine finger; other site 648757003830 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 648757003831 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 648757003832 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 648757003833 dimerization interface [polypeptide binding]; other site 648757003834 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 648757003835 dimer interface [polypeptide binding]; other site 648757003836 phosphorylation site [posttranslational modification] 648757003837 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 648757003838 ATP binding site [chemical binding]; other site 648757003839 Mg2+ binding site [ion binding]; other site 648757003840 G-X-G motif; other site 648757003841 lipoyl synthase; Provisional; Region: PRK05481 648757003842 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 648757003843 putative coenzyme Q binding site [chemical binding]; other site 648757003844 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 648757003845 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 648757003846 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 648757003847 substrate binding site; other site 648757003848 dimer interface; other site 648757003849 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 648757003850 homotrimer interaction site [polypeptide binding]; other site 648757003851 zinc binding site [ion binding]; other site 648757003852 CDP-binding sites; other site 648757003853 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 648757003854 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 648757003855 dimer interface [polypeptide binding]; other site 648757003856 phosphorylation site [posttranslational modification] 648757003857 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 648757003858 ATP binding site [chemical binding]; other site 648757003859 Mg2+ binding site [ion binding]; other site 648757003860 G-X-G motif; other site 648757003861 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 648757003862 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 648757003863 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 648757003864 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 648757003865 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 648757003866 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 648757003867 E3 interaction surface; other site 648757003868 lipoyl attachment site [posttranslational modification]; other site 648757003869 e3 binding domain; Region: E3_binding; pfam02817 648757003870 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 648757003871 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 648757003872 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 648757003873 E3 interaction surface; other site 648757003874 lipoyl attachment site [posttranslational modification]; other site 648757003875 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 648757003876 alpha subunit interface [polypeptide binding]; other site 648757003877 TPP binding site [chemical binding]; other site 648757003878 heterodimer interface [polypeptide binding]; other site 648757003879 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 648757003880 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 648757003881 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 648757003882 tetramer interface [polypeptide binding]; other site 648757003883 TPP-binding site [chemical binding]; other site 648757003884 heterodimer interface [polypeptide binding]; other site 648757003885 phosphorylation loop region [posttranslational modification] 648757003886 Septum formation initiator; Region: DivIC; cl17659 648757003887 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 648757003888 intracellular protease, PfpI family; Region: PfpI; TIGR01382 648757003889 proposed catalytic triad [active] 648757003890 conserved cys residue [active] 648757003891 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 648757003892 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 648757003893 dimer interface [polypeptide binding]; other site 648757003894 ADP-ribose binding site [chemical binding]; other site 648757003895 active site 648757003896 nudix motif; other site 648757003897 metal binding site [ion binding]; metal-binding site 648757003898 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 648757003899 ADP-ribose binding site [chemical binding]; other site 648757003900 Macro domain, a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 648757003901 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 648757003902 Transcriptional regulators [Transcription]; Region: GntR; COG1802 648757003903 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 648757003904 DNA-binding site [nucleotide binding]; DNA binding site 648757003905 FCD domain; Region: FCD; pfam07729 648757003906 Predicted flavoprotein [General function prediction only]; Region: COG0431 648757003907 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 648757003908 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 648757003909 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 648757003910 C-terminal domain interface [polypeptide binding]; other site 648757003911 GSH binding site (G-site) [chemical binding]; other site 648757003912 dimer interface [polypeptide binding]; other site 648757003913 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 648757003914 dimer interface [polypeptide binding]; other site 648757003915 substrate binding pocket (H-site) [chemical binding]; other site 648757003916 N-terminal domain interface [polypeptide binding]; other site 648757003917 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 648757003918 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 648757003919 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 648757003920 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 648757003921 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 648757003922 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 648757003923 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 648757003924 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 648757003925 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 648757003926 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 648757003927 dimer interface [polypeptide binding]; other site 648757003928 conserved gate region; other site 648757003929 putative PBP binding loops; other site 648757003930 ABC-ATPase subunit interface; other site 648757003931 sulfate transport protein; Provisional; Region: cysT; CHL00187 648757003932 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 648757003933 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 648757003934 dimer interface [polypeptide binding]; other site 648757003935 conserved gate region; other site 648757003936 putative PBP binding loops; other site 648757003937 ABC-ATPase subunit interface; other site 648757003938 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 648757003939 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 648757003940 Walker A/P-loop; other site 648757003941 ATP binding site [chemical binding]; other site 648757003942 Q-loop/lid; other site 648757003943 ABC transporter signature motif; other site 648757003944 Walker B; other site 648757003945 D-loop; other site 648757003946 H-loop/switch region; other site 648757003947 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 648757003948 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 648757003949 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 648757003950 Walker A/P-loop; other site 648757003951 ATP binding site [chemical binding]; other site 648757003952 Q-loop/lid; other site 648757003953 ABC transporter signature motif; other site 648757003954 Walker B; other site 648757003955 D-loop; other site 648757003956 H-loop/switch region; other site 648757003957 PBP superfamily domain; Region: PBP_like_2; cl17296 648757003958 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 648757003959 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 648757003960 ligand binding site [chemical binding]; other site 648757003961 Protein of unknown function DUF45; Region: DUF45; pfam01863 648757003962 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 648757003963 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 648757003964 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 648757003965 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 648757003966 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 648757003967 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 648757003968 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 648757003969 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 648757003970 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 648757003971 ATP-NAD kinase; Region: NAD_kinase; pfam01513 648757003972 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 648757003973 von Willebrand factor type A domain; Region: VWA_2; pfam13519 648757003974 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 648757003975 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 648757003976 EamA-like transporter family; Region: EamA; pfam00892 648757003977 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 648757003978 oligomeric interface; other site 648757003979 putative active site [active] 648757003980 homodimer interface [polypeptide binding]; other site 648757003981 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 648757003982 ABC-2 type transporter; Region: ABC2_membrane; cl17235 648757003983 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 648757003984 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 648757003985 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 648757003986 Walker A/P-loop; other site 648757003987 ATP binding site [chemical binding]; other site 648757003988 Q-loop/lid; other site 648757003989 ABC transporter signature motif; other site 648757003990 Walker B; other site 648757003991 D-loop; other site 648757003992 H-loop/switch region; other site 648757003993 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 648757003994 PIF1-like helicase; Region: PIF1; pfam05970 648757003995 Walker A motif; other site 648757003996 ATP binding site [chemical binding]; other site 648757003997 Walker B motif; other site 648757003998 Family description; Region: UvrD_C_2; pfam13538 648757003999 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 648757004000 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 648757004001 NodB motif; other site 648757004002 active site 648757004003 catalytic site [active] 648757004004 metal binding site [ion binding]; metal-binding site 648757004005 DASH complex subunit Spc34; Region: DASH_Spc34; pfam08657 648757004006 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 648757004007 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 648757004008 oligomerization interface [polypeptide binding]; other site 648757004009 active site 648757004010 metal binding site [ion binding]; metal-binding site 648757004011 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 648757004012 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 648757004013 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 648757004014 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 648757004015 catalytic triad [active] 648757004016 Uncharacterized conserved protein [Function unknown]; Region: COG1432 648757004017 LabA_like proteins; Region: LabA; cd10911 648757004018 putative metal binding site [ion binding]; other site 648757004019 phosphoglucomutase; Region: PLN02307 648757004020 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 648757004021 active site 648757004022 substrate binding site [chemical binding]; other site 648757004023 metal binding site [ion binding]; metal-binding site 648757004024 osmolarity response regulator; Provisional; Region: ompR; PRK09468 648757004025 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 648757004026 active site 648757004027 phosphorylation site [posttranslational modification] 648757004028 intermolecular recognition site; other site 648757004029 dimerization interface [polypeptide binding]; other site 648757004030 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 648757004031 DNA binding site [nucleotide binding] 648757004032 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 648757004033 dimerization interface [polypeptide binding]; other site 648757004034 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 648757004035 dimer interface [polypeptide binding]; other site 648757004036 phosphorylation site [posttranslational modification] 648757004037 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 648757004038 ATP binding site [chemical binding]; other site 648757004039 Mg2+ binding site [ion binding]; other site 648757004040 G-X-G motif; other site 648757004041 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 648757004042 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 648757004043 CAP-like domain; other site 648757004044 active site 648757004045 primary dimer interface [polypeptide binding]; other site 648757004046 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 648757004047 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 648757004048 LexA repressor; Validated; Region: PRK00215 648757004049 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 648757004050 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 648757004051 Catalytic site [active] 648757004052 putative transporter; Provisional; Region: PRK10504 648757004053 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 648757004054 putative substrate translocation pore; other site 648757004055 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 648757004056 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 648757004057 oligopeptide transporter, OPT superfamily; Region: OPT_sfam; TIGR00728 648757004058 OPT oligopeptide transporter protein; Region: OPT; pfam03169 648757004059 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 648757004060 substrate binding pocket [chemical binding]; other site 648757004061 active site 648757004062 iron coordination sites [ion binding]; other site 648757004063 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 648757004064 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 648757004065 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 648757004066 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 648757004067 dimer interface [polypeptide binding]; other site 648757004068 conserved gate region; other site 648757004069 putative PBP binding loops; other site 648757004070 ABC-ATPase subunit interface; other site 648757004071 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 648757004072 dimer interface [polypeptide binding]; other site 648757004073 conserved gate region; other site 648757004074 putative PBP binding loops; other site 648757004075 ABC-ATPase subunit interface; other site 648757004076 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 648757004077 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757004078 Walker A/P-loop; other site 648757004079 ATP binding site [chemical binding]; other site 648757004080 Q-loop/lid; other site 648757004081 ABC transporter signature motif; other site 648757004082 Walker B; other site 648757004083 D-loop; other site 648757004084 H-loop/switch region; other site 648757004085 Fic family protein [Function unknown]; Region: COG3177 648757004086 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 648757004087 Fic/DOC family; Region: Fic; pfam02661 648757004088 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 648757004089 AIPR protein; Region: AIPR; pfam10592 648757004090 Helix-turn-helix domain; Region: HTH_17; pfam12728 648757004091 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 648757004092 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 648757004093 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 648757004094 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 648757004095 Walker A motif; other site 648757004096 ATP binding site [chemical binding]; other site 648757004097 Walker B motif; other site 648757004098 Peptidase family M48; Region: Peptidase_M48; cl12018 648757004099 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 648757004100 active site clefts [active] 648757004101 zinc binding site [ion binding]; other site 648757004102 dimer interface [polypeptide binding]; other site 648757004103 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 648757004104 Methyltransferase domain; Region: Methyltransf_26; pfam13659 648757004105 Domain of unknown function (DUF955); Region: DUF955; pfam06114 648757004106 Homeodomain-like domain; Region: HTH_23; pfam13384 648757004107 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 648757004108 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 648757004109 P63C domain; Region: P63C; pfam10546 648757004110 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 648757004111 non-specific DNA binding site [nucleotide binding]; other site 648757004112 salt bridge; other site 648757004113 sequence-specific DNA binding site [nucleotide binding]; other site 648757004114 HEAT repeats; Region: HEAT_2; pfam13646 648757004115 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757004116 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757004117 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757004118 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757004119 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757004120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757004121 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757004122 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757004123 Transposase; Region: HTH_Tnp_1; pfam01527 648757004124 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 648757004125 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 648757004126 SIR2-like domain; Region: SIR2_2; pfam13289 648757004127 Transposase; Region: HTH_Tnp_1; pfam01527 648757004128 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757004129 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757004130 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757004131 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757004132 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757004133 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757004134 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757004135 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757004136 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 648757004137 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 648757004138 HNH endonuclease; Region: HNH_2; pfam13391 648757004139 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 648757004140 active site 648757004141 Zn binding site [ion binding]; other site 648757004142 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 648757004143 Predicted DNA modification methylase [DNA replication, recombination, and repair]; Region: COG1041 648757004144 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 648757004145 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 648757004146 P-loop; other site 648757004147 Magnesium ion binding site [ion binding]; other site 648757004148 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 648757004149 RloB-like protein; Region: RloB; pfam13707 648757004150 AAA domain; Region: AAA_21; pfam13304 648757004151 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 648757004152 ABC transporter signature motif; other site 648757004153 Walker B; other site 648757004154 D-loop; other site 648757004155 H-loop/switch region; other site 648757004156 Fic family protein [Function unknown]; Region: COG3177 648757004157 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 648757004158 Fic/DOC family; Region: Fic; pfam02661 648757004159 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 648757004160 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 648757004161 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 648757004162 active site 648757004163 DNA binding site [nucleotide binding] 648757004164 Int/Topo IB signature motif; other site 648757004165 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 648757004166 Helix-turn-helix; Region: HTH_3; pfam01381 648757004167 salt bridge; other site 648757004168 non-specific DNA binding site [nucleotide binding]; other site 648757004169 sequence-specific DNA binding site [nucleotide binding]; other site 648757004170 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 648757004171 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 648757004172 active site 648757004173 Helix-turn-helix domain; Region: HTH_17; pfam12728 648757004174 RecT family; Region: RecT; cl04285 648757004175 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 648757004176 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 648757004177 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 648757004178 non-specific DNA binding site [nucleotide binding]; other site 648757004179 salt bridge; other site 648757004180 sequence-specific DNA binding site [nucleotide binding]; other site 648757004181 GcrA cell cycle regulator; Region: GcrA; cl11564 648757004182 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 648757004183 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 648757004184 ATP binding site [chemical binding]; other site 648757004185 putative Mg++ binding site [ion binding]; other site 648757004186 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 648757004187 nucleotide binding region [chemical binding]; other site 648757004188 ATP-binding site [chemical binding]; other site 648757004189 Ring finger; Region: RING; smart00184 648757004190 VRR-NUC domain; Region: VRR_NUC; pfam08774 648757004191 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 648757004192 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 648757004193 active site 648757004194 metal binding site [ion binding]; metal-binding site 648757004195 interdomain interaction site; other site 648757004196 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757004197 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757004198 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757004199 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757004200 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757004201 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757004202 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757004203 Transposase; Region: HTH_Tnp_1; pfam01527 648757004204 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757004205 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 648757004206 active site 648757004207 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 648757004208 additional DNA contacts [nucleotide binding]; other site 648757004209 mismatch recognition site; other site 648757004210 active site 648757004211 zinc binding site [ion binding]; other site 648757004212 DNA intercalation site [nucleotide binding]; other site 648757004213 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 648757004214 Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine; Region: Bromodomain; cl02556 648757004215 acetyllysine binding site; other site 648757004216 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 648757004217 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 648757004218 cofactor binding site; other site 648757004219 DNA binding site [nucleotide binding] 648757004220 substrate interaction site [chemical binding]; other site 648757004221 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 648757004222 DNA methylase; Region: N6_N4_Mtase; pfam01555 648757004223 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 648757004224 AAA ATPase domain; Region: AAA_15; pfam13175 648757004225 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757004226 Walker A/P-loop; other site 648757004227 ATP binding site [chemical binding]; other site 648757004228 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 648757004229 putative active site [active] 648757004230 putative metal-binding site [ion binding]; other site 648757004231 Family description; Region: UvrD_C_2; pfam13538 648757004232 Prophage antirepressor [Transcription]; Region: COG3617 648757004233 BRO family, N-terminal domain; Region: Bro-N; smart01040 648757004234 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 648757004235 non-specific DNA binding site [nucleotide binding]; other site 648757004236 salt bridge; other site 648757004237 sequence-specific DNA binding site [nucleotide binding]; other site 648757004238 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757004239 Winged helix-turn helix; Region: HTH_29; pfam13551 648757004240 Integrase core domain; Region: rve; pfam00665 648757004241 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757004242 Integrase core domain; Region: rve_3; pfam13683 648757004243 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 648757004244 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 648757004245 ligand binding site [chemical binding]; other site 648757004246 Transposase; Region: HTH_Tnp_1; pfam01527 648757004247 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757004248 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757004249 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757004250 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757004251 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757004252 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757004253 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 648757004254 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 648757004255 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 648757004256 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 648757004257 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 648757004258 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 648757004259 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 648757004260 active site 648757004261 phosphorylation site [posttranslational modification] 648757004262 intermolecular recognition site; other site 648757004263 dimerization interface [polypeptide binding]; other site 648757004264 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 648757004265 DNA binding residues [nucleotide binding] 648757004266 dimerization interface [polypeptide binding]; other site 648757004267 GAF domain; Region: GAF; pfam01590 648757004268 Phytochrome region; Region: PHY; pfam00360 648757004269 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 648757004270 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 648757004271 ATP binding site [chemical binding]; other site 648757004272 Mg2+ binding site [ion binding]; other site 648757004273 G-X-G motif; other site 648757004274 PAS fold; Region: PAS_3; pfam08447 648757004275 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 648757004276 putative active site [active] 648757004277 heme pocket [chemical binding]; other site 648757004278 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 648757004279 PAS domain; Region: PAS_9; pfam13426 648757004280 putative active site [active] 648757004281 heme pocket [chemical binding]; other site 648757004282 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 648757004283 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 648757004284 dimer interface [polypeptide binding]; other site 648757004285 phosphorylation site [posttranslational modification] 648757004286 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 648757004287 ATP binding site [chemical binding]; other site 648757004288 Mg2+ binding site [ion binding]; other site 648757004289 G-X-G motif; other site 648757004290 Response regulator receiver domain; Region: Response_reg; pfam00072 648757004291 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 648757004292 active site 648757004293 phosphorylation site [posttranslational modification] 648757004294 intermolecular recognition site; other site 648757004295 dimerization interface [polypeptide binding]; other site 648757004296 circadian clock protein KaiC; Reviewed; Region: PRK09302 648757004297 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 648757004298 ATP binding site [chemical binding]; other site 648757004299 Walker A motif; other site 648757004300 Walker B motif; other site 648757004301 recA bacterial DNA recombination protein; Region: RecA; cl17211 648757004302 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 648757004303 Walker A motif; other site 648757004304 ATP binding site [chemical binding]; other site 648757004305 Walker B motif; other site 648757004306 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 648757004307 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 648757004308 YqcI/YcgG family; Region: YqcI_YcgG; cl01349 648757004309 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 648757004310 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 648757004311 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 648757004312 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 648757004313 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 648757004314 active site 648757004315 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 648757004316 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757004317 Walker A/P-loop; other site 648757004318 ATP binding site [chemical binding]; other site 648757004319 Q-loop/lid; other site 648757004320 ABC transporter signature motif; other site 648757004321 Walker B; other site 648757004322 D-loop; other site 648757004323 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 648757004324 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 648757004325 Walker A/P-loop; other site 648757004326 ATP binding site [chemical binding]; other site 648757004327 Q-loop/lid; other site 648757004328 ABC transporter signature motif; other site 648757004329 Walker B; other site 648757004330 D-loop; other site 648757004331 H-loop/switch region; other site 648757004332 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 648757004333 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 648757004334 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 648757004335 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 648757004336 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 648757004337 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 648757004338 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 648757004339 trimer interface [polypeptide binding]; other site 648757004340 active site 648757004341 substrate binding site [chemical binding]; other site 648757004342 CoA binding site [chemical binding]; other site 648757004343 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 648757004344 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 648757004345 dimer interface [polypeptide binding]; other site 648757004346 conserved gate region; other site 648757004347 putative PBP binding loops; other site 648757004348 ABC-ATPase subunit interface; other site 648757004349 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 648757004350 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 648757004351 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 648757004352 Walker A/P-loop; other site 648757004353 ATP binding site [chemical binding]; other site 648757004354 Q-loop/lid; other site 648757004355 ABC transporter signature motif; other site 648757004356 Walker B; other site 648757004357 D-loop; other site 648757004358 H-loop/switch region; other site 648757004359 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 648757004360 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 648757004361 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 648757004362 cobyric acid synthase; Provisional; Region: PRK00784 648757004363 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757004364 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 648757004365 catalytic triad [active] 648757004366 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 648757004367 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 648757004368 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 648757004369 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 648757004370 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 648757004371 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 648757004372 Transposase; Region: HTH_Tnp_1; pfam01527 648757004373 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757004374 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757004375 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757004376 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 648757004377 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 648757004378 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 648757004379 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 648757004380 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 648757004381 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 648757004382 C-terminal domain interface [polypeptide binding]; other site 648757004383 GSH binding site (G-site) [chemical binding]; other site 648757004384 dimer interface [polypeptide binding]; other site 648757004385 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 648757004386 N-terminal domain interface [polypeptide binding]; other site 648757004387 putative dimer interface [polypeptide binding]; other site 648757004388 active site 648757004389 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 648757004390 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 648757004391 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 648757004392 C-terminal domain interface [polypeptide binding]; other site 648757004393 GSH binding site (G-site) [chemical binding]; other site 648757004394 dimer interface [polypeptide binding]; other site 648757004395 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 648757004396 N-terminal domain interface [polypeptide binding]; other site 648757004397 dimer interface [polypeptide binding]; other site 648757004398 substrate binding pocket (H-site) [chemical binding]; other site 648757004399 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 648757004400 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 648757004401 active site 648757004402 motif I; other site 648757004403 motif II; other site 648757004404 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 648757004405 motif II; other site 648757004406 AAA ATPase domain; Region: AAA_16; pfam13191 648757004407 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 648757004408 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 648757004409 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 648757004410 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 648757004411 S-adenosylmethionine binding site [chemical binding]; other site 648757004412 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 648757004413 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 648757004414 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 648757004415 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 648757004416 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 648757004417 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 648757004418 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 648757004419 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 648757004420 DNA-binding site [nucleotide binding]; DNA binding site 648757004421 RNA-binding motif; other site 648757004422 GTPase CgtA; Reviewed; Region: obgE; PRK12299 648757004423 GTP1/OBG; Region: GTP1_OBG; pfam01018 648757004424 Obg GTPase; Region: Obg; cd01898 648757004425 G1 box; other site 648757004426 GTP/Mg2+ binding site [chemical binding]; other site 648757004427 Switch I region; other site 648757004428 G2 box; other site 648757004429 G3 box; other site 648757004430 Switch II region; other site 648757004431 G4 box; other site 648757004432 G5 box; other site 648757004433 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 648757004434 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 648757004435 NAD(P) binding site [chemical binding]; other site 648757004436 catalytic residues [active] 648757004437 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 648757004438 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 648757004439 TolR protein; Region: tolR; TIGR02801 648757004440 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 648757004441 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 648757004442 active site 648757004443 WYL domain; Region: WYL; pfam13280 648757004444 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 648757004445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 648757004446 NAD(P) binding site [chemical binding]; other site 648757004447 active site 648757004448 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 648757004449 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 648757004450 dimer interface [polypeptide binding]; other site 648757004451 Alkaline phosphatase homologues; Region: alkPPc; smart00098 648757004452 active site 648757004453 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 648757004454 putative substrate translocation pore; other site 648757004455 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 648757004456 Malic enzyme, N-terminal domain; Region: malic; pfam00390 648757004457 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 648757004458 putative NAD(P) binding site [chemical binding]; other site 648757004459 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 648757004460 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 648757004461 dimer interface [polypeptide binding]; other site 648757004462 [2Fe-2S] cluster binding site [ion binding]; other site 648757004463 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 648757004464 iron-sulfur cluster [ion binding]; other site 648757004465 [2Fe-2S] cluster binding site [ion binding]; other site 648757004466 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 648757004467 Rhomboid family; Region: Rhomboid; pfam01694 648757004468 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 648757004469 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 648757004470 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 648757004471 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 648757004472 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 648757004473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 648757004474 hypothetical protein; Validated; Region: PRK00153 648757004475 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 648757004476 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 648757004477 Walker A motif; other site 648757004478 ATP binding site [chemical binding]; other site 648757004479 Walker B motif; other site 648757004480 arginine finger; other site 648757004481 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 648757004482 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 648757004483 CHAD domain; Region: CHAD; pfam05235 648757004484 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 648757004485 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 648757004486 putative active site [active] 648757004487 putative metal binding site [ion binding]; other site 648757004488 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 648757004489 feedback inhibition sensing region; other site 648757004490 homohexameric interface [polypeptide binding]; other site 648757004491 nucleotide binding site [chemical binding]; other site 648757004492 N-acetyl-L-glutamate binding site [chemical binding]; other site 648757004493 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 648757004494 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 648757004495 motif II; other site 648757004496 seryl-tRNA synthetase; Provisional; Region: PRK05431 648757004497 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 648757004498 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 648757004499 dimer interface [polypeptide binding]; other site 648757004500 active site 648757004501 motif 1; other site 648757004502 motif 2; other site 648757004503 motif 3; other site 648757004504 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 648757004505 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 648757004506 NADP binding site [chemical binding]; other site 648757004507 dimer interface [polypeptide binding]; other site 648757004508 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 648757004509 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 648757004510 GatB domain; Region: GatB_Yqey; smart00845 648757004511 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 648757004512 Chorismate mutase type II; Region: CM_2; smart00830 648757004513 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 648757004514 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 648757004515 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 648757004516 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 648757004517 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 648757004518 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 648757004519 putative active site [active] 648757004520 metal binding site [ion binding]; metal-binding site 648757004521 homodimer binding site [polypeptide binding]; other site 648757004522 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 648757004523 Predicted membrane protein [Function unknown]; Region: COG2259 648757004524 Cell division protein ZapA; Region: ZapA; pfam05164 648757004525 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 648757004526 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 648757004527 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 648757004528 putative NAD(P) binding site [chemical binding]; other site 648757004529 putative substrate binding site [chemical binding]; other site 648757004530 catalytic Zn binding site [ion binding]; other site 648757004531 structural Zn binding site [ion binding]; other site 648757004532 dimer interface [polypeptide binding]; other site 648757004533 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 648757004534 active site 648757004535 DNA binding site [nucleotide binding] 648757004536 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 648757004537 dimer interaction site [polypeptide binding]; other site 648757004538 substrate-binding tunnel; other site 648757004539 active site 648757004540 catalytic site [active] 648757004541 substrate binding site [chemical binding]; other site 648757004542 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 648757004543 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 648757004544 active site 648757004545 Riboflavin kinase; Region: Flavokinase; smart00904 648757004546 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 648757004547 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 648757004548 dimer interface [polypeptide binding]; other site 648757004549 phosphorylation site [posttranslational modification] 648757004550 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 648757004551 ATP binding site [chemical binding]; other site 648757004552 Mg2+ binding site [ion binding]; other site 648757004553 G-X-G motif; other site 648757004554 Transcriptional regulator [Transcription]; Region: LysR; COG0583 648757004555 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 648757004556 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 648757004557 dimerization interface [polypeptide binding]; other site 648757004558 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 648757004559 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 648757004560 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 648757004561 Glucose inhibited division protein A; Region: GIDA; pfam01134 648757004562 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 648757004563 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 648757004564 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 648757004565 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 648757004566 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 648757004567 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 648757004568 Fe-S cluster binding site [ion binding]; other site 648757004569 active site 648757004570 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 648757004571 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 648757004572 NnrU protein; Region: NnrU; pfam07298 648757004573 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 648757004574 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 648757004575 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 648757004576 MoxR-like ATPases [General function prediction only]; Region: COG0714 648757004577 Walker A motif; other site 648757004578 ATP binding site [chemical binding]; other site 648757004579 Walker B motif; other site 648757004580 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; cd02205 648757004581 FOG: CBS domain [General function prediction only]; Region: COG0517 648757004582 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 648757004583 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 648757004584 S-adenosylmethionine binding site [chemical binding]; other site 648757004585 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 648757004586 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 648757004587 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 648757004588 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 648757004589 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 648757004590 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 648757004591 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 648757004592 putative dimer interface [polypeptide binding]; other site 648757004593 N-terminal domain interface [polypeptide binding]; other site 648757004594 putative substrate binding pocket (H-site) [chemical binding]; other site 648757004595 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 648757004596 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 648757004597 RNA binding surface [nucleotide binding]; other site 648757004598 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 648757004599 active site 648757004600 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 648757004601 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; cl17915 648757004602 motif I; other site 648757004603 active site 648757004604 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 648757004605 motif II; other site 648757004606 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 648757004607 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 648757004608 flavodoxin FldA; Validated; Region: PRK09267 648757004609 Protein of unknown function (DUF2023); Region: DUF2023; pfam09633 648757004610 Transcriptional regulator [Transcription]; Region: LysR; COG0583 648757004611 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 648757004612 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 648757004613 dimerization interface [polypeptide binding]; other site 648757004614 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 648757004615 putative cation:proton antiport protein; Provisional; Region: PRK10669 648757004616 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 648757004617 TrkA-N domain; Region: TrkA_N; pfam02254 648757004618 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 648757004619 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 648757004620 active site 648757004621 dimerization interface [polypeptide binding]; other site 648757004622 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 648757004623 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; cl15377 648757004624 FeS/SAM binding site; other site 648757004625 HemN C-terminal domain; Region: HemN_C; pfam06969 648757004626 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 648757004627 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 648757004628 putative ligand binding site [chemical binding]; other site 648757004629 Predicted methyltransferases [General function prediction only]; Region: COG0313 648757004630 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 648757004631 putative SAM binding site [chemical binding]; other site 648757004632 putative homodimer interface [polypeptide binding]; other site 648757004633 hypothetical protein; Reviewed; Region: PRK12497 648757004634 glutathione synthetase; Provisional; Region: PRK05246 648757004635 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 648757004636 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 648757004637 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 648757004638 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 648757004639 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 648757004640 Fic/DOC family; Region: Fic; cl00960 648757004641 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 648757004642 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 648757004643 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 648757004644 active site 648757004645 dimer interface [polypeptide binding]; other site 648757004646 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 648757004647 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 648757004648 active site 648757004649 FMN binding site [chemical binding]; other site 648757004650 substrate binding site [chemical binding]; other site 648757004651 3Fe-4S cluster binding site [ion binding]; other site 648757004652 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 648757004653 domain interface; other site 648757004654 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 648757004655 G1 box; other site 648757004656 GTP/Mg2+ binding site [chemical binding]; other site 648757004657 G2 box; other site 648757004658 Switch I region; other site 648757004659 G3 box; other site 648757004660 Switch II region; other site 648757004661 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 648757004662 G1 box; other site 648757004663 GTP/Mg2+ binding site [chemical binding]; other site 648757004664 G2 box; other site 648757004665 G3 box; other site 648757004666 Switch II region; other site 648757004667 G4 box; other site 648757004668 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 648757004669 oxidoreductase; Provisional; Region: PRK06128 648757004670 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 648757004671 NAD binding site [chemical binding]; other site 648757004672 metal binding site [ion binding]; metal-binding site 648757004673 active site 648757004674 N-formylglutamate amidohydrolase; Region: FGase; cl01522 648757004675 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 648757004676 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 648757004677 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 648757004678 ABC transporter; Region: ABC_tran_2; pfam12848 648757004679 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 648757004680 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 648757004681 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 648757004682 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 648757004683 heme binding site [chemical binding]; other site 648757004684 ferroxidase pore; other site 648757004685 ferroxidase diiron center [ion binding]; other site 648757004686 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 648757004687 active site clefts [active] 648757004688 zinc binding site [ion binding]; other site 648757004689 dimer interface [polypeptide binding]; other site 648757004690 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 648757004691 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 648757004692 potassium uptake protein; Region: kup; TIGR00794 648757004693 K+ potassium transporter; Region: K_trans; pfam02705 648757004694 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 648757004695 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 648757004696 NAD(P) binding site [chemical binding]; other site 648757004697 acyl-CoA synthetase; Validated; Region: PRK08162 648757004698 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 648757004699 acyl-activating enzyme (AAE) consensus motif; other site 648757004700 putative active site [active] 648757004701 AMP binding site [chemical binding]; other site 648757004702 putative CoA binding site [chemical binding]; other site 648757004703 exopolyphosphatase; Region: exo_poly_only; TIGR03706 648757004704 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 648757004705 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 648757004706 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 648757004707 S-adenosylmethionine binding site [chemical binding]; other site 648757004708 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 648757004709 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 648757004710 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 648757004711 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 648757004712 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 648757004713 putative dimer interface [polypeptide binding]; other site 648757004714 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 648757004715 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 648757004716 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 648757004717 active site 648757004718 dimer interface [polypeptide binding]; other site 648757004719 effector binding site; other site 648757004720 TSCPD domain; Region: TSCPD; pfam12637 648757004721 acetyl-CoA synthetase; Provisional; Region: PRK00174 648757004722 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 648757004723 active site 648757004724 CoA binding site [chemical binding]; other site 648757004725 acyl-activating enzyme (AAE) consensus motif; other site 648757004726 AMP binding site [chemical binding]; other site 648757004727 acetate binding site [chemical binding]; other site 648757004728 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 648757004729 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 648757004730 active site 648757004731 catalytic residues [active] 648757004732 metal binding site [ion binding]; metal-binding site 648757004733 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 648757004734 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 648757004735 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 648757004736 active site 648757004737 HIGH motif; other site 648757004738 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 648757004739 KMSKS motif; other site 648757004740 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 648757004741 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 648757004742 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 648757004743 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 648757004744 hypothetical protein; Provisional; Region: PRK05208 648757004745 2-isopropylmalate synthase; Validated; Region: PRK00915 648757004746 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 648757004747 active site 648757004748 catalytic residues [active] 648757004749 metal binding site [ion binding]; metal-binding site 648757004750 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 648757004751 hypothetical protein; Provisional; Region: PRK12472 648757004752 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 648757004753 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 648757004754 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 648757004755 Ligand binding site; other site 648757004756 metal-binding site 648757004757 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 648757004758 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 648757004759 choline dehydrogenase; Validated; Region: PRK02106 648757004760 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 648757004761 aminodeoxychorismate synthase; Provisional; Region: PRK07508 648757004762 chorismate binding enzyme; Region: Chorismate_bind; cl10555 648757004763 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 648757004764 homodimer interface [polypeptide binding]; other site 648757004765 substrate-cofactor binding pocket; other site 648757004766 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 648757004767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757004768 catalytic residue [active] 648757004769 PAS fold; Region: PAS_3; pfam08447 648757004770 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 648757004771 PAS domain S-box; Region: sensory_box; TIGR00229 648757004772 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 648757004773 putative active site [active] 648757004774 heme pocket [chemical binding]; other site 648757004775 PAS domain; Region: PAS_9; pfam13426 648757004776 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 648757004777 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 648757004778 PAS domain S-box; Region: sensory_box; TIGR00229 648757004779 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 648757004780 putative active site [active] 648757004781 heme pocket [chemical binding]; other site 648757004782 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 648757004783 HWE histidine kinase; Region: HWE_HK; smart00911 648757004784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 648757004785 active site 648757004786 phosphorylation site [posttranslational modification] 648757004787 intermolecular recognition site; other site 648757004788 dimerization interface [polypeptide binding]; other site 648757004789 Sporulation related domain; Region: SPOR; cl10051 648757004790 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 648757004791 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 648757004792 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 648757004793 active site 648757004794 HIGH motif; other site 648757004795 KMSK motif region; other site 648757004796 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 648757004797 tRNA binding surface [nucleotide binding]; other site 648757004798 anticodon binding site; other site 648757004799 lipoprotein signal peptidase; Provisional; Region: PRK14796 648757004800 ferrochelatase; Reviewed; Region: hemH; PRK00035 648757004801 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 648757004802 C-terminal domain interface [polypeptide binding]; other site 648757004803 active site 648757004804 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 648757004805 active site 648757004806 N-terminal domain interface [polypeptide binding]; other site 648757004807 16S rRNA methyltransferase B; Provisional; Region: PRK10901 648757004808 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 648757004809 S-adenosylmethionine binding site [chemical binding]; other site 648757004810 GMP synthase; Reviewed; Region: guaA; PRK00074 648757004811 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 648757004812 AMP/PPi binding site [chemical binding]; other site 648757004813 candidate oxyanion hole; other site 648757004814 catalytic triad [active] 648757004815 potential glutamine specificity residues [chemical binding]; other site 648757004816 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 648757004817 ATP Binding subdomain [chemical binding]; other site 648757004818 Ligand Binding sites [chemical binding]; other site 648757004819 Dimerization subdomain; other site 648757004820 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 648757004821 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 648757004822 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 648757004823 DNA binding residues [nucleotide binding] 648757004824 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 648757004825 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 648757004826 active site 648757004827 phosphorylation site [posttranslational modification] 648757004828 intermolecular recognition site; other site 648757004829 dimerization interface [polypeptide binding]; other site 648757004830 hypothetical protein; Provisional; Region: PRK04233 648757004831 SEC-C motif; Region: SEC-C; pfam02810 648757004832 hypothetical protein; Provisional; Region: PRK09256 648757004833 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 648757004834 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 648757004835 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 648757004836 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757004837 catalytic residue [active] 648757004838 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 648757004839 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 648757004840 putative metal binding site [ion binding]; other site 648757004841 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 648757004842 HSP70 interaction site [polypeptide binding]; other site 648757004843 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 648757004844 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 648757004845 amidase catalytic site [active] 648757004846 Zn binding residues [ion binding]; other site 648757004847 substrate binding site [chemical binding]; other site 648757004848 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 648757004849 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 648757004850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 648757004851 CreA protein; Region: CreA; pfam05981 648757004852 MgtC family; Region: MgtC; pfam02308 648757004853 GcrA cell cycle regulator; Region: GcrA; cl11564 648757004854 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 648757004855 sequence-specific DNA binding site [nucleotide binding]; other site 648757004856 salt bridge; other site 648757004857 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 648757004858 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 648757004859 Uncharacterized conserved protein [Function unknown]; Region: COG1565 648757004860 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 648757004861 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 648757004862 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 648757004863 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 648757004864 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 648757004865 active site 648757004866 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 648757004867 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 648757004868 5S rRNA interface [nucleotide binding]; other site 648757004869 CTC domain interface [polypeptide binding]; other site 648757004870 L16 interface [polypeptide binding]; other site 648757004871 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 648757004872 putative active site [active] 648757004873 catalytic residue [active] 648757004874 GTP-binding protein YchF; Reviewed; Region: PRK09601 648757004875 YchF GTPase; Region: YchF; cd01900 648757004876 G1 box; other site 648757004877 GTP/Mg2+ binding site [chemical binding]; other site 648757004878 Switch I region; other site 648757004879 G2 box; other site 648757004880 Switch II region; other site 648757004881 G3 box; other site 648757004882 G4 box; other site 648757004883 G5 box; other site 648757004884 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 648757004885 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757004886 Winged helix-turn helix; Region: HTH_29; pfam13551 648757004887 Integrase core domain; Region: rve; pfam00665 648757004888 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757004889 Integrase core domain; Region: rve_3; pfam13683 648757004890 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 648757004891 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 648757004892 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 648757004893 active site 648757004894 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 648757004895 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 648757004896 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 648757004897 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 648757004898 CoA binding domain; Region: CoA_binding_2; pfam13380 648757004899 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 648757004900 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 648757004901 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 648757004902 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 648757004903 hypothetical protein; Validated; Region: PRK00228 648757004904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 648757004905 Predicted kinase [General function prediction only]; Region: COG0645 648757004906 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 648757004907 ATP-binding site [chemical binding]; other site 648757004908 Gluconate-6-phosphate binding site [chemical binding]; other site 648757004909 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 648757004910 glutamate--cysteine ligase; Region: PLN02611 648757004911 RNA methyltransferase, RsmE family; Region: TIGR00046 648757004912 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 648757004913 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 648757004914 UbiA prenyltransferase family; Region: UbiA; pfam01040 648757004915 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 648757004916 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 648757004917 active site 648757004918 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 648757004919 putative acyl-acceptor binding pocket; other site 648757004920 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 648757004921 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 648757004922 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 648757004923 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 648757004924 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 648757004925 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 648757004926 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 648757004927 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 648757004928 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 648757004929 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 648757004930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757004931 catalytic residue [active] 648757004932 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 648757004933 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 648757004934 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 648757004935 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 648757004936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 648757004937 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 648757004938 PAS fold; Region: PAS_3; pfam08447 648757004939 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 648757004940 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 648757004941 metal binding site [ion binding]; metal-binding site 648757004942 active site 648757004943 I-site; other site 648757004944 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 648757004945 TMAO/DMSO reductase; Reviewed; Region: PRK05363 648757004946 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 648757004947 Moco binding site; other site 648757004948 metal coordination site [ion binding]; other site 648757004949 Predicted permeases [General function prediction only]; Region: RarD; COG2962 648757004950 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 648757004951 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 648757004952 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 648757004953 FMN binding site [chemical binding]; other site 648757004954 active site 648757004955 catalytic residues [active] 648757004956 substrate binding site [chemical binding]; other site 648757004957 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 648757004958 active site 648757004959 DNA binding site [nucleotide binding] 648757004960 Int/Topo IB signature motif; other site 648757004961 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 648757004962 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 648757004963 trimer interface [polypeptide binding]; other site 648757004964 putative metal binding site [ion binding]; other site 648757004965 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 648757004966 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 648757004967 conjugal transfer protein TrbI; Provisional; Region: PRK13881 648757004968 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 648757004969 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 648757004970 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 648757004971 VirB7 interaction site; other site 648757004972 VirB8 protein; Region: VirB8; cl01500 648757004973 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 648757004974 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 648757004975 conjugal transfer protein TrbE; Provisional; Region: PRK13891 648757004976 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 648757004977 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757004978 Walker A/P-loop; other site 648757004979 ATP binding site [chemical binding]; other site 648757004980 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757004981 Walker B; other site 648757004982 D-loop; other site 648757004983 H-loop/switch region; other site 648757004984 conjugal transfer protein TrbD; Provisional; Region: PRK13823 648757004985 TrbC/VIRB2 family; Region: TrbC; cl01583 648757004986 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 648757004987 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 648757004988 ATP binding site [chemical binding]; other site 648757004989 Walker A motif; other site 648757004990 hexamer interface [polypeptide binding]; other site 648757004991 Walker B motif; other site 648757004992 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 648757004993 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 648757004994 non-specific DNA binding site [nucleotide binding]; other site 648757004995 salt bridge; other site 648757004996 sequence-specific DNA binding site [nucleotide binding]; other site 648757004997 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757004998 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757004999 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757005000 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757005001 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757005002 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757005003 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757005004 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757005005 Transposase; Region: HTH_Tnp_1; pfam01527 648757005006 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 648757005007 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 648757005008 conjugal transfer protein TraL; Provisional; Region: PRK13886 648757005009 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 648757005010 active site 648757005011 catalytic residues [active] 648757005012 DNA binding site [nucleotide binding] 648757005013 Int/Topo IB signature motif; other site 648757005014 Transposase; Region: HTH_Tnp_1; pfam01527 648757005015 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757005016 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 648757005017 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 648757005018 Walker A motif; other site 648757005019 ATP binding site [chemical binding]; other site 648757005020 Walker B motif; other site 648757005021 Domain of unknown function (DUF4208); Region: DUF4208; pfam13907 648757005022 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 648757005023 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 648757005024 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 648757005025 Catalytic dyad [active] 648757005026 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757005027 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757005028 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757005029 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757005030 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757005031 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757005032 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757005033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757005034 Transposase; Region: HTH_Tnp_1; pfam01527 648757005035 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 648757005036 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 648757005037 non-specific DNA binding site [nucleotide binding]; other site 648757005038 salt bridge; other site 648757005039 sequence-specific DNA binding site [nucleotide binding]; other site 648757005040 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 648757005041 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 648757005042 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 648757005043 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 648757005044 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 648757005045 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 648757005046 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 648757005047 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 648757005048 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 648757005049 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 648757005050 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 648757005051 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 648757005052 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 648757005053 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 648757005054 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 648757005055 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 648757005056 Walker A motif; other site 648757005057 ATP binding site [chemical binding]; other site 648757005058 Walker B motif; other site 648757005059 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 648757005060 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 648757005061 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 648757005062 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 648757005063 Secretin and TonB N terminus short domain; Region: STN; smart00965 648757005064 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 648757005065 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 648757005066 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 648757005067 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 648757005068 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 648757005069 dimer interface [polypeptide binding]; other site 648757005070 Trp docking motif [polypeptide binding]; other site 648757005071 active site 648757005072 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 648757005073 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 648757005074 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 648757005075 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 648757005076 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 648757005077 Cytochrome c; Region: Cytochrom_C; pfam00034 648757005078 Cytochrome c2 [Energy production and conversion]; Region: COG3474 648757005079 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 648757005080 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 648757005081 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 648757005082 NAD(P) binding site [chemical binding]; other site 648757005083 catalytic residues [active] 648757005084 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 648757005085 Part of AAA domain; Region: AAA_19; pfam13245 648757005086 Family description; Region: UvrD_C_2; pfam13538 648757005087 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 648757005088 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 648757005089 THF binding site; other site 648757005090 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 648757005091 substrate binding site [chemical binding]; other site 648757005092 THF binding site; other site 648757005093 zinc-binding site [ion binding]; other site 648757005094 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 648757005095 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 648757005096 tetramer interface [polypeptide binding]; other site 648757005097 active site 648757005098 Mg2+/Mn2+ binding site [ion binding]; other site 648757005099 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 648757005100 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 648757005101 dimer interface [polypeptide binding]; other site 648757005102 active site 648757005103 citrylCoA binding site [chemical binding]; other site 648757005104 oxalacetate/citrate binding site [chemical binding]; other site 648757005105 coenzyme A binding site [chemical binding]; other site 648757005106 catalytic triad [active] 648757005107 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 648757005108 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 648757005109 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 648757005110 ATP cone domain; Region: ATP-cone; pfam03477 648757005111 Class III ribonucleotide reductase; Region: RNR_III; cd01675 648757005112 effector binding site; other site 648757005113 active site 648757005114 Zn binding site [ion binding]; other site 648757005115 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 648757005116 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 648757005117 FeS/SAM binding site; other site 648757005118 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 648757005119 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 648757005120 non-specific DNA binding site [nucleotide binding]; other site 648757005121 salt bridge; other site 648757005122 sequence-specific DNA binding site [nucleotide binding]; other site 648757005123 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 648757005124 Domain of unknown function (DUF955); Region: DUF955; pfam06114 648757005125 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 648757005126 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 648757005127 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 648757005128 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 648757005129 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 648757005130 CoA binding domain; Region: CoA_binding_2; pfam13380 648757005131 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 648757005132 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 648757005133 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 648757005134 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 648757005135 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 648757005136 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 648757005137 Walker A/P-loop; other site 648757005138 ATP binding site [chemical binding]; other site 648757005139 Q-loop/lid; other site 648757005140 ABC transporter signature motif; other site 648757005141 Walker B; other site 648757005142 D-loop; other site 648757005143 H-loop/switch region; other site 648757005144 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 648757005145 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 648757005146 TM-ABC transporter signature motif; other site 648757005147 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 648757005148 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 648757005149 Walker A/P-loop; other site 648757005150 ATP binding site [chemical binding]; other site 648757005151 Q-loop/lid; other site 648757005152 ABC transporter signature motif; other site 648757005153 Walker B; other site 648757005154 D-loop; other site 648757005155 H-loop/switch region; other site 648757005156 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 648757005157 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 648757005158 TM-ABC transporter signature motif; other site 648757005159 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 648757005160 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 648757005161 putative ligand binding site [chemical binding]; other site 648757005162 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 648757005163 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 648757005164 trimer interface [polypeptide binding]; other site 648757005165 eyelet of channel; other site 648757005166 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 648757005167 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 648757005168 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 648757005169 FAD binding site [chemical binding]; other site 648757005170 substrate binding pocket [chemical binding]; other site 648757005171 catalytic base [active] 648757005172 Transglycosylase SLT domain; Region: SLT_2; pfam13406 648757005173 murein hydrolase B; Provisional; Region: PRK10760; cl17906 648757005174 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 648757005175 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 648757005176 dimer interface [polypeptide binding]; other site 648757005177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757005178 catalytic residue [active] 648757005179 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 648757005180 FOG: CBS domain [General function prediction only]; Region: COG0517 648757005181 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 648757005182 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 648757005183 homodimer interface [polypeptide binding]; other site 648757005184 substrate-cofactor binding pocket; other site 648757005185 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757005186 catalytic residue [active] 648757005187 Membrane fusogenic activity; Region: BMFP; pfam04380 648757005188 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 648757005189 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 648757005190 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 648757005191 Protein of unknown function (DUF461); Region: DUF461; pfam04314 648757005192 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 648757005193 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 648757005194 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 648757005195 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 648757005196 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 648757005197 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 648757005198 P-loop; other site 648757005199 Magnesium ion binding site [ion binding]; other site 648757005200 HicB family; Region: HicB; pfam05534 648757005201 Zeta toxin; Region: Zeta_toxin; pfam06414 648757005202 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 648757005203 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 648757005204 putative active site [active] 648757005205 putative NTP binding site [chemical binding]; other site 648757005206 putative nucleic acid binding site [nucleotide binding]; other site 648757005207 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 648757005208 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 648757005209 CRISPR-associated protein; Region: TIGR03986 648757005210 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 648757005211 CRISPR-associated protein, TIGR03984 family; Region: TIGR03984 648757005212 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 648757005213 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 648757005214 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cd09726 648757005215 CRISPR/Cas system-associated RAMP superfamily protein Csx10; Region: Csx10; cl17558 648757005216 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cl13853 648757005217 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl01634 648757005218 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09741 648757005219 CRISPR/Cas system-associated protein Csx16; Region: Csx16_III-U; cd09743 648757005220 Protein of unknown function (DUF497); Region: DUF497; cl01108 648757005221 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3514 648757005222 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 648757005223 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 648757005224 Protein of unknown function DUF262; Region: DUF262; pfam03235 648757005225 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 648757005226 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757005227 Walker A/P-loop; other site 648757005228 ATP binding site [chemical binding]; other site 648757005229 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757005230 Q-loop/lid; other site 648757005231 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757005232 ABC transporter signature motif; other site 648757005233 Walker B; other site 648757005234 D-loop; other site 648757005235 H-loop/switch region; other site 648757005236 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 648757005237 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 648757005238 active site 648757005239 metal binding site [ion binding]; metal-binding site 648757005240 DNA binding site [nucleotide binding] 648757005241 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 648757005242 WYL domain; Region: WYL; pfam13280 648757005243 Transposase; Region: HTH_Tnp_1; pfam01527 648757005244 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757005245 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757005246 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757005247 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757005248 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757005249 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757005250 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757005251 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757005252 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 648757005253 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 648757005254 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 648757005255 ATP binding site [chemical binding]; other site 648757005256 putative Mg++ binding site [ion binding]; other site 648757005257 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 648757005258 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 648757005259 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 648757005260 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 648757005261 HsdM N-terminal domain; Region: HsdM_N; pfam12161 648757005262 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 648757005263 S-adenosylmethionine binding site [chemical binding]; other site 648757005264 Homeodomain-like domain; Region: HTH_23; pfam13384 648757005265 Winged helix-turn helix; Region: HTH_29; pfam13551 648757005266 Homeodomain-like domain; Region: HTH_32; pfam13565 648757005267 DDE superfamily endonuclease; Region: DDE_3; pfam13358 648757005268 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 648757005269 active site 648757005270 catalytic residues [active] 648757005271 Int/Topo IB signature motif; other site 648757005272 DNA binding site [nucleotide binding] 648757005273 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 648757005274 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 648757005275 RNA binding surface [nucleotide binding]; other site 648757005276 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 648757005277 active site 648757005278 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 648757005279 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 648757005280 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 648757005281 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 648757005282 DNA binding residues [nucleotide binding] 648757005283 malate synthase A; Region: malate_syn_A; TIGR01344 648757005284 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 648757005285 active site 648757005286 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 648757005287 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 648757005288 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 648757005289 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 648757005290 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 648757005291 Coenzyme A binding pocket [chemical binding]; other site 648757005292 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 648757005293 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 648757005294 NADP binding site [chemical binding]; other site 648757005295 dimer interface [polypeptide binding]; other site 648757005296 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 648757005297 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 648757005298 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 648757005299 Ceramidase; Region: Ceramidase; pfam05875 648757005300 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 648757005301 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 648757005302 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 648757005303 HSP70 interaction site [polypeptide binding]; other site 648757005304 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 648757005305 catalytic residues [active] 648757005306 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 648757005307 Clp amino terminal domain; Region: Clp_N; pfam02861 648757005308 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 648757005309 salicylate hydroxylase; Provisional; Region: PRK08163 648757005310 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 648757005311 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 648757005312 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 648757005313 chaperone protein DnaJ; Provisional; Region: PRK14299 648757005314 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 648757005315 HSP70 interaction site [polypeptide binding]; other site 648757005316 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 648757005317 substrate binding site [polypeptide binding]; other site 648757005318 dimer interface [polypeptide binding]; other site 648757005319 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 648757005320 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 648757005321 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 648757005322 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 648757005323 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 648757005324 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 648757005325 FeS/SAM binding site; other site 648757005326 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 648757005327 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 648757005328 G1 box; other site 648757005329 putative GEF interaction site [polypeptide binding]; other site 648757005330 GTP/Mg2+ binding site [chemical binding]; other site 648757005331 Switch I region; other site 648757005332 G2 box; other site 648757005333 G3 box; other site 648757005334 Switch II region; other site 648757005335 G4 box; other site 648757005336 G5 box; other site 648757005337 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 648757005338 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 648757005339 Arsenate Reductase (ArsC) family, 15kD protein subfamily; composed of proteins of unknown function with similarity to thioredoxin-fold arsenic reductases, ArsC. It is encoded by an ORF present in a gene cluster associated with nitrogen fixation that also...; Region: ArsC_15kD; cd03033 648757005340 putative catalytic residues [active] 648757005341 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 648757005342 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 648757005343 heme-binding site [chemical binding]; other site 648757005344 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 648757005345 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 648757005346 Nucleotide-binding sites [chemical binding]; other site 648757005347 Walker A motif; other site 648757005348 Switch I region of nucleotide binding site; other site 648757005349 Fe4S4 binding sites [ion binding]; other site 648757005350 Switch II region of nucleotide binding site; other site 648757005351 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 648757005352 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 648757005353 MoFe protein alpha/beta subunit interactions; other site 648757005354 Alpha subunit P cluster binding residues; other site 648757005355 FeMoco binding residues [chemical binding]; other site 648757005356 MoFe protein alpha subunit/Fe protein contacts; other site 648757005357 MoFe protein dimer/ dimer interactions; other site 648757005358 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 648757005359 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 648757005360 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 648757005361 MoFe protein beta/alpha subunit interactions; other site 648757005362 Beta subunit P cluster binding residues; other site 648757005363 MoFe protein beta subunit/Fe protein contacts; other site 648757005364 MoFe protein dimer/ dimer interactions; other site 648757005365 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 648757005366 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 648757005367 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 648757005368 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 648757005369 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 648757005370 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, 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. The protein...; Region: NifX; cd00853 648757005371 probable nitrogen fixation protein; Region: TIGR02935 648757005372 Rop-like; Region: Rop-like; pfam05082 648757005373 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 648757005374 NifQ; Region: NifQ; pfam04891 648757005375 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 648757005376 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 648757005377 putative ligand binding site [chemical binding]; other site 648757005378 putative NAD binding site [chemical binding]; other site 648757005379 catalytic site [active] 648757005380 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 648757005381 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 648757005382 fumarate hydratase; Reviewed; Region: fumC; PRK00485 648757005383 Class II fumarases; Region: Fumarase_classII; cd01362 648757005384 active site 648757005385 tetramer interface [polypeptide binding]; other site 648757005386 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 648757005387 putative active site pocket [active] 648757005388 dimerization interface [polypeptide binding]; other site 648757005389 putative catalytic residue [active] 648757005390 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 648757005391 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 648757005392 NAD(P) binding site [chemical binding]; other site 648757005393 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 648757005394 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 648757005395 dimer interface [polypeptide binding]; other site 648757005396 catalytic residue [active] 648757005397 metal binding site [ion binding]; metal-binding site 648757005398 Uncharacterized conserved protein [Function unknown]; Region: COG0432 648757005399 SOUL heme-binding protein; Region: SOUL; pfam04832 648757005400 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 648757005401 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 648757005402 TPP-binding site; other site 648757005403 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 648757005404 PYR/PP interface [polypeptide binding]; other site 648757005405 dimer interface [polypeptide binding]; other site 648757005406 TPP binding site [chemical binding]; other site 648757005407 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 648757005408 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 648757005409 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 648757005410 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 648757005411 putative active site [active] 648757005412 Zn binding site [ion binding]; other site 648757005413 short chain dehydrogenase; Provisional; Region: PRK08278 648757005414 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 648757005415 NAD(P) binding site [chemical binding]; other site 648757005416 homodimer interface [polypeptide binding]; other site 648757005417 active site 648757005418 enoyl-CoA hydratase; Provisional; Region: PRK06688 648757005419 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 648757005420 substrate binding site [chemical binding]; other site 648757005421 oxyanion hole (OAH) forming residues; other site 648757005422 trimer interface [polypeptide binding]; other site 648757005423 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 648757005424 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 648757005425 active site 648757005426 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 648757005427 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 648757005428 S-adenosylmethionine decarboxylase proenzyme, Bacillus form; Region: SAM_DCase_Bsu; TIGR03330 648757005429 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 648757005430 putative active site [active] 648757005431 putative catalytic site [active] 648757005432 spermidine synthase; Provisional; Region: PRK00811 648757005433 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 648757005434 S-adenosylmethionine binding site [chemical binding]; other site 648757005435 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 648757005436 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 648757005437 putative active site [active] 648757005438 putative PHP Thumb interface [polypeptide binding]; other site 648757005439 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 648757005440 generic binding surface II; other site 648757005441 generic binding surface I; other site 648757005442 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 648757005443 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 648757005444 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 648757005445 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 648757005446 PRC-barrel domain; Region: PRC; pfam05239 648757005447 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 648757005448 dimerization interface [polypeptide binding]; other site 648757005449 metal binding site [ion binding]; metal-binding site 648757005450 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 648757005451 active site 648757005452 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 648757005453 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 648757005454 substrate binding site [chemical binding]; other site 648757005455 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 648757005456 substrate binding site [chemical binding]; other site 648757005457 ligand binding site [chemical binding]; other site 648757005458 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 648757005459 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 648757005460 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 648757005461 NifU-like domain; Region: NifU; pfam01106 648757005462 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 648757005463 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 648757005464 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757005465 catalytic residue [active] 648757005466 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 648757005467 metal binding site 2 [ion binding]; metal-binding site 648757005468 putative DNA binding helix; other site 648757005469 metal binding site 1 [ion binding]; metal-binding site 648757005470 dimer interface [polypeptide binding]; other site 648757005471 structural Zn2+ binding site [ion binding]; other site 648757005472 30S ribosomal protein S2/unknown domain fusion protein; Provisional; Region: rpsB; PRK12311 648757005473 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 648757005474 rRNA interaction site [nucleotide binding]; other site 648757005475 S8 interaction site; other site 648757005476 putative laminin-1 binding site; other site 648757005477 Uncharacterized conserved protein [Function unknown]; Region: COG3743 648757005478 elongation factor Ts; Provisional; Region: tsf; PRK09377 648757005479 UBA/TS-N domain; Region: UBA; pfam00627 648757005480 Elongation factor TS; Region: EF_TS; pfam00889 648757005481 Elongation factor TS; Region: EF_TS; pfam00889 648757005482 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 648757005483 putative nucleotide binding site [chemical binding]; other site 648757005484 uridine monophosphate binding site [chemical binding]; other site 648757005485 homohexameric interface [polypeptide binding]; other site 648757005486 ribosome recycling factor; Reviewed; Region: frr; PRK00083 648757005487 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 648757005488 hinge region; other site 648757005489 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 648757005490 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 648757005491 catalytic residue [active] 648757005492 putative FPP diphosphate binding site; other site 648757005493 putative FPP binding hydrophobic cleft; other site 648757005494 dimer interface [polypeptide binding]; other site 648757005495 putative IPP diphosphate binding site; other site 648757005496 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 648757005497 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 648757005498 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 648757005499 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 648757005500 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 648757005501 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 648757005502 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 648757005503 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 648757005504 active site 648757005505 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 648757005506 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 648757005507 putative substrate binding region [chemical binding]; other site 648757005508 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 648757005509 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 648757005510 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 648757005511 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 648757005512 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 648757005513 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 648757005514 Surface antigen; Region: Bac_surface_Ag; pfam01103 648757005515 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 648757005516 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 648757005517 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 648757005518 trimer interface [polypeptide binding]; other site 648757005519 active site 648757005520 UDP-GlcNAc binding site [chemical binding]; other site 648757005521 lipid binding site [chemical binding]; lipid-binding site 648757005522 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 648757005523 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 648757005524 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 648757005525 active site 648757005526 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 648757005527 Protein of unknown function (DUF423); Region: DUF423; pfam04241 648757005528 Short C-terminal domain; Region: SHOCT; pfam09851 648757005529 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 648757005530 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 648757005531 Walker A motif; other site 648757005532 ATP binding site [chemical binding]; other site 648757005533 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 648757005534 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 648757005535 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 648757005536 active site 648757005537 HslU subunit interaction site [polypeptide binding]; other site 648757005538 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 648757005539 putative active site pocket [active] 648757005540 4-fold oligomerization interface [polypeptide binding]; other site 648757005541 metal binding residues [ion binding]; metal-binding site 648757005542 3-fold/trimer interface [polypeptide binding]; other site 648757005543 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 648757005544 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 648757005545 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 648757005546 putative active site [active] 648757005547 oxyanion strand; other site 648757005548 catalytic triad [active] 648757005549 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 648757005550 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 648757005551 catalytic residues [active] 648757005552 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 648757005553 DEAD/DEAH box helicase; Region: DEAD; pfam00270 648757005554 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 648757005555 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 648757005556 nucleotide binding region [chemical binding]; other site 648757005557 ATP-binding site [chemical binding]; other site 648757005558 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 648757005559 RNA binding surface [nucleotide binding]; other site 648757005560 recombination factor protein RarA; Reviewed; Region: PRK13342 648757005561 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 648757005562 Walker A motif; other site 648757005563 ATP binding site [chemical binding]; other site 648757005564 Walker B motif; other site 648757005565 arginine finger; other site 648757005566 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 648757005567 methionine sulfoxide reductase B; Provisional; Region: PRK00222 648757005568 SelR domain; Region: SelR; pfam01641 648757005569 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 648757005570 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 648757005571 transmembrane helices; other site 648757005572 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 648757005573 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 648757005574 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 648757005575 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 648757005576 multidrug efflux system protein MdtE; Provisional; Region: PRK09859 648757005577 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 648757005578 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757005579 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 648757005580 Protein export membrane protein; Region: SecD_SecF; cl14618 648757005581 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 648757005582 Helix-turn-helix domain; Region: HTH_17; pfam12728 648757005583 integrase; Provisional; Region: PRK09692 648757005584 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 648757005585 active site 648757005586 Int/Topo IB signature motif; other site 648757005587 Helix-turn-helix domain; Region: HTH_17; pfam12728 648757005588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 648757005589 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 648757005590 active site 648757005591 metal binding site [ion binding]; metal-binding site 648757005592 interdomain interaction site; other site 648757005593 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 648757005594 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 648757005595 tandem repeat interface [polypeptide binding]; other site 648757005596 oligomer interface [polypeptide binding]; other site 648757005597 active site residues [active] 648757005598 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757005599 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757005600 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757005601 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757005602 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757005603 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757005604 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757005605 Transposase; Region: HTH_Tnp_1; pfam01527 648757005606 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757005607 Restriction endonuclease; Region: Mrr_cat; pfam04471 648757005608 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 648757005609 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 648757005610 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 648757005611 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 648757005612 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 648757005613 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757005614 YtkA-like; Region: YtkA; pfam13115 648757005615 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 648757005616 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 648757005617 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 648757005618 Thin aggregative fimbriae synthesis protein; Region: Tafi-CsgC; cl11667 648757005619 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 648757005620 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 648757005621 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 648757005622 Walker A/P-loop; other site 648757005623 ATP binding site [chemical binding]; other site 648757005624 Q-loop/lid; other site 648757005625 ABC transporter signature motif; other site 648757005626 Walker B; other site 648757005627 D-loop; other site 648757005628 H-loop/switch region; other site 648757005629 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 648757005630 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 648757005631 dimer interface [polypeptide binding]; other site 648757005632 conserved gate region; other site 648757005633 putative PBP binding loops; other site 648757005634 ABC-ATPase subunit interface; other site 648757005635 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 648757005636 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 648757005637 substrate binding pocket [chemical binding]; other site 648757005638 membrane-bound complex binding site; other site 648757005639 hinge residues; other site 648757005640 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 648757005641 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 648757005642 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757005643 catalytic residue [active] 648757005644 B12-binding domain/radical SAM domain protein, rhizo-twelve system; Region: B12_rSAM_oligo; TIGR04295 648757005645 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 648757005646 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 648757005647 FeS/SAM binding site; other site 648757005648 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 648757005649 Biotin synthase and related enzymes [Coenzyme metabolism]; Region: BioB; COG0502 648757005650 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 648757005651 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 648757005652 ligand binding site [chemical binding]; other site 648757005653 flexible hinge region; other site 648757005654 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 648757005655 putative switch regulator; other site 648757005656 non-specific DNA interactions [nucleotide binding]; other site 648757005657 DNA binding site [nucleotide binding] 648757005658 sequence specific DNA binding site [nucleotide binding]; other site 648757005659 putative cAMP binding site [chemical binding]; other site 648757005660 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 648757005661 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 648757005662 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 648757005663 inhibitor-cofactor binding pocket; inhibition site 648757005664 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757005665 catalytic residue [active] 648757005666 Uncharacterized conserved protein [Function unknown]; Region: COG2128 648757005667 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 648757005668 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 648757005669 homodimer interface [polypeptide binding]; other site 648757005670 substrate-cofactor binding pocket; other site 648757005671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757005672 catalytic residue [active] 648757005673 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 648757005674 classical (c) SDR, subgroup 10; Region: SDR_c10; cd05373 648757005675 putative NAD(P) binding site [chemical binding]; other site 648757005676 active site 648757005677 Protein of unknown function (DUF938); Region: DUF938; pfam06080 648757005678 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 648757005679 hypothetical protein; Validated; Region: PRK07581 648757005680 Cupin domain; Region: Cupin_2; cl17218 648757005681 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 648757005682 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 648757005683 Walker A motif; other site 648757005684 ATP binding site [chemical binding]; other site 648757005685 Walker B motif; other site 648757005686 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 648757005687 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 648757005688 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 648757005689 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 648757005690 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 648757005691 ATP binding site [chemical binding]; other site 648757005692 putative Mg++ binding site [ion binding]; other site 648757005693 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 648757005694 nucleotide binding region [chemical binding]; other site 648757005695 ATP-binding site [chemical binding]; other site 648757005696 DEAD/H associated; Region: DEAD_assoc; pfam08494 648757005697 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 648757005698 Major Facilitator Superfamily; Region: MFS_1; pfam07690 648757005699 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 648757005700 PRC-barrel domain; Region: PRC; pfam05239 648757005701 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 648757005702 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 648757005703 motif II; other site 648757005704 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 648757005705 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 648757005706 nucleotide binding pocket [chemical binding]; other site 648757005707 K-X-D-G motif; other site 648757005708 catalytic site [active] 648757005709 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 648757005710 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 648757005711 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 648757005712 Dimer interface [polypeptide binding]; other site 648757005713 BRCT sequence motif; other site 648757005714 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 648757005715 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 648757005716 Walker A/P-loop; other site 648757005717 ATP binding site [chemical binding]; other site 648757005718 Q-loop/lid; other site 648757005719 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 648757005720 ABC transporter signature motif; other site 648757005721 Walker B; other site 648757005722 D-loop; other site 648757005723 H-loop/switch region; other site 648757005724 hypothetical protein; Provisional; Region: PRK11469 648757005725 Domain of unknown function DUF; Region: DUF204; pfam02659 648757005726 Domain of unknown function DUF; Region: DUF204; pfam02659 648757005727 Outer membrane lipoprotein; Region: YfiO; pfam13525 648757005728 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 648757005729 binding surface 648757005730 TPR motif; other site 648757005731 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 648757005732 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 648757005733 cell division protein FtsZ; Validated; Region: PRK09330 648757005734 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 648757005735 nucleotide binding site [chemical binding]; other site 648757005736 SulA interaction site; other site 648757005737 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 648757005738 Cell division protein FtsA; Region: FtsA; cl17206 648757005739 Cell division protein FtsA; Region: FtsA; pfam14450 648757005740 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 648757005741 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 648757005742 Cell division protein FtsQ; Region: FtsQ; pfam03799 648757005743 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 648757005744 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 648757005745 ATP-grasp domain; Region: ATP-grasp_4; cl17255 648757005746 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 648757005747 FAD binding domain; Region: FAD_binding_4; pfam01565 648757005748 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 648757005749 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 648757005750 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 648757005751 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 648757005752 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 648757005753 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 648757005754 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 648757005755 active site 648757005756 homodimer interface [polypeptide binding]; other site 648757005757 cell division protein FtsW; Region: ftsW; TIGR02614 648757005758 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 648757005759 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 648757005760 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 648757005761 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 648757005762 Mg++ binding site [ion binding]; other site 648757005763 putative catalytic motif [active] 648757005764 putative substrate binding site [chemical binding]; other site 648757005765 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 648757005766 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 648757005767 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 648757005768 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 648757005769 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 648757005770 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 648757005771 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 648757005772 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 648757005773 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 648757005774 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 648757005775 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 648757005776 B12 binding domain; Region: B12-binding_2; pfam02607 648757005777 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 648757005778 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; cd02065 648757005779 B12 binding site [chemical binding]; other site 648757005780 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; Region: FrhB_FdhB_N; pfam04422 648757005781 Coenzyme F420 hydrogenase/dehydrogenase, beta subunit C terminus; Region: FrhB_FdhB_C; pfam04432 648757005782 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 648757005783 Radical SAM superfamily; Region: Radical_SAM; pfam04055 648757005784 FeS/SAM binding site; other site 648757005785 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 648757005786 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 648757005787 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 648757005788 FeS/SAM binding site; other site 648757005789 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 648757005790 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 648757005791 dimer interface [polypeptide binding]; other site 648757005792 substrate binding site [chemical binding]; other site 648757005793 ATP binding site [chemical binding]; other site 648757005794 Cytochrome c [Energy production and conversion]; Region: COG3258 648757005795 phosphoglycolate phosphatase; Provisional; Region: PRK13222 648757005796 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 648757005797 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 648757005798 motif II; other site 648757005799 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 648757005800 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 648757005801 intersubunit interface [polypeptide binding]; other site 648757005802 active site 648757005803 zinc binding site [ion binding]; other site 648757005804 Na+ binding site [ion binding]; other site 648757005805 Phosphoglycerate kinase; Region: PGK; pfam00162 648757005806 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 648757005807 substrate binding site [chemical binding]; other site 648757005808 hinge regions; other site 648757005809 ADP binding site [chemical binding]; other site 648757005810 catalytic site [active] 648757005811 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 648757005812 S-adenosylmethionine binding site [chemical binding]; other site 648757005813 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 648757005814 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 648757005815 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 648757005816 putative active site [active] 648757005817 putative metal binding site [ion binding]; other site 648757005818 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757005819 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 648757005820 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 648757005821 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 648757005822 tetramer interface [polypeptide binding]; other site 648757005823 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757005824 catalytic residue [active] 648757005825 phosphodiesterase YaeI; Provisional; Region: PRK11340 648757005826 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 648757005827 putative active site [active] 648757005828 putative metal binding site [ion binding]; other site 648757005829 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 648757005830 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 648757005831 active site 648757005832 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 648757005833 Catalytic NodB homology domain of uncharacterized bacterial glycosyl transferase, group 2-like family proteins; Region: CE4_GT2-like; cd10962 648757005834 NodB motif; other site 648757005835 putative active site [active] 648757005836 putative catalytic site [active] 648757005837 putative Zn binding site [ion binding]; other site 648757005838 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 648757005839 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 648757005840 DXD motif; other site 648757005841 Uncharacterized conserved protein [Function unknown]; Region: COG1434 648757005842 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 648757005843 putative active site [active] 648757005844 Protein of unknown function DUF72; Region: DUF72; pfam01904 648757005845 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 648757005846 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 648757005847 DEAD-like helicases superfamily; Region: DEXDc; smart00487 648757005848 ATP binding site [chemical binding]; other site 648757005849 Mg++ binding site [ion binding]; other site 648757005850 motif III; other site 648757005851 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 648757005852 nucleotide binding region [chemical binding]; other site 648757005853 ATP-binding site [chemical binding]; other site 648757005854 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 648757005855 Transcriptional regulator [Transcription]; Region: LysR; COG0583 648757005856 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 648757005857 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 648757005858 putative effector binding pocket; other site 648757005859 dimerization interface [polypeptide binding]; other site 648757005860 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 648757005861 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 648757005862 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 648757005863 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 648757005864 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 648757005865 putative DNA binding site [nucleotide binding]; other site 648757005866 putative Zn2+ binding site [ion binding]; other site 648757005867 AsnC family; Region: AsnC_trans_reg; pfam01037 648757005868 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 648757005869 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 648757005870 Uncharacterized protein conserved in bacteria (DUF2084); Region: DUF2084; pfam09857 648757005871 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 648757005872 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 648757005873 G1 box; other site 648757005874 GTP/Mg2+ binding site [chemical binding]; other site 648757005875 G2 box; other site 648757005876 Switch I region; other site 648757005877 G3 box; other site 648757005878 Switch II region; other site 648757005879 G4 box; other site 648757005880 G5 box; other site 648757005881 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 648757005882 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 648757005883 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 648757005884 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 648757005885 Active Sites [active] 648757005886 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 648757005887 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 648757005888 Active Sites [active] 648757005889 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 648757005890 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 648757005891 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 648757005892 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 648757005893 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 648757005894 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 648757005895 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 648757005896 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 648757005897 ATP-grasp domain; Region: ATP-grasp_4; cl17255 648757005898 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 648757005899 IMP binding site; other site 648757005900 dimer interface [polypeptide binding]; other site 648757005901 interdomain contacts; other site 648757005902 partial ornithine binding site; other site 648757005903 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 648757005904 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 648757005905 heterodimer interface [polypeptide binding]; other site 648757005906 substrate interaction site [chemical binding]; other site 648757005907 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 648757005908 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 648757005909 active site 648757005910 substrate binding site [chemical binding]; other site 648757005911 coenzyme B12 binding site [chemical binding]; other site 648757005912 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 648757005913 B12 binding site [chemical binding]; other site 648757005914 cobalt ligand [ion binding]; other site 648757005915 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 648757005916 oligomerization interface [polypeptide binding]; other site 648757005917 active site 648757005918 metal binding site [ion binding]; metal-binding site 648757005919 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 648757005920 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 648757005921 Trp docking motif [polypeptide binding]; other site 648757005922 active site 648757005923 PQQ-like domain; Region: PQQ_2; pfam13360 648757005924 GTP-binding protein Der; Reviewed; Region: PRK00093 648757005925 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 648757005926 G1 box; other site 648757005927 GTP/Mg2+ binding site [chemical binding]; other site 648757005928 Switch I region; other site 648757005929 G2 box; other site 648757005930 Switch II region; other site 648757005931 G3 box; other site 648757005932 G4 box; other site 648757005933 G5 box; other site 648757005934 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 648757005935 G1 box; other site 648757005936 GTP/Mg2+ binding site [chemical binding]; other site 648757005937 Switch I region; other site 648757005938 G2 box; other site 648757005939 G3 box; other site 648757005940 Switch II region; other site 648757005941 G4 box; other site 648757005942 G5 box; other site 648757005943 DNA polymerase III subunit chi; Validated; Region: PRK05728 648757005944 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 648757005945 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 648757005946 active site 648757005947 catalytic tetrad [active] 648757005948 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 648757005949 MarR family; Region: MarR_2; pfam12802 648757005950 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 648757005951 Protein of unknown function (DUF1178); Region: DUF1178; cl17833 648757005952 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 648757005953 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 648757005954 Peptidase family M23; Region: Peptidase_M23; pfam01551 648757005955 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 648757005956 dimer interface [polypeptide binding]; other site 648757005957 pyridoxal binding site [chemical binding]; other site 648757005958 ATP binding site [chemical binding]; other site 648757005959 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 648757005960 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 648757005961 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 648757005962 dimer interface [polypeptide binding]; other site 648757005963 conserved gate region; other site 648757005964 putative PBP binding loops; other site 648757005965 ABC-ATPase subunit interface; other site 648757005966 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 648757005967 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 648757005968 dimer interface [polypeptide binding]; other site 648757005969 conserved gate region; other site 648757005970 putative PBP binding loops; other site 648757005971 ABC-ATPase subunit interface; other site 648757005972 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 648757005973 putative catalytic site [active] 648757005974 putative phosphate binding site [ion binding]; other site 648757005975 active site 648757005976 metal binding site A [ion binding]; metal-binding site 648757005977 DNA binding site [nucleotide binding] 648757005978 putative AP binding site [nucleotide binding]; other site 648757005979 putative metal binding site B [ion binding]; other site 648757005980 Protein of unknown function (DUF3754); Region: DUF3754; pfam12576 648757005981 YadA-like C-terminal region; Region: YadA; pfam03895 648757005982 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 648757005983 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 648757005984 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 648757005985 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 648757005986 RNA binding site [nucleotide binding]; other site 648757005987 YcjX-like family, DUF463; Region: DUF463; pfam04317 648757005988 hypothetical protein; Provisional; Region: PRK05415 648757005989 Domain of unknown function (DUF697); Region: DUF697; cl12064 648757005990 Predicted membrane protein [Function unknown]; Region: COG2855 648757005991 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 648757005992 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 648757005993 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 648757005994 putative dimerization interface [polypeptide binding]; other site 648757005995 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 648757005996 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 648757005997 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 648757005998 active site 648757005999 dimer interface [polypeptide binding]; other site 648757006000 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 648757006001 dimer interface [polypeptide binding]; other site 648757006002 active site 648757006003 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 648757006004 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 648757006005 ATP binding site [chemical binding]; other site 648757006006 Mg2+ binding site [ion binding]; other site 648757006007 G-X-G motif; other site 648757006008 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 648757006009 ATP binding site [chemical binding]; other site 648757006010 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 648757006011 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 648757006012 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 648757006013 metal binding site [ion binding]; metal-binding site 648757006014 Transcriptional regulator [Transcription]; Region: LysR; COG0583 648757006015 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 648757006016 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 648757006017 dimerization interface [polypeptide binding]; other site 648757006018 CsbD-like; Region: CsbD; pfam05532 648757006019 Isochorismatase family; Region: Isochorismatase; pfam00857 648757006020 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 648757006021 catalytic triad [active] 648757006022 dimer interface [polypeptide binding]; other site 648757006023 conserved cis-peptide bond; other site 648757006024 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 648757006025 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 648757006026 Substrate binding site; other site 648757006027 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 648757006028 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 648757006029 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 648757006030 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 648757006031 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757006032 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 648757006033 catalytic center binding site [active] 648757006034 ATP binding site [chemical binding]; other site 648757006035 Uncharacterized conserved protein [Function unknown]; Region: COG1432 648757006036 LabA_like proteins; Region: LabA; cd10911 648757006037 putative metal binding site [ion binding]; other site 648757006038 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 648757006039 Fe-S cluster binding site [ion binding]; other site 648757006040 DNA binding site [nucleotide binding] 648757006041 active site 648757006042 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 648757006043 Homeodomain-like domain; Region: HTH_23; pfam13384 648757006044 Winged helix-turn helix; Region: HTH_29; pfam13551 648757006045 Homeodomain-like domain; Region: HTH_32; pfam13565 648757006046 DDE superfamily endonuclease; Region: DDE_3; pfam13358 648757006047 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 648757006048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 648757006049 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 648757006050 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 648757006051 active site 648757006052 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 648757006053 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 648757006054 domain interfaces; other site 648757006055 active site 648757006056 UGMP family protein; Validated; Region: PRK09604 648757006057 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 648757006058 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 648757006059 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 648757006060 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 648757006061 PRC-barrel domain; Region: PRC; pfam05239 648757006062 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 648757006063 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 648757006064 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 648757006065 putative dimer interface [polypeptide binding]; other site 648757006066 active site pocket [active] 648757006067 putative cataytic base [active] 648757006068 cobalamin synthase; Reviewed; Region: cobS; PRK00235 648757006069 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 648757006070 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 648757006071 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 648757006072 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 648757006073 Fibrinogen binding protein; Region: Fibrinogen_BP; pfam08017 648757006074 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 648757006075 trimer interface [polypeptide binding]; other site 648757006076 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 648757006077 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 648757006078 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 648757006079 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 648757006080 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 648757006081 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 648757006082 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 648757006083 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 648757006084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757006085 homodimer interface [polypeptide binding]; other site 648757006086 catalytic residue [active] 648757006087 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 648757006088 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 648757006089 Nitrogen regulatory protein P-II; Region: P-II; smart00938 648757006090 Uncharacterized conserved protein [Function unknown]; Region: COG2353 648757006091 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 648757006092 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 648757006093 DNA binding site [nucleotide binding] 648757006094 catalytic residue [active] 648757006095 H2TH interface [polypeptide binding]; other site 648757006096 putative catalytic residues [active] 648757006097 turnover-facilitating residue; other site 648757006098 intercalation triad [nucleotide binding]; other site 648757006099 8OG recognition residue [nucleotide binding]; other site 648757006100 putative reading head residues; other site 648757006101 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 648757006102 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 648757006103 enoyl-CoA hydratase; Provisional; Region: PRK05862 648757006104 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 648757006105 substrate binding site [chemical binding]; other site 648757006106 oxyanion hole (OAH) forming residues; other site 648757006107 trimer interface [polypeptide binding]; other site 648757006108 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 648757006109 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 648757006110 ligand binding site [chemical binding]; other site 648757006111 flexible hinge region; other site 648757006112 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 648757006113 putative switch regulator; other site 648757006114 non-specific DNA interactions [nucleotide binding]; other site 648757006115 DNA binding site [nucleotide binding] 648757006116 sequence specific DNA binding site [nucleotide binding]; other site 648757006117 putative cAMP binding site [chemical binding]; other site 648757006118 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 648757006119 Cytochrome c; Region: Cytochrom_C; pfam00034 648757006120 Yqey-like protein; Region: YqeY; pfam09424 648757006121 Pirin-related protein [General function prediction only]; Region: COG1741 648757006122 Pirin; Region: Pirin; pfam02678 648757006123 CrcB-like protein; Region: CRCB; cl09114 648757006124 methionine sulfoxide reductase A; Provisional; Region: PRK00058 648757006125 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 648757006126 DNA photolyase; Region: DNA_photolyase; pfam00875 648757006127 N-formylglutamate amidohydrolase; Region: FGase; cl01522 648757006128 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 648757006129 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 648757006130 active site 648757006131 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 648757006132 Iron permease FTR1 family; Region: FTR1; cl00475 648757006133 LTXXQ motif family protein; Region: LTXXQ; pfam07813 648757006134 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 648757006135 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 648757006136 protein binding site [polypeptide binding]; other site 648757006137 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 648757006138 protein binding site [polypeptide binding]; other site 648757006139 tellurite resistance protein terB; Region: terB; cd07176 648757006140 putative metal binding site [ion binding]; other site 648757006141 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 648757006142 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 648757006143 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 648757006144 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 648757006145 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 648757006146 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 648757006147 FeS/SAM binding site; other site 648757006148 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 648757006149 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 648757006150 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 648757006151 P loop; other site 648757006152 GTP binding site [chemical binding]; other site 648757006153 intracellular septation protein A; Reviewed; Region: PRK00259 648757006154 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 648757006155 MarR family; Region: MarR_2; pfam12802 648757006156 MarR family; Region: MarR_2; cl17246 648757006157 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 648757006158 Coenzyme A binding pocket [chemical binding]; other site 648757006159 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 648757006160 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 648757006161 putative C-terminal domain interface [polypeptide binding]; other site 648757006162 putative GSH binding site (G-site) [chemical binding]; other site 648757006163 putative dimer interface [polypeptide binding]; other site 648757006164 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 648757006165 dimer interface [polypeptide binding]; other site 648757006166 N-terminal domain interface [polypeptide binding]; other site 648757006167 putative substrate binding pocket (H-site) [chemical binding]; other site 648757006168 putative cation:proton antiport protein; Provisional; Region: PRK10669 648757006169 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 648757006170 TrkA-N domain; Region: TrkA_N; pfam02254 648757006171 TfoX N-terminal domain; Region: TfoX_N; pfam04993 648757006172 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 648757006173 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 648757006174 dimerization interface [polypeptide binding]; other site 648757006175 ligand binding site [chemical binding]; other site 648757006176 NADP binding site [chemical binding]; other site 648757006177 catalytic site [active] 648757006178 Bacterial SH3 domain; Region: SH3_4; pfam06347 648757006179 Bacterial SH3 domain; Region: SH3_4; pfam06347 648757006180 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 648757006181 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 648757006182 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 648757006183 substrate binding site [chemical binding]; other site 648757006184 oxyanion hole (OAH) forming residues; other site 648757006185 trimer interface [polypeptide binding]; other site 648757006186 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 648757006187 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 648757006188 active site 648757006189 hydrophilic channel; other site 648757006190 dimerization interface [polypeptide binding]; other site 648757006191 catalytic residues [active] 648757006192 active site lid [active] 648757006193 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 648757006194 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 648757006195 active site 648757006196 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 648757006197 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 648757006198 Zn2+ binding site [ion binding]; other site 648757006199 Mg2+ binding site [ion binding]; other site 648757006200 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 648757006201 synthetase active site [active] 648757006202 NTP binding site [chemical binding]; other site 648757006203 metal binding site [ion binding]; metal-binding site 648757006204 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 648757006205 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 648757006206 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 648757006207 membrane ATPase/protein kinase; Provisional; Region: PRK09435 648757006208 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 648757006209 Walker A; other site 648757006210 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 648757006211 putative substrate binding pocket [chemical binding]; other site 648757006212 AC domain interface; other site 648757006213 catalytic triad [active] 648757006214 AB domain interface; other site 648757006215 interchain disulfide; other site 648757006216 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 648757006217 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 648757006218 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 648757006219 Transglycosylase; Region: Transgly; pfam00912 648757006220 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 648757006221 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 648757006222 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 648757006223 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 648757006224 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 648757006225 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 648757006226 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 648757006227 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 648757006228 putative C-terminal domain interface [polypeptide binding]; other site 648757006229 putative GSH binding site (G-site) [chemical binding]; other site 648757006230 putative dimer interface [polypeptide binding]; other site 648757006231 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 648757006232 putative substrate binding pocket (H-site) [chemical binding]; other site 648757006233 putative N-terminal domain interface [polypeptide binding]; other site 648757006234 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 648757006235 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 648757006236 motif II; other site 648757006237 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 648757006238 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 648757006239 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 648757006240 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 648757006241 PYR/PP interface [polypeptide binding]; other site 648757006242 dimer interface [polypeptide binding]; other site 648757006243 TPP binding site [chemical binding]; other site 648757006244 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 648757006245 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 648757006246 TPP-binding site [chemical binding]; other site 648757006247 dimer interface [polypeptide binding]; other site 648757006248 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 648757006249 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 648757006250 putative valine binding site [chemical binding]; other site 648757006251 dimer interface [polypeptide binding]; other site 648757006252 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 648757006253 ketol-acid reductoisomerase; Provisional; Region: PRK05479 648757006254 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 648757006255 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 648757006256 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 648757006257 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 648757006258 trimer interface [polypeptide binding]; other site 648757006259 active site 648757006260 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 648757006261 Flavoprotein; Region: Flavoprotein; pfam02441 648757006262 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 648757006263 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 648757006264 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 648757006265 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 648757006266 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 648757006267 tandem repeat interface [polypeptide binding]; other site 648757006268 oligomer interface [polypeptide binding]; other site 648757006269 active site residues [active] 648757006270 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 648757006271 Methyltransferase domain; Region: Methyltransf_26; pfam13659 648757006272 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 648757006273 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 648757006274 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 648757006275 substrate binding pocket [chemical binding]; other site 648757006276 chain length determination region; other site 648757006277 substrate-Mg2+ binding site; other site 648757006278 catalytic residues [active] 648757006279 aspartate-rich region 1; other site 648757006280 active site lid residues [active] 648757006281 aspartate-rich region 2; other site 648757006282 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 648757006283 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 648757006284 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 648757006285 NAD binding site [chemical binding]; other site 648757006286 ATP-grasp domain; Region: ATP-grasp_4; cl17255 648757006287 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 648757006288 TPR repeat; Region: TPR_11; pfam13414 648757006289 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 648757006290 binding surface 648757006291 TPR motif; other site 648757006292 TPR repeat; Region: TPR_11; pfam13414 648757006293 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 648757006294 binding surface 648757006295 TPR motif; other site 648757006296 Tetratricopeptide repeat; Region: TPR_9; pfam13371 648757006297 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 648757006298 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 648757006299 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 648757006300 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 648757006301 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 648757006302 catalytic residue [active] 648757006303 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 648757006304 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 648757006305 active site 648757006306 phosphorylation site [posttranslational modification] 648757006307 intermolecular recognition site; other site 648757006308 dimerization interface [polypeptide binding]; other site 648757006309 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 648757006310 BA14K-like protein; Region: BA14K; pfam07886 648757006311 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 648757006312 aldehyde dehydrogenase family 7 member; Region: PLN02315 648757006313 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 648757006314 tetrameric interface [polypeptide binding]; other site 648757006315 NAD binding site [chemical binding]; other site 648757006316 catalytic residues [active] 648757006317 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 648757006318 active site 648757006319 catalytic triad [active] 648757006320 oxyanion hole [active] 648757006321 switch loop; other site 648757006322 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 648757006323 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 648757006324 Walker A/P-loop; other site 648757006325 ATP binding site [chemical binding]; other site 648757006326 Q-loop/lid; other site 648757006327 ABC transporter signature motif; other site 648757006328 Walker B; other site 648757006329 D-loop; other site 648757006330 H-loop/switch region; other site 648757006331 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 648757006332 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 648757006333 FtsX-like permease family; Region: FtsX; pfam02687 648757006334 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 648757006335 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 648757006336 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 648757006337 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 648757006338 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 648757006339 nucleotide binding site [chemical binding]; other site 648757006340 NEF interaction site [polypeptide binding]; other site 648757006341 SBD interface [polypeptide binding]; other site 648757006342 chaperone protein DnaJ; Provisional; Region: PRK10767 648757006343 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 648757006344 HSP70 interaction site [polypeptide binding]; other site 648757006345 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 648757006346 substrate binding site [polypeptide binding]; other site 648757006347 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 648757006348 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 648757006349 dimer interface [polypeptide binding]; other site 648757006350 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 648757006351 DNA binding site [nucleotide binding] 648757006352 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 648757006353 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 648757006354 Permease; Region: Permease; pfam02405 648757006355 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 648757006356 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 648757006357 Walker A/P-loop; other site 648757006358 ATP binding site [chemical binding]; other site 648757006359 Q-loop/lid; other site 648757006360 ABC transporter signature motif; other site 648757006361 Walker B; other site 648757006362 D-loop; other site 648757006363 H-loop/switch region; other site 648757006364 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 648757006365 mce related protein; Region: MCE; pfam02470 648757006366 Protein of unknown function (DUF330); Region: DUF330; cl01135 648757006367 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 648757006368 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 648757006369 putative C-terminal domain interface [polypeptide binding]; other site 648757006370 putative GSH binding site (G-site) [chemical binding]; other site 648757006371 putative dimer interface [polypeptide binding]; other site 648757006372 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 648757006373 N-terminal domain interface [polypeptide binding]; other site 648757006374 dimer interface [polypeptide binding]; other site 648757006375 substrate binding pocket (H-site) [chemical binding]; other site 648757006376 Antenna complex alpha/beta subunit; Region: LHC; pfam00556 648757006377 PUCC protein; Region: PUCC; pfam03209 648757006378 glutathione reductase; Validated; Region: PRK06116 648757006379 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 648757006380 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 648757006381 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 648757006382 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 648757006383 tetramer (dimer of dimers) interface [polypeptide binding]; other site 648757006384 active site 648757006385 dimer interface [polypeptide binding]; other site 648757006386 succinic semialdehyde dehydrogenase; Region: PLN02278 648757006387 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 648757006388 tetramerization interface [polypeptide binding]; other site 648757006389 NAD(P) binding site [chemical binding]; other site 648757006390 catalytic residues [active] 648757006391 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 648757006392 putative hydrolase; Provisional; Region: PRK02113 648757006393 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 648757006394 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 648757006395 active site 648757006396 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 648757006397 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 648757006398 active site 648757006399 HIGH motif; other site 648757006400 KMSKS motif; other site 648757006401 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 648757006402 tRNA binding surface [nucleotide binding]; other site 648757006403 anticodon binding site; other site 648757006404 DNA polymerase III subunit delta'; Validated; Region: PRK07471 648757006405 DNA polymerase III subunit delta'; Validated; Region: PRK08485 648757006406 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 648757006407 Methyltransferase domain; Region: Methyltransf_11; pfam08241 648757006408 Methyltransferase domain; Region: Methyltransf_23; pfam13489 648757006409 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 648757006410 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 648757006411 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 648757006412 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 648757006413 S-adenosylmethionine binding site [chemical binding]; other site 648757006414 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 648757006415 Protein kinase domain; Region: Pkinase; pfam00069 648757006416 Catalytic domain of Protein Kinases; Region: PKc; cd00180 648757006417 active site 648757006418 ATP binding site [chemical binding]; other site 648757006419 substrate binding site [chemical binding]; other site 648757006420 activation loop (A-loop); other site 648757006421 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 648757006422 Ligand Binding Site [chemical binding]; other site 648757006423 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 648757006424 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 648757006425 active site 648757006426 metal binding site [ion binding]; metal-binding site 648757006427 Predicted integral membrane protein [Function unknown]; Region: COG5436 648757006428 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 648757006429 Transglycosylase; Region: Transgly; pfam00912 648757006430 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 648757006431 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 648757006432 hypothetical protein; Provisional; Region: PRK05170 648757006433 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 648757006434 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 648757006435 active site 648757006436 phosphorylation site [posttranslational modification] 648757006437 intermolecular recognition site; other site 648757006438 dimerization interface [polypeptide binding]; other site 648757006439 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 648757006440 DNA binding site [nucleotide binding] 648757006441 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 648757006442 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 648757006443 ATP binding site [chemical binding]; other site 648757006444 Mg2+ binding site [ion binding]; other site 648757006445 G-X-G motif; other site 648757006446 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 648757006447 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 648757006448 NMT1/THI5 like; Region: NMT1; pfam09084 648757006449 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 648757006450 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 648757006451 active site 648757006452 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 648757006453 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 648757006454 dimer interface [polypeptide binding]; other site 648757006455 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757006456 catalytic residue [active] 648757006457 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 648757006458 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 648757006459 Protein of unknown function (DUF465); Region: DUF465; cl01070 648757006460 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 648757006461 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 648757006462 dimer interface [polypeptide binding]; other site 648757006463 motif 1; other site 648757006464 active site 648757006465 motif 2; other site 648757006466 motif 3; other site 648757006467 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 648757006468 anticodon binding site; other site 648757006469 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 648757006470 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 648757006471 dimer interface [polypeptide binding]; other site 648757006472 motif 1; other site 648757006473 motif 2; other site 648757006474 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 648757006475 active site 648757006476 motif 3; other site 648757006477 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 648757006478 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 648757006479 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 648757006480 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 648757006481 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 648757006482 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 648757006483 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 648757006484 active site 648757006485 nucleophile elbow; other site 648757006486 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 648757006487 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 648757006488 Walker A motif; other site 648757006489 ATP binding site [chemical binding]; other site 648757006490 Walker B motif; other site 648757006491 arginine finger; other site 648757006492 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 648757006493 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 648757006494 dimerization interface [polypeptide binding]; other site 648757006495 domain crossover interface; other site 648757006496 redox-dependent activation switch; other site 648757006497 ornithine carbamoyltransferase; Provisional; Region: PRK00779 648757006498 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 648757006499 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 648757006500 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 648757006501 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 648757006502 inhibitor-cofactor binding pocket; inhibition site 648757006503 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757006504 catalytic residue [active] 648757006505 GcrA cell cycle regulator; Region: GcrA; pfam07750 648757006506 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 648757006507 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 648757006508 active site 648757006509 phosphorylation site [posttranslational modification] 648757006510 intermolecular recognition site; other site 648757006511 dimerization interface [polypeptide binding]; other site 648757006512 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 648757006513 DNA binding site [nucleotide binding] 648757006514 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 648757006515 PhoU domain; Region: PhoU; pfam01895 648757006516 PhoU domain; Region: PhoU; pfam01895 648757006517 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 648757006518 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 648757006519 Walker A/P-loop; other site 648757006520 ATP binding site [chemical binding]; other site 648757006521 Q-loop/lid; other site 648757006522 ABC transporter signature motif; other site 648757006523 Walker B; other site 648757006524 D-loop; other site 648757006525 H-loop/switch region; other site 648757006526 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 648757006527 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 648757006528 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 648757006529 dimer interface [polypeptide binding]; other site 648757006530 conserved gate region; other site 648757006531 putative PBP binding loops; other site 648757006532 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 648757006533 ABC-ATPase subunit interface; other site 648757006534 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 648757006535 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 648757006536 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 648757006537 dimer interface [polypeptide binding]; other site 648757006538 conserved gate region; other site 648757006539 putative PBP binding loops; other site 648757006540 ABC-ATPase subunit interface; other site 648757006541 PBP superfamily domain; Region: PBP_like_2; pfam12849 648757006542 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 648757006543 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 648757006544 dimer interface [polypeptide binding]; other site 648757006545 phosphorylation site [posttranslational modification] 648757006546 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 648757006547 ATP binding site [chemical binding]; other site 648757006548 Mg2+ binding site [ion binding]; other site 648757006549 G-X-G motif; other site 648757006550 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 648757006551 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 648757006552 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 648757006553 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 648757006554 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 648757006555 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 648757006556 Walker A/P-loop; other site 648757006557 ATP binding site [chemical binding]; other site 648757006558 Q-loop/lid; other site 648757006559 ABC transporter signature motif; other site 648757006560 Walker B; other site 648757006561 D-loop; other site 648757006562 H-loop/switch region; other site 648757006563 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 648757006564 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 648757006565 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 648757006566 protein binding site [polypeptide binding]; other site 648757006567 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 648757006568 protein binding site [polypeptide binding]; other site 648757006569 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 648757006570 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 648757006571 ATP binding site [chemical binding]; other site 648757006572 G-X-G motif; other site 648757006573 mercuric reductase; Validated; Region: PRK06370 648757006574 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 648757006575 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 648757006576 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 648757006577 elongation factor G; Reviewed; Region: PRK12740 648757006578 G1 box; other site 648757006579 putative GEF interaction site [polypeptide binding]; other site 648757006580 GTP/Mg2+ binding site [chemical binding]; other site 648757006581 Switch I region; other site 648757006582 G2 box; other site 648757006583 G3 box; other site 648757006584 Switch II region; other site 648757006585 G4 box; other site 648757006586 G5 box; other site 648757006587 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 648757006588 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 648757006589 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 648757006590 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 648757006591 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 648757006592 substrate binding site [chemical binding]; other site 648757006593 glutamase interaction surface [polypeptide binding]; other site 648757006594 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 648757006595 4Fe-4S binding domain; Region: Fer4_5; pfam12801 648757006596 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 648757006597 Fe2+ transport protein; Region: Iron_transport; pfam10634 648757006598 Fe2+ transport protein; Region: Iron_transport; pfam10634 648757006599 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 648757006600 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 648757006601 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 648757006602 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 648757006603 ATP-grasp domain; Region: ATP-grasp_4; cl17255 648757006604 diaminopimelate decarboxylase; Region: lysA; TIGR01048 648757006605 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 648757006606 active site 648757006607 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 648757006608 substrate binding site [chemical binding]; other site 648757006609 catalytic residues [active] 648757006610 dimer interface [polypeptide binding]; other site 648757006611 argininosuccinate lyase; Provisional; Region: PRK00855 648757006612 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 648757006613 active sites [active] 648757006614 tetramer interface [polypeptide binding]; other site 648757006615 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 648757006616 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 648757006617 catalytic residues [active] 648757006618 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 648757006619 FAD binding domain; Region: FAD_binding_4; pfam01565 648757006620 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 648757006621 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 648757006622 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 648757006623 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 648757006624 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 648757006625 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 648757006626 thymidylate kinase; Validated; Region: tmk; PRK00698 648757006627 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 648757006628 TMP-binding site; other site 648757006629 ATP-binding site [chemical binding]; other site 648757006630 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 648757006631 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 648757006632 active site 648757006633 DNA binding site [nucleotide binding] 648757006634 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 648757006635 DNA binding site [nucleotide binding] 648757006636 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 648757006637 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 648757006638 active site 648757006639 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 648757006640 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 648757006641 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 648757006642 DNA polymerase III subunit alpha; Reviewed; Region: PRK07373 648757006643 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 648757006644 generic binding surface II; other site 648757006645 generic binding surface I; other site 648757006646 Y-family of DNA polymerases; Region: PolY; cl12025 648757006647 DNA Polymerase Y-family; Region: PolY_like; cd03468 648757006648 DNA binding site [nucleotide binding] 648757006649 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 648757006650 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 648757006651 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 648757006652 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 648757006653 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 648757006654 NAD(P) binding site [chemical binding]; other site 648757006655 catalytic residues [active] 648757006656 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 648757006657 Mechanosensitive ion channel; Region: MS_channel; pfam00924 648757006658 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 648757006659 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 648757006660 ThiC-associated domain; Region: ThiC-associated; pfam13667 648757006661 ThiC family; Region: ThiC; pfam01964 648757006662 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757006663 Winged helix-turn helix; Region: HTH_29; pfam13551 648757006664 Integrase core domain; Region: rve; pfam00665 648757006665 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757006666 Integrase core domain; Region: rve_3; pfam13683 648757006667 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 648757006668 metal-dependent hydrolase; Provisional; Region: PRK00685 648757006669 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 648757006670 Predicted permeases [General function prediction only]; Region: COG0679 648757006671 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 648757006672 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 648757006673 DNA protecting protein DprA; Region: dprA; TIGR00732 648757006674 phosphoglycolate phosphatase; Provisional; Region: PRK13222 648757006675 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 648757006676 motif II; other site 648757006677 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 648757006678 transposase/IS protein; Provisional; Region: PRK09183 648757006679 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 648757006680 Walker A motif; other site 648757006681 ATP binding site [chemical binding]; other site 648757006682 Walker B motif; other site 648757006683 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 648757006684 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 648757006685 Catalytic site [active] 648757006686 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757006687 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757006688 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757006689 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757006690 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757006691 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757006692 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757006693 Transposase; Region: HTH_Tnp_1; pfam01527 648757006694 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757006695 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 648757006696 non-specific DNA binding site [nucleotide binding]; other site 648757006697 salt bridge; other site 648757006698 sequence-specific DNA binding site [nucleotide binding]; other site 648757006699 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 648757006700 TPR motif; other site 648757006701 binding surface 648757006702 TPR repeat; Region: TPR_11; pfam13414 648757006703 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 648757006704 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757006705 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 648757006706 active site 648757006707 Methyltransferase domain; Region: Methyltransf_24; pfam13578 648757006708 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 648757006709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 648757006710 NAD(P) binding site [chemical binding]; other site 648757006711 active site 648757006712 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 648757006713 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 648757006714 NADP-binding site; other site 648757006715 homotetramer interface [polypeptide binding]; other site 648757006716 substrate binding site [chemical binding]; other site 648757006717 homodimer interface [polypeptide binding]; other site 648757006718 active site 648757006719 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 648757006720 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 648757006721 Substrate binding site; other site 648757006722 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 648757006723 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 648757006724 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 648757006725 Vi polysaccharide export protein VexA; Provisional; Region: PRK15175 648757006726 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 648757006727 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 648757006728 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757006729 TPR repeat; Region: TPR_11; pfam13414 648757006730 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 648757006731 TPR motif; other site 648757006732 binding surface 648757006733 TPR repeat; Region: TPR_11; pfam13414 648757006734 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 648757006735 FeS/SAM binding site; other site 648757006736 Radical SAM superfamily; Region: Radical_SAM; pfam04055 648757006737 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 648757006738 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 648757006739 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 648757006740 ABC-2 type transporter; Region: ABC2_membrane; cl17235 648757006741 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 648757006742 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 648757006743 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 648757006744 Walker A/P-loop; other site 648757006745 ATP binding site [chemical binding]; other site 648757006746 Q-loop/lid; other site 648757006747 ABC transporter signature motif; other site 648757006748 Walker B; other site 648757006749 D-loop; other site 648757006750 H-loop/switch region; other site 648757006751 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 648757006752 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757006753 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757006754 Transposase; Region: HTH_Tnp_1; pfam01527 648757006755 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757006756 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757006757 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757006758 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757006759 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757006760 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757006761 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757006762 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757006763 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 648757006764 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 648757006765 active site 648757006766 substrate binding site [chemical binding]; other site 648757006767 metal binding site [ion binding]; metal-binding site 648757006768 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 648757006769 oligomeric interface; other site 648757006770 putative active site [active] 648757006771 homodimer interface [polypeptide binding]; other site 648757006772 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 648757006773 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 648757006774 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 648757006775 Domain of unknown function (DUF927); Region: DUF927; pfam06048 648757006776 integrase; Provisional; Region: PRK09692 648757006777 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 648757006778 active site 648757006779 Int/Topo IB signature motif; other site 648757006780 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 648757006781 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 648757006782 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 648757006783 inhibitor-cofactor binding pocket; inhibition site 648757006784 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757006785 catalytic residue [active] 648757006786 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 648757006787 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 648757006788 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 648757006789 TROVE domain; Region: TROVE; pfam05731 648757006790 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 648757006791 active site 648757006792 SAM binding site [chemical binding]; other site 648757006793 homodimer interface [polypeptide binding]; other site 648757006794 dipicolinate synthase subunit A; Reviewed; Region: PRK08306 648757006795 magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase; Region: BchE; TIGR02026 648757006796 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 648757006797 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 648757006798 FeS/SAM binding site; other site 648757006799 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 648757006800 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 648757006801 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 648757006802 intersubunit interface [polypeptide binding]; other site 648757006803 intersubunit interface [polypeptide binding]; other site 648757006804 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 648757006805 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 648757006806 Walker A/P-loop; other site 648757006807 ATP binding site [chemical binding]; other site 648757006808 Q-loop/lid; other site 648757006809 ABC transporter signature motif; other site 648757006810 Walker B; other site 648757006811 D-loop; other site 648757006812 H-loop/switch region; other site 648757006813 FecCD transport family; Region: FecCD; pfam01032 648757006814 putative PBP binding regions; other site 648757006815 ABC-ATPase subunit interface; other site 648757006816 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 648757006817 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 648757006818 active site 648757006819 nucleotide binding site [chemical binding]; other site 648757006820 HIGH motif; other site 648757006821 KMSKS motif; other site 648757006822 Cysteine-rich small domain; Region: zf-like; cl00946 648757006823 cobyric acid synthase; Provisional; Region: PRK00784 648757006824 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757006825 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757006826 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 648757006827 catalytic triad [active] 648757006828 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 648757006829 active site 648757006830 catalytic residues [active] 648757006831 metal binding site [ion binding]; metal-binding site 648757006832 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 648757006833 TAP-like protein; Region: Abhydrolase_4; pfam08386 648757006834 two-component response regulator; Provisional; Region: PRK09191 648757006835 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 648757006836 active site 648757006837 phosphorylation site [posttranslational modification] 648757006838 intermolecular recognition site; other site 648757006839 dimerization interface [polypeptide binding]; other site 648757006840 RNA polymerase sigma factor; Provisional; Region: PRK12547 648757006841 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 648757006842 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 648757006843 DNA binding residues [nucleotide binding] 648757006844 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 648757006845 CHASE3 domain; Region: CHASE3; pfam05227 648757006846 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 648757006847 dimer interface [polypeptide binding]; other site 648757006848 phosphorylation site [posttranslational modification] 648757006849 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 648757006850 ATP binding site [chemical binding]; other site 648757006851 Mg2+ binding site [ion binding]; other site 648757006852 G-X-G motif; other site 648757006853 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 648757006854 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 648757006855 active site 648757006856 phosphorylation site [posttranslational modification] 648757006857 intermolecular recognition site; other site 648757006858 dimerization interface [polypeptide binding]; other site 648757006859 Response regulator receiver domain; Region: Response_reg; pfam00072 648757006860 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 648757006861 active site 648757006862 phosphorylation site [posttranslational modification] 648757006863 intermolecular recognition site; other site 648757006864 Histidine kinase; Region: HisKA_2; pfam07568 648757006865 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 648757006866 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 648757006867 ATP binding site [chemical binding]; other site 648757006868 Mg2+ binding site [ion binding]; other site 648757006869 G-X-G motif; other site 648757006870 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 648757006871 putative heme utilization radical SAM enzyme HutW; Region: rSAM_HutW; TIGR04107 648757006872 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 648757006873 FeS/SAM binding site; other site 648757006874 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 648757006875 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 648757006876 N-terminal plug; other site 648757006877 ligand-binding site [chemical binding]; other site 648757006878 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 648757006879 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 648757006880 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 648757006881 Gram-negative bacterial tonB protein; Region: TonB; cl10048 648757006882 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 648757006883 dimerization interface [polypeptide binding]; other site 648757006884 putative DNA binding site [nucleotide binding]; other site 648757006885 putative Zn2+ binding site [ion binding]; other site 648757006886 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 648757006887 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757006888 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 648757006889 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 648757006890 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 648757006891 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 648757006892 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12788 648757006893 Uncharacterized conserved protein [Function unknown]; Region: COG3334 648757006894 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 648757006895 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 648757006896 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 648757006897 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 648757006898 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 648757006899 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 648757006900 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 648757006901 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 648757006902 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 648757006903 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 648757006904 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 648757006905 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 648757006906 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 648757006907 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 648757006908 flagellar motor protein MotA; Validated; Region: PRK09110 648757006909 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 648757006910 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 648757006911 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 648757006912 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 648757006913 dimer interface [polypeptide binding]; other site 648757006914 putative CheW interface [polypeptide binding]; other site 648757006915 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 648757006916 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 648757006917 active site 648757006918 phosphorylation site [posttranslational modification] 648757006919 intermolecular recognition site; other site 648757006920 dimerization interface [polypeptide binding]; other site 648757006921 CheB methylesterase; Region: CheB_methylest; pfam01339 648757006922 CheD chemotactic sensory transduction; Region: CheD; cl00810 648757006923 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 648757006924 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 648757006925 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 648757006926 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 648757006927 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 648757006928 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 648757006929 putative active site [active] 648757006930 heme pocket [chemical binding]; other site 648757006931 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 648757006932 putative active site [active] 648757006933 heme pocket [chemical binding]; other site 648757006934 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 648757006935 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 648757006936 dimer interface [polypeptide binding]; other site 648757006937 putative CheW interface [polypeptide binding]; other site 648757006938 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 648757006939 putative CheA interaction surface; other site 648757006940 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 648757006941 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 648757006942 putative binding surface; other site 648757006943 active site 648757006944 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 648757006945 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 648757006946 ATP binding site [chemical binding]; other site 648757006947 Mg2+ binding site [ion binding]; other site 648757006948 G-X-G motif; other site 648757006949 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 648757006950 Response regulator receiver domain; Region: Response_reg; pfam00072 648757006951 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 648757006952 active site 648757006953 phosphorylation site [posttranslational modification] 648757006954 intermolecular recognition site; other site 648757006955 dimerization interface [polypeptide binding]; other site 648757006956 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 648757006957 anti sigma factor interaction site; other site 648757006958 regulatory phosphorylation site [posttranslational modification]; other site 648757006959 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 648757006960 FliG C-terminal domain; Region: FliG_C; pfam01706 648757006961 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 648757006962 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 648757006963 Rod binding protein; Region: Rod-binding; cl01626 648757006964 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 648757006965 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 648757006966 FHIPEP family; Region: FHIPEP; pfam00771 648757006967 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 648757006968 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 648757006969 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 648757006970 Flagellar protein FlbT; Region: FlbT; cl11455 648757006971 Flagellar protein FlaF; Region: FlaF; cl11454 648757006972 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 648757006973 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 648757006974 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 648757006975 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 648757006976 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 648757006977 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 648757006978 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 648757006979 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 648757006980 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 648757006981 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 648757006982 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 648757006983 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 648757006984 Walker A motif; other site 648757006985 ATP binding site [chemical binding]; other site 648757006986 Walker B motif; other site 648757006987 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 648757006988 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 648757006989 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 648757006990 Response regulator receiver domain; Region: Response_reg; pfam00072 648757006991 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 648757006992 active site 648757006993 phosphorylation site [posttranslational modification] 648757006994 intermolecular recognition site; other site 648757006995 dimerization interface [polypeptide binding]; other site 648757006996 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 648757006997 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 648757006998 N-acetyl-D-glucosamine binding site [chemical binding]; other site 648757006999 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 648757007000 chemotaxis protein; Reviewed; Region: PRK12798 648757007001 flagellar motor protein MotB; Validated; Region: motB; PRK05996 648757007002 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 648757007003 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 648757007004 ligand binding site [chemical binding]; other site 648757007005 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 648757007006 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 648757007007 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 648757007008 flagellin; Reviewed; Region: PRK12687 648757007009 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 648757007010 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 648757007011 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 648757007012 HAMP domain; Region: HAMP; pfam00672 648757007013 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 648757007014 dimer interface [polypeptide binding]; other site 648757007015 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 648757007016 putative CheW interface [polypeptide binding]; other site 648757007017 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 648757007018 putative binding surface; other site 648757007019 active site 648757007020 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 648757007021 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 648757007022 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 648757007023 ATP binding site [chemical binding]; other site 648757007024 Mg2+ binding site [ion binding]; other site 648757007025 G-X-G motif; other site 648757007026 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 648757007027 CheW-like domain; Region: CheW; pfam01584 648757007028 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 648757007029 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 648757007030 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 648757007031 active site 648757007032 FMN binding site [chemical binding]; other site 648757007033 substrate binding site [chemical binding]; other site 648757007034 homotetramer interface [polypeptide binding]; other site 648757007035 catalytic residue [active] 648757007036 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 648757007037 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 648757007038 binding surface 648757007039 TPR motif; other site 648757007040 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 648757007041 binding surface 648757007042 TPR motif; other site 648757007043 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 648757007044 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 648757007045 putative ligand binding site [chemical binding]; other site 648757007046 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 648757007047 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 648757007048 active site 648757007049 Zn binding site [ion binding]; other site 648757007050 Universal stress protein family; Region: Usp; pfam00582 648757007051 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 648757007052 Ligand Binding Site [chemical binding]; other site 648757007053 Protein required for attachment to host cells; Region: Host_attach; pfam10116 648757007054 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 648757007055 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 648757007056 S-adenosylmethionine binding site [chemical binding]; other site 648757007057 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 648757007058 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 648757007059 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 648757007060 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 648757007061 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 648757007062 carboxyltransferase (CT) interaction site; other site 648757007063 biotinylation site [posttranslational modification]; other site 648757007064 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 648757007065 Cupin domain; Region: Cupin_2; pfam07883 648757007066 hypothetical protein; Provisional; Region: PRK12472 648757007067 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 648757007068 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 648757007069 Predicted membrane protein [Function unknown]; Region: COG4129 648757007070 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 648757007071 active site 648757007072 dimer interface [polypeptide binding]; other site 648757007073 metal binding site [ion binding]; metal-binding site 648757007074 shikimate kinase; Provisional; Region: PRK13946 648757007075 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 648757007076 ADP binding site [chemical binding]; other site 648757007077 magnesium binding site [ion binding]; other site 648757007078 putative shikimate binding site; other site 648757007079 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 648757007080 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 648757007081 active site 648757007082 DNA binding site [nucleotide binding] 648757007083 Int/Topo IB signature motif; other site 648757007084 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 648757007085 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 648757007086 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 648757007087 NAD binding site [chemical binding]; other site 648757007088 homotetramer interface [polypeptide binding]; other site 648757007089 homodimer interface [polypeptide binding]; other site 648757007090 substrate binding site [chemical binding]; other site 648757007091 active site 648757007092 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 648757007093 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 648757007094 dimer interface [polypeptide binding]; other site 648757007095 active site 648757007096 3-hydroxydecanoyl-(acyl carrier protein) dehydratase; Validated; Region: PRK05174 648757007097 active site 2 [active] 648757007098 active site 1 [active] 648757007099 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 648757007100 metal binding site 2 [ion binding]; metal-binding site 648757007101 putative DNA binding helix; other site 648757007102 metal binding site 1 [ion binding]; metal-binding site 648757007103 dimer interface [polypeptide binding]; other site 648757007104 structural Zn2+ binding site [ion binding]; other site 648757007105 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 648757007106 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 648757007107 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 648757007108 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 648757007109 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 648757007110 substrate binding pocket [chemical binding]; other site 648757007111 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 648757007112 B12 binding site [chemical binding]; other site 648757007113 cobalt ligand [ion binding]; other site 648757007114 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 648757007115 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 648757007116 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 648757007117 dimer interface [polypeptide binding]; other site 648757007118 conserved gate region; other site 648757007119 putative PBP binding loops; other site 648757007120 ABC-ATPase subunit interface; other site 648757007121 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 648757007122 dimer interface [polypeptide binding]; other site 648757007123 conserved gate region; other site 648757007124 putative PBP binding loops; other site 648757007125 ABC-ATPase subunit interface; other site 648757007126 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 648757007127 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 648757007128 Walker A/P-loop; other site 648757007129 ATP binding site [chemical binding]; other site 648757007130 Q-loop/lid; other site 648757007131 ABC transporter signature motif; other site 648757007132 Walker B; other site 648757007133 D-loop; other site 648757007134 H-loop/switch region; other site 648757007135 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 648757007136 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 648757007137 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757007138 Walker A/P-loop; other site 648757007139 ATP binding site [chemical binding]; other site 648757007140 Q-loop/lid; other site 648757007141 ABC transporter signature motif; other site 648757007142 Walker B; other site 648757007143 D-loop; other site 648757007144 H-loop/switch region; other site 648757007145 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 648757007146 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 648757007147 substrate binding pocket [chemical binding]; other site 648757007148 membrane-bound complex binding site; other site 648757007149 hinge residues; other site 648757007150 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 648757007151 NlpC/P60 family; Region: NLPC_P60; pfam00877 648757007152 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 648757007153 interface (dimer of trimers) [polypeptide binding]; other site 648757007154 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 648757007155 Substrate-binding/catalytic site; other site 648757007156 Zn-binding sites [ion binding]; other site 648757007157 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 648757007158 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 648757007159 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 648757007160 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 648757007161 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 648757007162 Methyltransferase domain; Region: Methyltransf_24; pfam13578 648757007163 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 648757007164 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 648757007165 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 648757007166 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 648757007167 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 648757007168 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 648757007169 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 648757007170 substrate binding site [chemical binding]; other site 648757007171 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 648757007172 Amidase; Region: Amidase; cl11426 648757007173 Methyltransferase domain; Region: Methyltransf_23; pfam13489 648757007174 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 648757007175 S-adenosylmethionine binding site [chemical binding]; other site 648757007176 tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional; Region: tnaA; PRK13238 648757007177 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 648757007178 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757007179 catalytic residue [active] 648757007180 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 648757007181 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 648757007182 putative NAD(P) binding site [chemical binding]; other site 648757007183 active site 648757007184 phage T7 F exclusion suppressor FxsA; Reviewed; Region: fxsA; PRK11463 648757007185 Tim44-like domain; Region: Tim44; pfam04280 648757007186 MltA specific insert domain; Region: MltA; smart00925 648757007187 3D domain; Region: 3D; pfam06725 648757007188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 648757007189 Smr domain; Region: Smr; pfam01713 648757007190 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 648757007191 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 648757007192 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757007193 Walker A/P-loop; other site 648757007194 ATP binding site [chemical binding]; other site 648757007195 Q-loop/lid; other site 648757007196 ABC transporter signature motif; other site 648757007197 Walker B; other site 648757007198 D-loop; other site 648757007199 H-loop/switch region; other site 648757007200 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 648757007201 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 648757007202 Ligand binding site; other site 648757007203 Putative Catalytic site; other site 648757007204 DXD motif; other site 648757007205 Lipid A Biosynthesis N-terminal domain; Region: LAB_N; cl01627 648757007206 Rrf2 family protein; Region: rrf2_super; TIGR00738 648757007207 Transcriptional regulator; Region: Rrf2; pfam02082 648757007208 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 648757007209 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 648757007210 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 648757007211 dimerization interface [polypeptide binding]; other site 648757007212 ligand binding site [chemical binding]; other site 648757007213 NADP binding site [chemical binding]; other site 648757007214 catalytic site [active] 648757007215 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 648757007216 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 648757007217 ATP binding site [chemical binding]; other site 648757007218 putative Mg++ binding site [ion binding]; other site 648757007219 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 648757007220 nucleotide binding region [chemical binding]; other site 648757007221 ATP-binding site [chemical binding]; other site 648757007222 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 648757007223 RNA binding site [nucleotide binding]; other site 648757007224 hypothetical protein; Validated; Region: PRK00124 648757007225 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 648757007226 Methyltransferase domain; Region: Methyltransf_31; pfam13847 648757007227 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 648757007228 S-adenosylmethionine binding site [chemical binding]; other site 648757007229 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 648757007230 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 648757007231 PYR/PP interface [polypeptide binding]; other site 648757007232 dimer interface [polypeptide binding]; other site 648757007233 TPP binding site [chemical binding]; other site 648757007234 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 648757007235 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 648757007236 TPP-binding site; other site 648757007237 dimer interface [polypeptide binding]; other site 648757007238 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 648757007239 SmpB-tmRNA interface; other site 648757007240 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 648757007241 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 648757007242 dimer interface [polypeptide binding]; other site 648757007243 active site 648757007244 catalytic residue [active] 648757007245 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 648757007246 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 648757007247 N-acetyl-D-glucosamine binding site [chemical binding]; other site 648757007248 catalytic residue [active] 648757007249 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 648757007250 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 648757007251 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 648757007252 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 648757007253 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 648757007254 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 648757007255 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 648757007256 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 648757007257 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 648757007258 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 648757007259 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 648757007260 DNA binding site [nucleotide binding] 648757007261 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 648757007262 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 648757007263 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 648757007264 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 648757007265 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 648757007266 RPB12 interaction site [polypeptide binding]; other site 648757007267 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 648757007268 RPB3 interaction site [polypeptide binding]; other site 648757007269 RPB1 interaction site [polypeptide binding]; other site 648757007270 RPB11 interaction site [polypeptide binding]; other site 648757007271 RPB10 interaction site [polypeptide binding]; other site 648757007272 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 648757007273 core dimer interface [polypeptide binding]; other site 648757007274 peripheral dimer interface [polypeptide binding]; other site 648757007275 L10 interface [polypeptide binding]; other site 648757007276 L11 interface [polypeptide binding]; other site 648757007277 putative EF-Tu interaction site [polypeptide binding]; other site 648757007278 putative EF-G interaction site [polypeptide binding]; other site 648757007279 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 648757007280 23S rRNA interface [nucleotide binding]; other site 648757007281 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 648757007282 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 648757007283 mRNA/rRNA interface [nucleotide binding]; other site 648757007284 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 648757007285 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 648757007286 23S rRNA interface [nucleotide binding]; other site 648757007287 L7/L12 interface [polypeptide binding]; other site 648757007288 putative thiostrepton binding site; other site 648757007289 L25 interface [polypeptide binding]; other site 648757007290 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 648757007291 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 648757007292 putative homodimer interface [polypeptide binding]; other site 648757007293 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 648757007294 heterodimer interface [polypeptide binding]; other site 648757007295 homodimer interface [polypeptide binding]; other site 648757007296 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 648757007297 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 648757007298 TrkA-N domain; Region: TrkA_N; pfam02254 648757007299 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 648757007300 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 648757007301 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 648757007302 ParB-like nuclease domain; Region: ParBc; pfam02195 648757007303 KorB domain; Region: KorB; pfam08535 648757007304 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 648757007305 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 648757007306 P-loop; other site 648757007307 Magnesium ion binding site [ion binding]; other site 648757007308 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 648757007309 Magnesium ion binding site [ion binding]; other site 648757007310 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 648757007311 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 648757007312 YARHG domain; Region: YARHG; pfam13308 648757007313 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 648757007314 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 648757007315 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 648757007316 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 648757007317 FOG: CBS domain [General function prediction only]; Region: COG0517 648757007318 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 648757007319 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 648757007320 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 648757007321 trmE is a tRNA modification GTPase; Region: trmE; cd04164 648757007322 G1 box; other site 648757007323 GTP/Mg2+ binding site [chemical binding]; other site 648757007324 Switch I region; other site 648757007325 G2 box; other site 648757007326 Switch II region; other site 648757007327 G3 box; other site 648757007328 G4 box; other site 648757007329 G5 box; other site 648757007330 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 648757007331 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 648757007332 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 648757007333 catalytic residues [active] 648757007334 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 648757007335 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757007336 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757007337 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757007338 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757007339 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757007340 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757007341 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757007342 Transposase; Region: HTH_Tnp_1; pfam01527 648757007343 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757007344 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 648757007345 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 648757007346 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 648757007347 putative NADH binding site [chemical binding]; other site 648757007348 putative active site [active] 648757007349 nudix motif; other site 648757007350 putative metal binding site [ion binding]; other site 648757007351 pantothenate kinase; Provisional; Region: PRK05439 648757007352 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 648757007353 ATP-binding site [chemical binding]; other site 648757007354 CoA-binding site [chemical binding]; other site 648757007355 Mg2+-binding site [ion binding]; other site 648757007356 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 648757007357 metal binding site [ion binding]; metal-binding site 648757007358 Cupin domain; Region: Cupin_2; cl17218 648757007359 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 648757007360 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 648757007361 putative substrate translocation pore; other site 648757007362 Major Facilitator Superfamily; Region: MFS_1; pfam07690 648757007363 Preprotein translocase subunit SecB; Region: SecB; pfam02556 648757007364 SecA binding site; other site 648757007365 Preprotein binding site; other site 648757007366 Autoinducer synthetase; Region: Autoind_synth; cl17404 648757007367 Autoinducer binding domain; Region: Autoind_bind; pfam03472 648757007368 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 648757007369 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 648757007370 DNA binding residues [nucleotide binding] 648757007371 dimerization interface [polypeptide binding]; other site 648757007372 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 648757007373 DNA binding residues [nucleotide binding] 648757007374 dimerization interface [polypeptide binding]; other site 648757007375 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 648757007376 active site 648757007377 catalytic site [active] 648757007378 substrate binding site [chemical binding]; other site 648757007379 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 648757007380 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 648757007381 CoA-binding site [chemical binding]; other site 648757007382 ATP-binding [chemical binding]; other site 648757007383 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 648757007384 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 648757007385 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 648757007386 shikimate binding site; other site 648757007387 NAD(P) binding site [chemical binding]; other site 648757007388 Maf-like protein; Region: Maf; pfam02545 648757007389 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 648757007390 active site 648757007391 dimer interface [polypeptide binding]; other site 648757007392 PEP synthetase regulatory protein; Provisional; Region: PRK05339 648757007393 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 648757007394 substrate binding site [chemical binding]; other site 648757007395 active site 648757007396 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 648757007397 transcription termination factor Rho; Provisional; Region: rho; PRK09376 648757007398 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 648757007399 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 648757007400 RNA binding site [nucleotide binding]; other site 648757007401 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 648757007402 multimer interface [polypeptide binding]; other site 648757007403 Walker A motif; other site 648757007404 ATP binding site [chemical binding]; other site 648757007405 Walker B motif; other site 648757007406 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 648757007407 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 648757007408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 648757007409 Putative glucoamylase; Region: Glycoamylase; pfam10091 648757007410 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 648757007411 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 648757007412 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 648757007413 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 648757007414 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 648757007415 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 648757007416 Phosphoketolase [Carbohydrate transport and metabolism]; Region: COG3957 648757007417 XFP N-terminal domain; Region: XFP_N; pfam09364 648757007418 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 648757007419 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 648757007420 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 648757007421 Found in ATP-dependent protease La (LON); Region: LON; smart00464 648757007422 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 648757007423 Walker A motif; other site 648757007424 ATP binding site [chemical binding]; other site 648757007425 Walker B motif; other site 648757007426 arginine finger; other site 648757007427 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 648757007428 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 648757007429 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 648757007430 putative dimer interface [polypeptide binding]; other site 648757007431 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 648757007432 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 648757007433 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 648757007434 substrate binding pocket [chemical binding]; other site 648757007435 membrane-bound complex binding site; other site 648757007436 hinge residues; other site 648757007437 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 648757007438 dimer interface [polypeptide binding]; other site 648757007439 conserved gate region; other site 648757007440 putative PBP binding loops; other site 648757007441 ABC-ATPase subunit interface; other site 648757007442 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 648757007443 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 648757007444 dimer interface [polypeptide binding]; other site 648757007445 conserved gate region; other site 648757007446 putative PBP binding loops; other site 648757007447 ABC-ATPase subunit interface; other site 648757007448 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 648757007449 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 648757007450 Walker A/P-loop; other site 648757007451 ATP binding site [chemical binding]; other site 648757007452 Q-loop/lid; other site 648757007453 ABC transporter signature motif; other site 648757007454 Walker B; other site 648757007455 D-loop; other site 648757007456 H-loop/switch region; other site 648757007457 prephenate dehydratase; Provisional; Region: PRK11899 648757007458 Prephenate dehydratase; Region: PDT; pfam00800 648757007459 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 648757007460 putative L-Phe binding site [chemical binding]; other site 648757007461 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 648757007462 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 648757007463 DNA binding residues [nucleotide binding] 648757007464 LabA_like proteins; Region: LabA_like; cd06167 648757007465 putative metal binding site [ion binding]; other site 648757007466 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 648757007467 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 648757007468 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 648757007469 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757007470 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 648757007471 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 648757007472 Protein of unknown function (DUF992); Region: DUF992; pfam06186 648757007473 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 648757007474 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 648757007475 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 648757007476 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 648757007477 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 648757007478 Ligand binding site; other site 648757007479 Putative Catalytic site; other site 648757007480 DXD motif; other site 648757007481 Predicted membrane protein [Function unknown]; Region: COG2246 648757007482 GtrA-like protein; Region: GtrA; pfam04138 648757007483 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 648757007484 Clp amino terminal domain; Region: Clp_N; pfam02861 648757007485 Clp amino terminal domain; Region: Clp_N; pfam02861 648757007486 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 648757007487 Walker A motif; other site 648757007488 ATP binding site [chemical binding]; other site 648757007489 Walker B motif; other site 648757007490 arginine finger; other site 648757007491 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 648757007492 Walker A motif; other site 648757007493 ATP binding site [chemical binding]; other site 648757007494 Walker B motif; other site 648757007495 arginine finger; other site 648757007496 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 648757007497 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 648757007498 MOSC domain; Region: MOSC; pfam03473 648757007499 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 648757007500 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 648757007501 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 648757007502 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 648757007503 S-adenosylmethionine binding site [chemical binding]; other site 648757007504 peptide chain release factor 1; Validated; Region: prfA; PRK00591 648757007505 This domain is found in peptide chain release factors; Region: PCRF; smart00937 648757007506 RF-1 domain; Region: RF-1; pfam00472 648757007507 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 648757007508 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 648757007509 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 648757007510 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 648757007511 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 648757007512 aspartate kinase; Reviewed; Region: PRK06635 648757007513 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 648757007514 putative catalytic residues [active] 648757007515 putative nucleotide binding site [chemical binding]; other site 648757007516 putative aspartate binding site [chemical binding]; other site 648757007517 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 648757007518 putative allosteric regulatory site; other site 648757007519 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 648757007520 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 648757007521 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 648757007522 S-adenosylmethionine binding site [chemical binding]; other site 648757007523 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 648757007524 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 648757007525 Coenzyme A binding pocket [chemical binding]; other site 648757007526 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 648757007527 putative deacylase active site [active] 648757007528 nitrilase; Region: PLN02798 648757007529 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 648757007530 putative active site [active] 648757007531 catalytic triad [active] 648757007532 dimer interface [polypeptide binding]; other site 648757007533 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 648757007534 GSH binding site [chemical binding]; other site 648757007535 catalytic residues [active] 648757007536 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 648757007537 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 648757007538 active site 648757007539 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 648757007540 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 648757007541 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 648757007542 ABC transporter ATPase component; Reviewed; Region: PRK11147 648757007543 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 648757007544 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 648757007545 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 648757007546 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 648757007547 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 648757007548 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 648757007549 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 648757007550 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 648757007551 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 648757007552 heme-binding site [chemical binding]; other site 648757007553 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 648757007554 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 648757007555 active site 648757007556 HIGH motif; other site 648757007557 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 648757007558 active site 648757007559 KMSKS motif; other site 648757007560 NAD synthetase; Provisional; Region: PRK13981 648757007561 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 648757007562 multimer interface [polypeptide binding]; other site 648757007563 active site 648757007564 catalytic triad [active] 648757007565 protein interface 1 [polypeptide binding]; other site 648757007566 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 648757007567 homodimer interface [polypeptide binding]; other site 648757007568 NAD binding pocket [chemical binding]; other site 648757007569 ATP binding pocket [chemical binding]; other site 648757007570 Mg binding site [ion binding]; other site 648757007571 active-site loop [active] 648757007572 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 648757007573 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 648757007574 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757007575 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 648757007576 Fusaric acid resistance protein family; Region: FUSC; pfam04632 648757007577 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 648757007578 MarR family; Region: MarR; pfam01047 648757007579 Uncharacterized protein conserved in bacteria (DUF2330); Region: DUF2330; cl01827 648757007580 BPTI/Kunitz family of serine protease inhibitors; Structure is a disulfide rich alpha+beta fold. BPTI (bovine pancreatic trypsin inhibitor) is an extensively studied model structure; Region: KU; cd00109 648757007581 trypsin interaction site; other site 648757007582 ATP-grasp ribosomal peptide maturase, SAV_5884 family; Region: GRASP_SAV_5884; TIGR04187 648757007583 ATP-grasp domain; Region: ATP-grasp_4; cl17255 648757007584 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 648757007585 dimerization interface [polypeptide binding]; other site 648757007586 PAS domain; Region: PAS_9; pfam13426 648757007587 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 648757007588 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 648757007589 dimer interface [polypeptide binding]; other site 648757007590 putative CheW interface [polypeptide binding]; other site 648757007591 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; cl02542 648757007592 Chain length determinant protein; Region: Wzz; cl15801 648757007593 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 648757007594 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 648757007595 Chain length determinant protein; Region: Wzz; cl15801 648757007596 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757007597 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757007598 Winged helix-turn helix; Region: HTH_29; pfam13551 648757007599 Integrase core domain; Region: rve; pfam00665 648757007600 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757007601 Integrase core domain; Region: rve_3; pfam13683 648757007602 O-Antigen ligase; Region: Wzy_C; pfam04932 648757007603 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 648757007604 Bacterial sugar transferase; Region: Bac_transf; pfam02397 648757007605 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 648757007606 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 648757007607 active site 648757007608 catalytic residues [active] 648757007609 DNA binding site [nucleotide binding] 648757007610 Int/Topo IB signature motif; other site 648757007611 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 648757007612 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 648757007613 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 648757007614 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 648757007615 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 648757007616 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 648757007617 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 648757007618 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 648757007619 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 648757007620 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 648757007621 nucleotide binding site [chemical binding]; other site 648757007622 hypothetical protein; Provisional; Region: PRK14709 648757007623 D5 N terminal like; Region: D5_N; smart00885 648757007624 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 648757007625 active site 648757007626 DNA binding site [nucleotide binding] 648757007627 Int/Topo IB signature motif; other site 648757007628 CHC2 zinc finger; Region: zf-CHC2; cl17510 648757007629 Toprim domain; Region: Toprim_3; pfam13362 648757007630 Domain of unknown function (DUF927); Region: DUF927; pfam06048 648757007631 TIR domain; Region: TIR_2; pfam13676 648757007632 TIR domain; Region: TIR_2; cl17458 648757007633 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 648757007634 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 648757007635 non-specific DNA binding site [nucleotide binding]; other site 648757007636 salt bridge; other site 648757007637 sequence-specific DNA binding site [nucleotide binding]; other site 648757007638 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 648757007639 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 648757007640 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 648757007641 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 648757007642 VirB7 interaction site; other site 648757007643 VirB8 protein; Region: VirB8; cl01500 648757007644 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 648757007645 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 648757007646 conjugal transfer protein TrbE; Provisional; Region: PRK13891 648757007647 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 648757007648 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 648757007649 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757007650 Walker B; other site 648757007651 D-loop; other site 648757007652 H-loop/switch region; other site 648757007653 conjugal transfer protein TrbD; Provisional; Region: PRK13823 648757007654 TrbC/VIRB2 family; Region: TrbC; cl01583 648757007655 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 648757007656 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 648757007657 ATP binding site [chemical binding]; other site 648757007658 Walker A motif; other site 648757007659 hexamer interface [polypeptide binding]; other site 648757007660 Walker B motif; other site 648757007661 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 648757007662 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 648757007663 non-specific DNA binding site [nucleotide binding]; other site 648757007664 salt bridge; other site 648757007665 sequence-specific DNA binding site [nucleotide binding]; other site 648757007666 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 648757007667 salt bridge; other site 648757007668 non-specific DNA binding site [nucleotide binding]; other site 648757007669 sequence-specific DNA binding site [nucleotide binding]; other site 648757007670 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 648757007671 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 648757007672 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 648757007673 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 648757007674 Walker A motif; other site 648757007675 ATP binding site [chemical binding]; other site 648757007676 Walker B motif; other site 648757007677 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 648757007678 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 648757007679 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 648757007680 Protein of unknown function (DUF805); Region: DUF805; pfam05656 648757007681 PGDYG protein; Region: PGDYG; pfam14083 648757007682 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757007683 Winged helix-turn helix; Region: HTH_29; pfam13551 648757007684 Integrase core domain; Region: rve; pfam00665 648757007685 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757007686 Integrase core domain; Region: rve_3; pfam13683 648757007687 TIR domain; Region: TIR_2; pfam13676 648757007688 Uncharacterized conserved protein [Function unknown]; Region: COG1262 648757007689 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 648757007690 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 648757007691 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 648757007692 putative active site [active] 648757007693 putative NTP binding site [chemical binding]; other site 648757007694 putative nucleic acid binding site [nucleotide binding]; other site 648757007695 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 648757007696 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 648757007697 non-specific DNA binding site [nucleotide binding]; other site 648757007698 salt bridge; other site 648757007699 sequence-specific DNA binding site [nucleotide binding]; other site 648757007700 Plasmid maintenance system killer protein [General function prediction only]; Region: HigB; COG3549 648757007701 TIR domain; Region: TIR_2; pfam13676 648757007702 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757007703 AAA domain; Region: AAA_22; pfam13401 648757007704 Walker A/P-loop; other site 648757007705 ATP binding site [chemical binding]; other site 648757007706 Uncharacterized conserved protein [Function unknown]; Region: COG1262 648757007707 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 648757007708 Tetratricopeptide repeat; Region: TPR_12; pfam13424 648757007709 Tetratricopeptide repeat; Region: TPR_12; pfam13424 648757007710 Tetratricopeptide repeat; Region: TPR_12; pfam13424 648757007711 CHAT domain; Region: CHAT; pfam12770 648757007712 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 648757007713 NACHT domain; Region: NACHT; pfam05729 648757007714 Walker A motif; other site 648757007715 ATP binding site [chemical binding]; other site 648757007716 Walker B motif; other site 648757007717 Tetratricopeptide repeat; Region: TPR_12; pfam13424 648757007718 Protein of unknown function DUF45; Region: DUF45; pfam01863 648757007719 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 648757007720 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 648757007721 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 648757007722 ATP binding site [chemical binding]; other site 648757007723 putative Mg++ binding site [ion binding]; other site 648757007724 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 648757007725 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 648757007726 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 648757007727 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 648757007728 Fic family protein [Function unknown]; Region: COG3177 648757007729 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 648757007730 Fic/DOC family; Region: Fic; pfam02661 648757007731 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 648757007732 HsdM N-terminal domain; Region: HsdM_N; pfam12161 648757007733 Methyltransferase domain; Region: Methyltransf_26; pfam13659 648757007734 Methyltransferase domain; Region: Methyltransf_26; pfam13659 648757007735 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 648757007736 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 648757007737 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 648757007738 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 648757007739 ATP binding site [chemical binding]; other site 648757007740 putative Mg++ binding site [ion binding]; other site 648757007741 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 648757007742 helicase superfamily c-terminal domain; Region: HELICc; smart00490 648757007743 Transposon-encoded protein TnpV; Region: TnpV; pfam14198 648757007744 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 648757007745 conjugal transfer protein TraL; Provisional; Region: PRK13886 648757007746 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 648757007747 active site 648757007748 catalytic residues [active] 648757007749 DNA binding site [nucleotide binding] 648757007750 Int/Topo IB signature motif; other site 648757007751 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 648757007752 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 648757007753 trimer interface [polypeptide binding]; other site 648757007754 putative metal binding site [ion binding]; other site 648757007755 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 648757007756 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 648757007757 putative substrate translocation pore; other site 648757007758 Major Facilitator Superfamily; Region: MFS_1; pfam07690 648757007759 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 648757007760 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 648757007761 ring oligomerisation interface [polypeptide binding]; other site 648757007762 ATP/Mg binding site [chemical binding]; other site 648757007763 stacking interactions; other site 648757007764 hinge regions; other site 648757007765 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 648757007766 oligomerisation interface [polypeptide binding]; other site 648757007767 mobile loop; other site 648757007768 roof hairpin; other site 648757007769 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 648757007770 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 648757007771 putative active site [active] 648757007772 catalytic triad [active] 648757007773 putative dimer interface [polypeptide binding]; other site 648757007774 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 648757007775 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 648757007776 non-specific DNA binding site [nucleotide binding]; other site 648757007777 salt bridge; other site 648757007778 sequence-specific DNA binding site [nucleotide binding]; other site 648757007779 S-adenosylmethionine synthetase; Validated; Region: PRK05250 648757007780 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 648757007781 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 648757007782 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 648757007783 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 648757007784 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 648757007785 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 648757007786 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 648757007787 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 648757007788 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 648757007789 TSCPD domain; Region: TSCPD; pfam12637 648757007790 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 648757007791 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 648757007792 catalytic residue [active] 648757007793 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 648757007794 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 648757007795 HIGH motif; other site 648757007796 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 648757007797 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 648757007798 active site 648757007799 KMSKS motif; other site 648757007800 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 648757007801 tRNA binding surface [nucleotide binding]; other site 648757007802 Lipopolysaccharide-assembly; Region: LptE; cl01125 648757007803 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 648757007804 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 648757007805 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 648757007806 inhibitor-cofactor binding pocket; inhibition site 648757007807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757007808 catalytic residue [active] 648757007809 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 648757007810 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 648757007811 active site 648757007812 interdomain interaction site; other site 648757007813 putative metal-binding site [ion binding]; other site 648757007814 nucleotide binding site [chemical binding]; other site 648757007815 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 648757007816 domain I; other site 648757007817 DNA binding groove [nucleotide binding] 648757007818 phosphate binding site [ion binding]; other site 648757007819 domain II; other site 648757007820 domain III; other site 648757007821 nucleotide binding site [chemical binding]; other site 648757007822 catalytic site [active] 648757007823 domain IV; other site 648757007824 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 648757007825 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 648757007826 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 648757007827 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 648757007828 Replication protein A C terminal; Region: RPA_C; pfam08784 648757007829 ribonuclease R; Region: RNase_R; TIGR02063 648757007830 RNB domain; Region: RNB; pfam00773 648757007831 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 648757007832 RNA binding site [nucleotide binding]; other site 648757007833 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 648757007834 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 648757007835 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 648757007836 active site 648757007837 phosphorylation site [posttranslational modification] 648757007838 intermolecular recognition site; other site 648757007839 dimerization interface [polypeptide binding]; other site 648757007840 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 648757007841 Rrf2 family protein; Region: rrf2_super; TIGR00738 648757007842 Transcriptional regulator; Region: Rrf2; cl17282 648757007843 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 648757007844 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 648757007845 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757007846 catalytic residue [active] 648757007847 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 648757007848 putative ABC transporter; Region: ycf24; CHL00085 648757007849 Domain of unknown function (DUF4267); Region: DUF4267; pfam14087 648757007850 FeS assembly ATPase SufC; Region: sufC; TIGR01978 648757007851 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 648757007852 Walker A/P-loop; other site 648757007853 ATP binding site [chemical binding]; other site 648757007854 Q-loop/lid; other site 648757007855 ABC transporter signature motif; other site 648757007856 Walker B; other site 648757007857 D-loop; other site 648757007858 H-loop/switch region; other site 648757007859 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 648757007860 FeS assembly protein SufD; Region: sufD; TIGR01981 648757007861 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 648757007862 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 648757007863 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757007864 catalytic residue [active] 648757007865 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 648757007866 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 648757007867 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 648757007868 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 648757007869 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 648757007870 FtsX-like permease family; Region: FtsX; pfam02687 648757007871 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 648757007872 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 648757007873 Walker A/P-loop; other site 648757007874 ATP binding site [chemical binding]; other site 648757007875 Q-loop/lid; other site 648757007876 ABC transporter signature motif; other site 648757007877 Walker B; other site 648757007878 D-loop; other site 648757007879 H-loop/switch region; other site 648757007880 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 648757007881 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 648757007882 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757007883 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 648757007884 LemA family; Region: LemA; cl00742 648757007885 Repair protein; Region: Repair_PSII; pfam04536 648757007886 Repair protein; Region: Repair_PSII; cl01535 648757007887 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 648757007888 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 648757007889 FAD binding pocket [chemical binding]; other site 648757007890 FAD binding motif [chemical binding]; other site 648757007891 phosphate binding motif [ion binding]; other site 648757007892 beta-alpha-beta structure motif; other site 648757007893 NAD binding pocket [chemical binding]; other site 648757007894 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 648757007895 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 648757007896 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 648757007897 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 648757007898 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 648757007899 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 648757007900 dimer interface [polypeptide binding]; other site 648757007901 conserved gate region; other site 648757007902 putative PBP binding loops; other site 648757007903 ABC-ATPase subunit interface; other site 648757007904 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 648757007905 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 648757007906 dimer interface [polypeptide binding]; other site 648757007907 conserved gate region; other site 648757007908 ABC-ATPase subunit interface; other site 648757007909 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 648757007910 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 648757007911 Walker A/P-loop; other site 648757007912 ATP binding site [chemical binding]; other site 648757007913 Q-loop/lid; other site 648757007914 ABC transporter signature motif; other site 648757007915 Walker B; other site 648757007916 D-loop; other site 648757007917 H-loop/switch region; other site 648757007918 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 648757007919 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 648757007920 Walker A/P-loop; other site 648757007921 ATP binding site [chemical binding]; other site 648757007922 Q-loop/lid; other site 648757007923 ABC transporter signature motif; other site 648757007924 Walker B; other site 648757007925 D-loop; other site 648757007926 H-loop/switch region; other site 648757007927 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 648757007928 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 648757007929 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 648757007930 substrate binding site [chemical binding]; other site 648757007931 oxyanion hole (OAH) forming residues; other site 648757007932 trimer interface [polypeptide binding]; other site 648757007933 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 648757007934 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 648757007935 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 648757007936 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 648757007937 classical (c) SDRs; Region: SDR_c; cd05233 648757007938 NAD(P) binding site [chemical binding]; other site 648757007939 active site 648757007940 Phosphotransferase enzyme family; Region: APH; pfam01636 648757007941 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 648757007942 putative active site [active] 648757007943 putative substrate binding site [chemical binding]; other site 648757007944 ATP binding site [chemical binding]; other site 648757007945 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 648757007946 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 648757007947 FAD binding site [chemical binding]; other site 648757007948 substrate binding site [chemical binding]; other site 648757007949 catalytic base [active] 648757007950 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; cd02883 648757007951 nudix motif; other site 648757007952 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 648757007953 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 648757007954 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 648757007955 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 648757007956 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 648757007957 putative substrate translocation pore; other site 648757007958 signal recognition particle protein; Provisional; Region: PRK10867 648757007959 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 648757007960 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 648757007961 P loop; other site 648757007962 GTP binding site [chemical binding]; other site 648757007963 Signal peptide binding domain; Region: SRP_SPB; pfam02978 648757007964 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 648757007965 RimM N-terminal domain; Region: RimM; pfam01782 648757007966 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 648757007967 PRC-barrel domain; Region: PRC; pfam05239 648757007968 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 648757007969 active site 648757007970 metal binding site [ion binding]; metal-binding site 648757007971 homotetramer interface [polypeptide binding]; other site 648757007972 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 648757007973 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 648757007974 propionate/acetate kinase; Provisional; Region: PRK12379 648757007975 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 648757007976 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 648757007977 ligand binding site [chemical binding]; other site 648757007978 flexible hinge region; other site 648757007979 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 648757007980 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 648757007981 ligand binding site [chemical binding]; other site 648757007982 flexible hinge region; other site 648757007983 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 648757007984 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 648757007985 active site 648757007986 phosphorylation site [posttranslational modification] 648757007987 intermolecular recognition site; other site 648757007988 dimerization interface [polypeptide binding]; other site 648757007989 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 648757007990 DNA binding site [nucleotide binding] 648757007991 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 648757007992 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 648757007993 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 648757007994 metal-binding site [ion binding] 648757007995 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 648757007996 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 648757007997 FixH; Region: FixH; pfam05751 648757007998 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 648757007999 4Fe-4S binding domain; Region: Fer4_5; pfam12801 648757008000 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 648757008001 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 648757008002 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 648757008003 Cytochrome c; Region: Cytochrom_C; pfam00034 648757008004 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 648757008005 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 648757008006 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 648757008007 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 648757008008 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 648757008009 Low-spin heme binding site [chemical binding]; other site 648757008010 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 648757008011 Putative water exit pathway; other site 648757008012 Binuclear center (active site) [active] 648757008013 Putative proton exit pathway; other site 648757008014 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 648757008015 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 648757008016 ligand binding site [chemical binding]; other site 648757008017 homodimer interface [polypeptide binding]; other site 648757008018 NAD(P) binding site [chemical binding]; other site 648757008019 trimer interface B [polypeptide binding]; other site 648757008020 trimer interface A [polypeptide binding]; other site 648757008021 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 648757008022 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 648757008023 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 648757008024 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 648757008025 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 648757008026 HSP70 interaction site [polypeptide binding]; other site 648757008027 Uncharacterized conserved protein [Function unknown]; Region: COG1262 648757008028 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 648757008029 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 648757008030 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 648757008031 ligand binding site [chemical binding]; other site 648757008032 flexible hinge region; other site 648757008033 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 648757008034 putative switch regulator; other site 648757008035 non-specific DNA interactions [nucleotide binding]; other site 648757008036 DNA binding site [nucleotide binding] 648757008037 sequence specific DNA binding site [nucleotide binding]; other site 648757008038 putative cAMP binding site [chemical binding]; other site 648757008039 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 648757008040 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 648757008041 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 648757008042 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757008043 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 648757008044 SCP-2 sterol transfer family; Region: SCP2; cl01225 648757008045 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 648757008046 Peptidase family U32; Region: Peptidase_U32; pfam01136 648757008047 putative protease; Provisional; Region: PRK15447 648757008048 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 648757008049 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 648757008050 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 648757008051 active site residue [active] 648757008052 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 648757008053 active site residue [active] 648757008054 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 648757008055 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 648757008056 dimer interface [polypeptide binding]; other site 648757008057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757008058 catalytic residue [active] 648757008059 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 648757008060 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 648757008061 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 648757008062 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 648757008063 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 648757008064 Surface antigen; Region: Bac_surface_Ag; pfam01103 648757008065 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 648757008066 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 648757008067 DNA binding residues [nucleotide binding] 648757008068 dimerization interface [polypeptide binding]; other site 648757008069 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 648757008070 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 648757008071 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 648757008072 HlyD family secretion protein; Region: HlyD_3; pfam13437 648757008073 Predicted 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG1023 648757008074 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 648757008075 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 648757008076 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 648757008077 NAD binding site [chemical binding]; other site 648757008078 homodimer interface [polypeptide binding]; other site 648757008079 active site 648757008080 substrate binding site [chemical binding]; other site 648757008081 Uncharacterized conserved protein (DUF2293); Region: DUF2293; pfam10056 648757008082 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 648757008083 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 648757008084 active site 648757008085 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 648757008086 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 648757008087 Predicted membrane protein [Function unknown]; Region: COG3212 648757008088 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 648757008089 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; cd01494 648757008090 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757008091 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 648757008092 catalytic residue [active] 648757008093 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 648757008094 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 648757008095 ligand binding site [chemical binding]; other site 648757008096 NAD binding site [chemical binding]; other site 648757008097 dimerization interface [polypeptide binding]; other site 648757008098 catalytic site [active] 648757008099 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 648757008100 putative L-serine binding site [chemical binding]; other site 648757008101 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 648757008102 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_2; cd06335 648757008103 putative ligand binding site [chemical binding]; other site 648757008104 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 648757008105 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 648757008106 TM-ABC transporter signature motif; other site 648757008107 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 648757008108 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 648757008109 TM-ABC transporter signature motif; other site 648757008110 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 648757008111 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 648757008112 Walker A/P-loop; other site 648757008113 ATP binding site [chemical binding]; other site 648757008114 Q-loop/lid; other site 648757008115 ABC transporter signature motif; other site 648757008116 Walker B; other site 648757008117 D-loop; other site 648757008118 H-loop/switch region; other site 648757008119 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 648757008120 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 648757008121 Walker A/P-loop; other site 648757008122 ATP binding site [chemical binding]; other site 648757008123 Q-loop/lid; other site 648757008124 ABC transporter signature motif; other site 648757008125 Walker B; other site 648757008126 D-loop; other site 648757008127 H-loop/switch region; other site 648757008128 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 648757008129 non-specific DNA binding site [nucleotide binding]; other site 648757008130 salt bridge; other site 648757008131 sequence-specific DNA binding site [nucleotide binding]; other site 648757008132 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 648757008133 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 648757008134 putative NAD(P) binding site [chemical binding]; other site 648757008135 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 648757008136 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 648757008137 active site 648757008138 Putative ParB-like nuclease; Region: ParBc_2; cl17538 648757008139 aromatic amino acid exporter; Provisional; Region: PRK11689 648757008140 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 648757008141 catalytic core [active] 648757008142 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 648757008143 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 648757008144 Ligand binding site; other site 648757008145 oligomer interface; other site 648757008146 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 648757008147 classical (c) SDRs; Region: SDR_c; cd05233 648757008148 NAD(P) binding site [chemical binding]; other site 648757008149 active site 648757008150 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 648757008151 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 648757008152 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 648757008153 active site 648757008154 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 648757008155 S17 interaction site [polypeptide binding]; other site 648757008156 S8 interaction site; other site 648757008157 16S rRNA interaction site [nucleotide binding]; other site 648757008158 streptomycin interaction site [chemical binding]; other site 648757008159 23S rRNA interaction site [nucleotide binding]; other site 648757008160 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 648757008161 30S ribosomal protein S7; Validated; Region: PRK05302 648757008162 elongation factor G; Reviewed; Region: PRK00007 648757008163 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 648757008164 G1 box; other site 648757008165 putative GEF interaction site [polypeptide binding]; other site 648757008166 GTP/Mg2+ binding site [chemical binding]; other site 648757008167 Switch I region; other site 648757008168 G2 box; other site 648757008169 G3 box; other site 648757008170 Switch II region; other site 648757008171 G4 box; other site 648757008172 G5 box; other site 648757008173 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 648757008174 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 648757008175 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 648757008176 elongation factor Tu; Reviewed; Region: PRK00049 648757008177 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 648757008178 G1 box; other site 648757008179 GEF interaction site [polypeptide binding]; other site 648757008180 GTP/Mg2+ binding site [chemical binding]; other site 648757008181 Switch I region; other site 648757008182 G2 box; other site 648757008183 G3 box; other site 648757008184 Switch II region; other site 648757008185 G4 box; other site 648757008186 G5 box; other site 648757008187 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 648757008188 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 648757008189 Antibiotic Binding Site [chemical binding]; other site 648757008190 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 648757008191 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 648757008192 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 648757008193 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 648757008194 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 648757008195 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 648757008196 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 648757008197 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 648757008198 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 648757008199 putative translocon binding site; other site 648757008200 protein-rRNA interface [nucleotide binding]; other site 648757008201 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 648757008202 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 648757008203 G-X-X-G motif; other site 648757008204 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 648757008205 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 648757008206 23S rRNA interface [nucleotide binding]; other site 648757008207 5S rRNA interface [nucleotide binding]; other site 648757008208 putative antibiotic binding site [chemical binding]; other site 648757008209 L25 interface [polypeptide binding]; other site 648757008210 L27 interface [polypeptide binding]; other site 648757008211 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 648757008212 putative translocon interaction site; other site 648757008213 23S rRNA interface [nucleotide binding]; other site 648757008214 signal recognition particle (SRP54) interaction site; other site 648757008215 L23 interface [polypeptide binding]; other site 648757008216 trigger factor interaction site; other site 648757008217 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 648757008218 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 648757008219 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 648757008220 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 648757008221 RNA binding site [nucleotide binding]; other site 648757008222 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 648757008223 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 648757008224 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 648757008225 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 648757008226 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 648757008227 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 648757008228 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 648757008229 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 648757008230 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 648757008231 5S rRNA interface [nucleotide binding]; other site 648757008232 23S rRNA interface [nucleotide binding]; other site 648757008233 L5 interface [polypeptide binding]; other site 648757008234 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 648757008235 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 648757008236 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 648757008237 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 648757008238 23S rRNA binding site [nucleotide binding]; other site 648757008239 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 648757008240 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 648757008241 SecY translocase; Region: SecY; pfam00344 648757008242 adenylate kinase; Reviewed; Region: adk; PRK00279 648757008243 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 648757008244 AMP-binding site [chemical binding]; other site 648757008245 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 648757008246 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 648757008247 30S ribosomal protein S13; Region: bact_S13; TIGR03631 648757008248 30S ribosomal protein S11; Validated; Region: PRK05309 648757008249 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 648757008250 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 648757008251 alphaNTD - beta interaction site [polypeptide binding]; other site 648757008252 alphaNTD homodimer interface [polypeptide binding]; other site 648757008253 alphaNTD - beta' interaction site [polypeptide binding]; other site 648757008254 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 648757008255 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 648757008256 fumarate reductase flavoprotein subunit; Validated; Region: PRK09231 648757008257 L-aspartate oxidase; Provisional; Region: PRK06175 648757008258 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 648757008259 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12385 648757008260 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 648757008261 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 648757008262 Iron-sulfur protein interface; other site 648757008263 proximal heme binding site [chemical binding]; other site 648757008264 Quinol:fumarate reductase (QFR) Type D subfamily, 13kD hydrophobic subunit D; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinine...; Region: QFR_TypeD_subunitD; cd00547 648757008265 Iron-sulfur protein interface; other site 648757008266 proximal quinone binding site [chemical binding]; other site 648757008267 C-subunit interface; other site 648757008268 distal quinone binding site; other site 648757008269 Domain of unknown function DUF59; Region: DUF59; pfam01883 648757008270 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 648757008271 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 648757008272 Walker A motif; other site 648757008273 Stringent starvation protein B; Region: SspB; cl01120 648757008274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 648757008275 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 648757008276 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 648757008277 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 648757008278 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 648757008279 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 648757008280 FeS/SAM binding site; other site 648757008281 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 648757008282 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 648757008283 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 648757008284 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 648757008285 Active site cavity [active] 648757008286 catalytic acid [active] 648757008287 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 648757008288 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 648757008289 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 648757008290 active site lid residues [active] 648757008291 substrate binding pocket [chemical binding]; other site 648757008292 catalytic residues [active] 648757008293 substrate-Mg2+ binding site; other site 648757008294 aspartate-rich region 1; other site 648757008295 aspartate-rich region 2; other site 648757008296 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 648757008297 active site lid residues [active] 648757008298 substrate binding pocket [chemical binding]; other site 648757008299 catalytic residues [active] 648757008300 substrate-Mg2+ binding site; other site 648757008301 aspartate-rich region 1; other site 648757008302 aspartate-rich region 2; other site 648757008303 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 648757008304 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 648757008305 active site 648757008306 GTP-binding protein LepA; Provisional; Region: PRK05433 648757008307 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 648757008308 G1 box; other site 648757008309 putative GEF interaction site [polypeptide binding]; other site 648757008310 GTP/Mg2+ binding site [chemical binding]; other site 648757008311 Switch I region; other site 648757008312 G2 box; other site 648757008313 G3 box; other site 648757008314 Switch II region; other site 648757008315 G4 box; other site 648757008316 G5 box; other site 648757008317 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 648757008318 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 648757008319 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 648757008320 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 648757008321 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 648757008322 motif 1; other site 648757008323 active site 648757008324 motif 2; other site 648757008325 motif 3; other site 648757008326 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 648757008327 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 648757008328 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 648757008329 hexamer interface [polypeptide binding]; other site 648757008330 Walker A motif; other site 648757008331 ATP binding site [chemical binding]; other site 648757008332 Walker B motif; other site 648757008333 PAS domain; Region: PAS; smart00091 648757008334 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 648757008335 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 648757008336 dimer interface [polypeptide binding]; other site 648757008337 phosphorylation site [posttranslational modification] 648757008338 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 648757008339 ATP binding site [chemical binding]; other site 648757008340 Mg2+ binding site [ion binding]; other site 648757008341 G-X-G motif; other site 648757008342 Response regulator receiver domain; Region: Response_reg; pfam00072 648757008343 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 648757008344 active site 648757008345 phosphorylation site [posttranslational modification] 648757008346 intermolecular recognition site; other site 648757008347 dimerization interface [polypeptide binding]; other site 648757008348 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 648757008349 AAA domain; Region: AAA_23; pfam13476 648757008350 Walker A/P-loop; other site 648757008351 ATP binding site [chemical binding]; other site 648757008352 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 648757008353 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 648757008354 ABC transporter signature motif; other site 648757008355 Walker B; other site 648757008356 D-loop; other site 648757008357 H-loop/switch region; other site 648757008358 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 648757008359 Thioredoxin; Region: Thioredoxin_4; pfam13462 648757008360 Thioredoxin; Region: Thioredoxin_4; pfam13462 648757008361 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 648757008362 Protein of unknown function (DUF721); Region: DUF721; cl02324 648757008363 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 648757008364 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 648757008365 minor groove reading motif; other site 648757008366 helix-hairpin-helix signature motif; other site 648757008367 substrate binding pocket [chemical binding]; other site 648757008368 active site 648757008369 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 648757008370 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 648757008371 DNA binding and oxoG recognition site [nucleotide binding] 648757008372 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 648757008373 putative catalytic residue [active] 648757008374 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 648757008375 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 648757008376 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 648757008377 DsbD alpha interface [polypeptide binding]; other site 648757008378 catalytic residues [active] 648757008379 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 648757008380 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 648757008381 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 648757008382 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 648757008383 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 648757008384 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 648757008385 Ligand binding site; other site 648757008386 DXD motif; other site 648757008387 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 648757008388 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 648757008389 ligand binding site [chemical binding]; other site 648757008390 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 648757008391 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 648757008392 Isochorismatase family; Region: Isochorismatase; pfam00857 648757008393 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 648757008394 catalytic triad [active] 648757008395 conserved cis-peptide bond; other site 648757008396 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 648757008397 putative active site [active] 648757008398 putative metal binding residues [ion binding]; other site 648757008399 signature motif; other site 648757008400 putative dimer interface [polypeptide binding]; other site 648757008401 putative phosphate binding site [ion binding]; other site 648757008402 SpoVR family protein; Provisional; Region: PRK11767 648757008403 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 648757008404 hypothetical protein; Provisional; Region: PRK05325 648757008405 PrkA family serine protein kinase; Provisional; Region: PRK15455 648757008406 AAA ATPase domain; Region: AAA_16; pfam13191 648757008407 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 648757008408 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 648757008409 DNA-binding site [nucleotide binding]; DNA binding site 648757008410 RNA-binding motif; other site 648757008411 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 648757008412 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 648757008413 aromatic arch; other site 648757008414 DCoH dimer interaction site [polypeptide binding]; other site 648757008415 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 648757008416 DCoH tetramer interaction site [polypeptide binding]; other site 648757008417 substrate binding site [chemical binding]; other site 648757008418 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 648757008419 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 648757008420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757008421 homodimer interface [polypeptide binding]; other site 648757008422 catalytic residue [active] 648757008423 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 648757008424 prephenate dehydrogenase; Validated; Region: PRK08507 648757008425 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 648757008426 putative active site pocket [active] 648757008427 dimerization interface [polypeptide binding]; other site 648757008428 putative catalytic residue [active] 648757008429 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 648757008430 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 648757008431 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 648757008432 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 648757008433 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757008434 putative ADP-binding pocket [chemical binding]; other site 648757008435 ferric uptake regulator; Provisional; Region: fur; PRK09462 648757008436 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 648757008437 metal binding site 2 [ion binding]; metal-binding site 648757008438 putative DNA binding helix; other site 648757008439 metal binding site 1 [ion binding]; metal-binding site 648757008440 dimer interface [polypeptide binding]; other site 648757008441 structural Zn2+ binding site [ion binding]; other site 648757008442 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 648757008443 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757008444 Walker A/P-loop; other site 648757008445 ATP binding site [chemical binding]; other site 648757008446 Q-loop/lid; other site 648757008447 ABC transporter signature motif; other site 648757008448 Walker B; other site 648757008449 D-loop; other site 648757008450 H-loop/switch region; other site 648757008451 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 648757008452 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 648757008453 dimer interface [polypeptide binding]; other site 648757008454 putative PBP binding regions; other site 648757008455 ABC-ATPase subunit interface; other site 648757008456 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 648757008457 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 648757008458 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 648757008459 Homeodomain-like domain; Region: HTH_23; pfam13384 648757008460 Winged helix-turn helix; Region: HTH_29; pfam13551 648757008461 Homeodomain-like domain; Region: HTH_32; pfam13565 648757008462 DDE superfamily endonuclease; Region: DDE_3; pfam13358 648757008463 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757008464 Winged helix-turn helix; Region: HTH_29; pfam13551 648757008465 Integrase core domain; Region: rve; pfam00665 648757008466 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757008467 Integrase core domain; Region: rve_3; pfam13683 648757008468 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 648757008469 RNA binding site [nucleotide binding]; other site 648757008470 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 648757008471 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 648757008472 AMIN domain; Region: AMIN; pfam11741 648757008473 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 648757008474 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 648757008475 active site 648757008476 metal binding site [ion binding]; metal-binding site 648757008477 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 648757008478 Transglycosylase; Region: Transgly; pfam00912 648757008479 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 648757008480 peptide chain release factor 2; Validated; Region: prfB; PRK00578 648757008481 This domain is found in peptide chain release factors; Region: PCRF; smart00937 648757008482 RF-1 domain; Region: RF-1; pfam00472 648757008483 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 648757008484 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 648757008485 motif II; other site 648757008486 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 648757008487 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 648757008488 active site 648757008489 dimer interface [polypeptide binding]; other site 648757008490 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 648757008491 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 648757008492 active site 648757008493 enoyl-CoA hydratase; Provisional; Region: PRK05995 648757008494 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 648757008495 substrate binding site [chemical binding]; other site 648757008496 oxyanion hole (OAH) forming residues; other site 648757008497 trimer interface [polypeptide binding]; other site 648757008498 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 648757008499 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 648757008500 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 648757008501 active site 648757008502 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 648757008503 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 648757008504 S-adenosylmethionine binding site [chemical binding]; other site 648757008505 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 648757008506 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 648757008507 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 648757008508 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 648757008509 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 648757008510 HIT family signature motif; other site 648757008511 catalytic residue [active] 648757008512 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 648757008513 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 648757008514 Coenzyme A binding pocket [chemical binding]; other site 648757008515 primosome assembly protein PriA; Validated; Region: PRK05580 648757008516 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 648757008517 ATP binding site [chemical binding]; other site 648757008518 putative Mg++ binding site [ion binding]; other site 648757008519 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 648757008520 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 648757008521 DNA-binding site [nucleotide binding]; DNA binding site 648757008522 RNA-binding motif; other site 648757008523 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 648757008524 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 648757008525 putative DNA binding site [nucleotide binding]; other site 648757008526 putative Zn2+ binding site [ion binding]; other site 648757008527 AsnC family; Region: AsnC_trans_reg; pfam01037 648757008528 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 648757008529 Amidinotransferase; Region: Amidinotransf; cl12043 648757008530 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 648757008531 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 648757008532 inhibitor-cofactor binding pocket; inhibition site 648757008533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757008534 catalytic residue [active] 648757008535 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 648757008536 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 648757008537 substrate binding site; other site 648757008538 tetramer interface; other site 648757008539 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 648757008540 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 648757008541 NADP binding site [chemical binding]; other site 648757008542 active site 648757008543 putative substrate binding site [chemical binding]; other site 648757008544 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 648757008545 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 648757008546 NAD binding site [chemical binding]; other site 648757008547 substrate binding site [chemical binding]; other site 648757008548 homodimer interface [polypeptide binding]; other site 648757008549 active site 648757008550 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 648757008551 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 648757008552 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 648757008553 Phosphotransferase enzyme family; Region: APH; pfam01636 648757008554 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 648757008555 putative active site [active] 648757008556 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 648757008557 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 648757008558 inhibitor-cofactor binding pocket; inhibition site 648757008559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757008560 catalytic residue [active] 648757008561 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 648757008562 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 648757008563 S-adenosylmethionine binding site [chemical binding]; other site 648757008564 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 648757008565 nucleoside/Zn binding site; other site 648757008566 dimer interface [polypeptide binding]; other site 648757008567 catalytic motif [active] 648757008568 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 648757008569 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 648757008570 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 648757008571 protein binding site [polypeptide binding]; other site 648757008572 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 648757008573 protein binding site [polypeptide binding]; other site 648757008574 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 648757008575 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 648757008576 active site 648757008577 phosphorylation site [posttranslational modification] 648757008578 intermolecular recognition site; other site 648757008579 dimerization interface [polypeptide binding]; other site 648757008580 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 648757008581 DNA binding site [nucleotide binding] 648757008582 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 648757008583 dimerization interface [polypeptide binding]; other site 648757008584 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 648757008585 dimer interface [polypeptide binding]; other site 648757008586 phosphorylation site [posttranslational modification] 648757008587 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 648757008588 ATP binding site [chemical binding]; other site 648757008589 Mg2+ binding site [ion binding]; other site 648757008590 G-X-G motif; other site 648757008591 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 648757008592 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 648757008593 metal binding triad; other site 648757008594 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 648757008595 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 648757008596 metal binding triad; other site 648757008597 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 648757008598 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 648757008599 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 648757008600 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 648757008601 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 648757008602 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 648757008603 putative active site [active] 648757008604 phosphogluconate dehydratase; Validated; Region: PRK09054 648757008605 6-phosphogluconate dehydratase; Region: edd; TIGR01196 648757008606 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 648757008607 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 648757008608 active site 648757008609 intersubunit interface [polypeptide binding]; other site 648757008610 catalytic residue [active] 648757008611 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 648757008612 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 648757008613 active site 648757008614 dimer interface [polypeptide binding]; other site 648757008615 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 648757008616 Ligand Binding Site [chemical binding]; other site 648757008617 Molecular Tunnel; other site 648757008618 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 648757008619 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 648757008620 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757008621 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 648757008622 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4641 648757008623 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 648757008624 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757008625 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 648757008626 putative ADP-binding pocket [chemical binding]; other site 648757008627 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 648757008628 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 648757008629 trimer interface [polypeptide binding]; other site 648757008630 active site 648757008631 substrate binding site [chemical binding]; other site 648757008632 CoA binding site [chemical binding]; other site 648757008633 Protein of unknown function (DUF805); Region: DUF805; pfam05656 648757008634 Predicted membrane protein [Function unknown]; Region: COG3152 648757008635 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 648757008636 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 648757008637 metal binding site [ion binding]; metal-binding site 648757008638 dimer interface [polypeptide binding]; other site 648757008639 integrase; Provisional; Region: PRK09692 648757008640 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 648757008641 active site 648757008642 Int/Topo IB signature motif; other site 648757008643 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 648757008644 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 648757008645 Phospholipid methyltransferase; Region: PEMT; pfam04191 648757008646 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 648757008647 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 648757008648 TAP-like protein; Region: Abhydrolase_4; pfam08386 648757008649 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 648757008650 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 648757008651 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 648757008652 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 648757008653 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 648757008654 active site 648757008655 phosphorylation site [posttranslational modification] 648757008656 intermolecular recognition site; other site 648757008657 dimerization interface [polypeptide binding]; other site 648757008658 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 648757008659 DNA binding residues [nucleotide binding] 648757008660 dimerization interface [polypeptide binding]; other site 648757008661 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 648757008662 putative active site [active] 648757008663 putative metal binding site [ion binding]; other site 648757008664 Homeodomain-like domain; Region: HTH_23; pfam13384 648757008665 Winged helix-turn helix; Region: HTH_29; pfam13551 648757008666 Homeodomain-like domain; Region: HTH_32; pfam13565 648757008667 DDE superfamily endonuclease; Region: DDE_3; pfam13358 648757008668 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 648757008669 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 648757008670 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 648757008671 active site 648757008672 DNA binding site [nucleotide binding] 648757008673 Int/Topo IB signature motif; other site 648757008674 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 648757008675 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 648757008676 catalytic residues [active] 648757008677 catalytic nucleophile [active] 648757008678 Presynaptic Site I dimer interface [polypeptide binding]; other site 648757008679 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 648757008680 Synaptic Flat tetramer interface [polypeptide binding]; other site 648757008681 Synaptic Site I dimer interface [polypeptide binding]; other site 648757008682 DNA binding site [nucleotide binding] 648757008683 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 648757008684 DEAD-like helicases superfamily; Region: DEXDc; smart00487 648757008685 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 648757008686 ATP binding site [chemical binding]; other site 648757008687 putative Mg++ binding site [ion binding]; other site 648757008688 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 648757008689 nucleotide binding region [chemical binding]; other site 648757008690 ATP-binding site [chemical binding]; other site 648757008691 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 648757008692 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 648757008693 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 648757008694 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 648757008695 Methyltransferase domain; Region: Methyltransf_26; pfam13659 648757008696 ParB-like nuclease domain; Region: ParB; smart00470 648757008697 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 648757008698 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 648757008699 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 648757008700 putative DNA binding site [nucleotide binding]; other site 648757008701 putative Zn2+ binding site [ion binding]; other site 648757008702 AsnC family; Region: AsnC_trans_reg; pfam01037 648757008703 methionine gamma-lyase; Provisional; Region: PRK07503 648757008704 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 648757008705 homodimer interface [polypeptide binding]; other site 648757008706 substrate-cofactor binding pocket; other site 648757008707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757008708 catalytic residue [active] 648757008709 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757008710 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757008711 Transposase; Region: HTH_Tnp_1; pfam01527 648757008712 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757008713 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 648757008714 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 648757008715 non-specific DNA binding site [nucleotide binding]; other site 648757008716 salt bridge; other site 648757008717 sequence-specific DNA binding site [nucleotide binding]; other site 648757008718 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 648757008719 TIR domain; Region: TIR_2; pfam13676 648757008720 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 648757008721 additional DNA contacts [nucleotide binding]; other site 648757008722 mismatch recognition site; other site 648757008723 active site 648757008724 zinc binding site [ion binding]; other site 648757008725 DNA intercalation site [nucleotide binding]; other site 648757008726 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757008727 Winged helix-turn helix; Region: HTH_29; pfam13551 648757008728 Integrase core domain; Region: rve; pfam00665 648757008729 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757008730 Integrase core domain; Region: rve_3; pfam13683 648757008731 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 648757008732 IncA protein; Region: IncA; pfam04156 648757008733 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 648757008734 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 648757008735 ligand binding site; other site 648757008736 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 648757008737 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 648757008738 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 648757008739 Mrr N-terminal domain; Region: Mrr_N; pfam14338 648757008740 Restriction endonuclease; Region: Mrr_cat; pfam04471 648757008741 Homeodomain-like domain; Region: HTH_23; pfam13384 648757008742 Winged helix-turn helix; Region: HTH_29; pfam13551 648757008743 Homeodomain-like domain; Region: HTH_32; pfam13565 648757008744 DDE superfamily endonuclease; Region: DDE_3; pfam13358 648757008745 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 648757008746 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 648757008747 active site 648757008748 NTP binding site [chemical binding]; other site 648757008749 nucleic acid binding site [nucleotide binding]; other site 648757008750 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 648757008751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757008752 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 648757008753 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 648757008754 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 648757008755 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 648757008756 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 648757008757 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 648757008758 Transposase; Region: HTH_Tnp_1; pfam01527 648757008759 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 648757008760 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 648757008761 Transcriptional regulator [Transcription]; Region: LysR; COG0583 648757008762 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 648757008763 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 648757008764 dimerization interface [polypeptide binding]; other site 648757008765 Helix-turn-helix domain; Region: HTH_17; pfam12728 648757008766 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 648757008767 Int/Topo IB signature motif; other site 648757008768 DNA binding site [nucleotide binding] 648757008769 active site 648757008770 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 648757008771 active site 648757008772 Int/Topo IB signature motif; other site 648757008773 DNA binding site [nucleotide binding] 648757008774 DNA polymerase I; Provisional; Region: PRK05755 648757008775 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 648757008776 active site 648757008777 metal binding site 1 [ion binding]; metal-binding site 648757008778 putative 5' ssDNA interaction site; other site 648757008779 metal binding site 3; metal-binding site 648757008780 metal binding site 2 [ion binding]; metal-binding site 648757008781 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 648757008782 putative DNA binding site [nucleotide binding]; other site 648757008783 putative metal binding site [ion binding]; other site 648757008784 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 648757008785 active site 648757008786 catalytic site [active] 648757008787 substrate binding site [chemical binding]; other site 648757008788 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 648757008789 active site 648757008790 DNA binding site [nucleotide binding] 648757008791 catalytic site [active] 648757008792 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 648757008793 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 648757008794 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 648757008795 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 648757008796 NAD(P) binding site [chemical binding]; other site 648757008797 ribosome maturation protein RimP; Reviewed; Region: PRK00092 648757008798 Sm and related proteins; Region: Sm_like; cl00259 648757008799 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 648757008800 putative oligomer interface [polypeptide binding]; other site 648757008801 putative RNA binding site [nucleotide binding]; other site 648757008802 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 648757008803 NusA N-terminal domain; Region: NusA_N; pfam08529 648757008804 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 648757008805 RNA binding site [nucleotide binding]; other site 648757008806 homodimer interface [polypeptide binding]; other site 648757008807 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 648757008808 G-X-X-G motif; other site 648757008809 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 648757008810 G-X-X-G motif; other site 648757008811 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 648757008812 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 648757008813 putative RNA binding cleft [nucleotide binding]; other site 648757008814 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 648757008815 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 648757008816 translation initiation factor IF-2; Validated; Region: infB; PRK05306 648757008817 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 648757008818 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 648757008819 G1 box; other site 648757008820 putative GEF interaction site [polypeptide binding]; other site 648757008821 GTP/Mg2+ binding site [chemical binding]; other site 648757008822 Switch I region; other site 648757008823 G2 box; other site 648757008824 G3 box; other site 648757008825 Switch II region; other site 648757008826 G4 box; other site 648757008827 G5 box; other site 648757008828 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 648757008829 Translation-initiation factor 2; Region: IF-2; pfam11987 648757008830 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 648757008831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 648757008832 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 648757008833 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 648757008834 generic binding surface II; other site 648757008835 generic binding surface I; other site 648757008836 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 648757008837 argininosuccinate synthase; Provisional; Region: PRK13820 648757008838 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 648757008839 ANP binding site [chemical binding]; other site 648757008840 Substrate Binding Site II [chemical binding]; other site 648757008841 Substrate Binding Site I [chemical binding]; other site 648757008842 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 648757008843 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 648757008844 dimer interface [polypeptide binding]; other site 648757008845 active site 648757008846 citrylCoA binding site [chemical binding]; other site 648757008847 NADH binding [chemical binding]; other site 648757008848 cationic pore residues; other site 648757008849 oxalacetate/citrate binding site [chemical binding]; other site 648757008850 coenzyme A binding site [chemical binding]; other site 648757008851 catalytic triad [active] 648757008852 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 648757008853 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 648757008854 dimer interface [polypeptide binding]; other site 648757008855 conserved gate region; other site 648757008856 putative PBP binding loops; other site 648757008857 ABC-ATPase subunit interface; other site 648757008858 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 648757008859 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 648757008860 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 648757008861 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 648757008862 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 648757008863 substrate binding pocket [chemical binding]; other site 648757008864 membrane-bound complex binding site; other site 648757008865 hinge residues; other site 648757008866 cystathionine beta-lyase; Provisional; Region: PRK05967 648757008867 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 648757008868 homodimer interface [polypeptide binding]; other site 648757008869 substrate-cofactor binding pocket; other site 648757008870 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757008871 catalytic residue [active] 648757008872 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 648757008873 DHH family; Region: DHH; pfam01368 648757008874 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 648757008875 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 648757008876 heme-binding residues [chemical binding]; other site 648757008877 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 648757008878 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 648757008879 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 648757008880 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 648757008881 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 648757008882 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 648757008883 TPR motif; other site 648757008884 binding surface 648757008885 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 648757008886 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 648757008887 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 648757008888 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 648757008889 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757008890 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 648757008891 putative ADP-binding pocket [chemical binding]; other site 648757008892 tartrate dehydrogenase; Region: TTC; TIGR02089 648757008893 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 648757008894 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 648757008895 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 648757008896 putative active site [active] 648757008897 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757008898 Winged helix-turn helix; Region: HTH_29; pfam13551 648757008899 Integrase core domain; Region: rve; pfam00665 648757008900 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757008901 Integrase core domain; Region: rve_3; pfam13683 648757008902 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 648757008903 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 648757008904 active site 648757008905 HIGH motif; other site 648757008906 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 648757008907 active site 648757008908 KMSKS motif; other site 648757008909 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 648757008910 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 648757008911 Competence protein; Region: Competence; pfam03772 648757008912 aminotransferase; Validated; Region: PRK09148 648757008913 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 648757008914 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757008915 homodimer interface [polypeptide binding]; other site 648757008916 catalytic residue [active] 648757008917 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 648757008918 tyrosine decarboxylase; Region: PLN02880 648757008919 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757008920 catalytic residue [active] 648757008921 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 648757008922 CoenzymeA binding site [chemical binding]; other site 648757008923 subunit interaction site [polypeptide binding]; other site 648757008924 PHB binding site; other site 648757008925 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 648757008926 23S rRNA interface [nucleotide binding]; other site 648757008927 L3 interface [polypeptide binding]; other site 648757008928 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 648757008929 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 648757008930 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 648757008931 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 648757008932 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 648757008933 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 648757008934 Cysteine-rich domain; Region: CCG; pfam02754 648757008935 Cysteine-rich domain; Region: CCG; pfam02754 648757008936 FAD binding domain; Region: FAD_binding_4; pfam01565 648757008937 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 648757008938 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 648757008939 FAD binding domain; Region: FAD_binding_4; pfam01565 648757008940 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 648757008941 transcriptional activator TtdR; Provisional; Region: PRK09801 648757008942 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 648757008943 putative effector binding pocket; other site 648757008944 dimerization interface [polypeptide binding]; other site 648757008945 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 648757008946 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 648757008947 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 648757008948 DctM-like transporters; Region: DctM; pfam06808 648757008949 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 648757008950 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 648757008951 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 648757008952 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 648757008953 Catalytic site [active] 648757008954 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 648757008955 ribonuclease III; Reviewed; Region: rnc; PRK00102 648757008956 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 648757008957 dimerization interface [polypeptide binding]; other site 648757008958 active site 648757008959 metal binding site [ion binding]; metal-binding site 648757008960 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 648757008961 dsRNA binding site [nucleotide binding]; other site 648757008962 GTPase Era; Reviewed; Region: era; PRK00089 648757008963 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 648757008964 G1 box; other site 648757008965 GTP/Mg2+ binding site [chemical binding]; other site 648757008966 Switch I region; other site 648757008967 G2 box; other site 648757008968 Switch II region; other site 648757008969 G3 box; other site 648757008970 G4 box; other site 648757008971 G5 box; other site 648757008972 KH domain; Region: KH_2; pfam07650 648757008973 Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]; Region: RecO; COG1381 648757008974 Recombination protein O N terminal; Region: RecO_N; pfam11967 648757008975 Recombination protein O C terminal; Region: RecO_C; pfam02565 648757008976 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 648757008977 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 648757008978 TPR repeat; Region: TPR_11; pfam13414 648757008979 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 648757008980 binding surface 648757008981 TPR motif; other site 648757008982 TPR repeat; Region: TPR_11; pfam13414 648757008983 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 648757008984 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 648757008985 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 648757008986 trimer interface [polypeptide binding]; other site 648757008987 active site 648757008988 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 648757008989 trimer interface [polypeptide binding]; other site 648757008990 active site 648757008991 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 648757008992 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 648757008993 dimer interface [polypeptide binding]; other site 648757008994 phosphorylation site [posttranslational modification] 648757008995 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 648757008996 ATP binding site [chemical binding]; other site 648757008997 Mg2+ binding site [ion binding]; other site 648757008998 G-X-G motif; other site 648757008999 GAF domain; Region: GAF; pfam01590 648757009000 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 648757009001 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 648757009002 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 648757009003 dimer interface [polypeptide binding]; other site 648757009004 phosphorylation site [posttranslational modification] 648757009005 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 648757009006 ATP binding site [chemical binding]; other site 648757009007 Mg2+ binding site [ion binding]; other site 648757009008 G-X-G motif; other site 648757009009 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 648757009010 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 648757009011 active site 648757009012 phosphorylation site [posttranslational modification] 648757009013 intermolecular recognition site; other site 648757009014 dimerization interface [polypeptide binding]; other site 648757009015 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 648757009016 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 648757009017 catalytic triad [active] 648757009018 dimer interface [polypeptide binding]; other site 648757009019 GDP/GTP exchange factor Sec2p; Region: Sec2p; pfam06428 648757009020 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 648757009021 Peptidase family M23; Region: Peptidase_M23; pfam01551 648757009022 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 648757009023 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 648757009024 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 648757009025 protein binding site [polypeptide binding]; other site 648757009026 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 648757009027 Catalytic dyad [active] 648757009028 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 648757009029 putative active site [active] 648757009030 Ap4A binding site [chemical binding]; other site 648757009031 nudix motif; other site 648757009032 putative metal binding site [ion binding]; other site 648757009033 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 648757009034 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 648757009035 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 648757009036 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 648757009037 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 648757009038 beta subunit interaction interface [polypeptide binding]; other site 648757009039 Walker A motif; other site 648757009040 ATP binding site [chemical binding]; other site 648757009041 Walker B motif; other site 648757009042 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 648757009043 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 648757009044 core domain interface [polypeptide binding]; other site 648757009045 delta subunit interface [polypeptide binding]; other site 648757009046 epsilon subunit interface [polypeptide binding]; other site 648757009047 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 648757009048 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 648757009049 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 648757009050 alpha subunit interaction interface [polypeptide binding]; other site 648757009051 Walker A motif; other site 648757009052 ATP binding site [chemical binding]; other site 648757009053 Walker B motif; other site 648757009054 inhibitor binding site; inhibition site 648757009055 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 648757009056 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 648757009057 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 648757009058 gamma subunit interface [polypeptide binding]; other site 648757009059 epsilon subunit interface [polypeptide binding]; other site 648757009060 LBP interface [polypeptide binding]; other site 648757009061 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757009062 Winged helix-turn helix; Region: HTH_29; pfam13551 648757009063 Integrase core domain; Region: rve; pfam00665 648757009064 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757009065 Integrase core domain; Region: rve_3; pfam13683 648757009066 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 648757009067 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 648757009068 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 648757009069 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 648757009070 active site 648757009071 phosphorylation site [posttranslational modification] 648757009072 intermolecular recognition site; other site 648757009073 dimerization interface [polypeptide binding]; other site 648757009074 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 648757009075 DNA binding site [nucleotide binding] 648757009076 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 648757009077 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 648757009078 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 648757009079 Ligand Binding Site [chemical binding]; other site 648757009080 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 648757009081 GAF domain; Region: GAF_3; pfam13492 648757009082 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 648757009083 dimer interface [polypeptide binding]; other site 648757009084 phosphorylation site [posttranslational modification] 648757009085 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 648757009086 ATP binding site [chemical binding]; other site 648757009087 Mg2+ binding site [ion binding]; other site 648757009088 G-X-G motif; other site 648757009089 K+-transporting ATPase, c chain; Region: KdpC; cl00944 648757009090 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 648757009091 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 648757009092 Soluble P-type ATPase [General function prediction only]; Region: COG4087 648757009093 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 648757009094 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 648757009095 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 648757009096 Protein of unknown function (DUF502); Region: DUF502; cl01107 648757009097 hypothetical protein; Validated; Region: PRK09104 648757009098 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 648757009099 metal binding site [ion binding]; metal-binding site 648757009100 putative dimer interface [polypeptide binding]; other site 648757009101 FtsH Extracellular; Region: FtsH_ext; pfam06480 648757009102 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 648757009103 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 648757009104 Walker A motif; other site 648757009105 ATP binding site [chemical binding]; other site 648757009106 Walker B motif; other site 648757009107 arginine finger; other site 648757009108 Peptidase family M41; Region: Peptidase_M41; pfam01434 648757009109 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 648757009110 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 648757009111 Ligand Binding Site [chemical binding]; other site 648757009112 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 648757009113 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 648757009114 binding surface 648757009115 TPR motif; other site 648757009116 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 648757009117 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 648757009118 ligand binding site [chemical binding]; other site 648757009119 translocation protein TolB; Provisional; Region: tolB; PRK05137 648757009120 TolB amino-terminal domain; Region: TolB_N; pfam04052 648757009121 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 648757009122 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 648757009123 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 648757009124 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 648757009125 TolR protein; Region: tolR; TIGR02801 648757009126 TolQ protein; Region: tolQ; TIGR02796 648757009127 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 648757009128 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 648757009129 acyl-activating enzyme (AAE) consensus motif; other site 648757009130 AMP binding site [chemical binding]; other site 648757009131 active site 648757009132 CoA binding site [chemical binding]; other site 648757009133 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 648757009134 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 648757009135 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 648757009136 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 648757009137 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 648757009138 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 648757009139 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 648757009140 ATP binding site [chemical binding]; other site 648757009141 Mg2+ binding site [ion binding]; other site 648757009142 G-X-G motif; other site 648757009143 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 648757009144 anchoring element; other site 648757009145 dimer interface [polypeptide binding]; other site 648757009146 ATP binding site [chemical binding]; other site 648757009147 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 648757009148 active site 648757009149 putative metal-binding site [ion binding]; other site 648757009150 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 648757009151 Uncharacterized conserved protein [Function unknown]; Region: COG5323 648757009152 Terminase-like family; Region: Terminase_6; pfam03237 648757009153 P22 coat protein - gene protein 5; Region: P22_CoatProtein; pfam11651 648757009154 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 648757009155 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 648757009156 enoyl-CoA hydratase; Provisional; Region: PRK06144 648757009157 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 648757009158 substrate binding site [chemical binding]; other site 648757009159 oxyanion hole (OAH) forming residues; other site 648757009160 trimer interface [polypeptide binding]; other site 648757009161 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; cl15762 648757009162 Glucokinase; Region: Glucokinase; cl17310 648757009163 glucokinase, proteobacterial type; Region: glk; TIGR00749 648757009164 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 648757009165 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 648757009166 active site 648757009167 homotetramer interface [polypeptide binding]; other site 648757009168 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 648757009169 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 648757009170 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 648757009171 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 648757009172 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 648757009173 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 648757009174 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 648757009175 IHF dimer interface [polypeptide binding]; other site 648757009176 IHF - DNA interface [nucleotide binding]; other site 648757009177 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 648757009178 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 648757009179 dimer interface [polypeptide binding]; other site 648757009180 ssDNA binding site [nucleotide binding]; other site 648757009181 tetramer (dimer of dimers) interface [polypeptide binding]; other site 648757009182 DNA gyrase subunit A; Validated; Region: PRK05560 648757009183 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 648757009184 CAP-like domain; other site 648757009185 active site 648757009186 primary dimer interface [polypeptide binding]; other site 648757009187 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 648757009188 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 648757009189 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 648757009190 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 648757009191 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 648757009192 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 648757009193 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 648757009194 active site 648757009195 (T/H)XGH motif; other site 648757009196 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 648757009197 active site 648757009198 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 648757009199 active site 648757009200 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 648757009201 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 648757009202 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 648757009203 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 648757009204 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 648757009205 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 648757009206 NADH(P)-binding; Region: NAD_binding_10; pfam13460 648757009207 NAD binding site [chemical binding]; other site 648757009208 substrate binding site [chemical binding]; other site 648757009209 putative active site [active] 648757009210 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 648757009211 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 648757009212 MarR family; Region: MarR_2; pfam12802 648757009213 Peptidase family M23; Region: Peptidase_M23; pfam01551 648757009214 TPR repeat; Region: TPR_11; pfam13414 648757009215 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 648757009216 binding surface 648757009217 TPR motif; other site 648757009218 TPR repeat; Region: TPR_11; pfam13414 648757009219 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 648757009220 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 648757009221 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 648757009222 acyl-activating enzyme (AAE) consensus motif; other site 648757009223 AMP binding site [chemical binding]; other site 648757009224 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 648757009225 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 648757009226 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 648757009227 putative trimer interface [polypeptide binding]; other site 648757009228 putative CoA binding site [chemical binding]; other site 648757009229 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 648757009230 putative trimer interface [polypeptide binding]; other site 648757009231 putative CoA binding site [chemical binding]; other site 648757009232 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 648757009233 putative trimer interface [polypeptide binding]; other site 648757009234 putative CoA binding site [chemical binding]; other site 648757009235 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 648757009236 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 648757009237 substrate binding site [chemical binding]; other site 648757009238 ligand binding site [chemical binding]; other site 648757009239 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 648757009240 putative active site pocket [active] 648757009241 dimerization interface [polypeptide binding]; other site 648757009242 putative catalytic residue [active] 648757009243 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; cl17112 648757009244 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 648757009245 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 648757009246 Vanadium/alternative nitrogenase delta subunit; Region: AnfG_VnfG; pfam03139 648757009247 nitrogenase iron-iron protein, alpha chain; Region: ANFD; TIGR01861 648757009248 Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase...; Region: Nitrogenase_VFe_alpha; cd01977 648757009249 nitrogenase iron protein; Region: nifH; TIGR01287 648757009250 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 648757009251 Nucleotide-binding sites [chemical binding]; other site 648757009252 Walker A motif; other site 648757009253 Switch I region of nucleotide binding site; other site 648757009254 Fe4S4 binding sites [ion binding]; other site 648757009255 Switch II region of nucleotide binding site; other site 648757009256 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 648757009257 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 648757009258 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 648757009259 Walker A motif; other site 648757009260 ATP binding site [chemical binding]; other site 648757009261 Walker B motif; other site 648757009262 arginine finger; other site 648757009263 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 648757009264 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 648757009265 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 648757009266 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 648757009267 putative chaperone; Provisional; Region: PRK11678 648757009268 nucleotide binding site [chemical binding]; other site 648757009269 putative NEF/HSP70 interaction site [polypeptide binding]; other site 648757009270 SBD interface [polypeptide binding]; other site 648757009271 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 648757009272 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 648757009273 DNA-binding site [nucleotide binding]; DNA binding site 648757009274 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 648757009275 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757009276 homodimer interface [polypeptide binding]; other site 648757009277 catalytic residue [active] 648757009278 Benzoate membrane transport protein; Region: BenE; pfam03594 648757009279 benzoate transporter; Region: benE; TIGR00843 648757009280 Methyltransferase domain; Region: Methyltransf_31; pfam13847 648757009281 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 648757009282 S-adenosylmethionine binding site [chemical binding]; other site 648757009283 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 648757009284 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 648757009285 Ligand Binding Site [chemical binding]; other site 648757009286 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 648757009287 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 648757009288 Na binding site [ion binding]; other site 648757009289 PAS fold; Region: PAS_7; pfam12860 648757009290 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 648757009291 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 648757009292 dimer interface [polypeptide binding]; other site 648757009293 phosphorylation site [posttranslational modification] 648757009294 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 648757009295 ATP binding site [chemical binding]; other site 648757009296 Mg2+ binding site [ion binding]; other site 648757009297 G-X-G motif; other site 648757009298 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 648757009299 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 648757009300 active site 648757009301 phosphorylation site [posttranslational modification] 648757009302 intermolecular recognition site; other site 648757009303 dimerization interface [polypeptide binding]; other site 648757009304 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 648757009305 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757009306 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 648757009307 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 648757009308 recombination protein RecR; Reviewed; Region: recR; PRK00076 648757009309 RecR protein; Region: RecR; pfam02132 648757009310 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 648757009311 putative active site [active] 648757009312 putative metal-binding site [ion binding]; other site 648757009313 tetramer interface [polypeptide binding]; other site 648757009314 hypothetical protein; Validated; Region: PRK09039 648757009315 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 648757009316 ligand binding site [chemical binding]; other site 648757009317 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 648757009318 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 648757009319 active site 648757009320 dimerization interface [polypeptide binding]; other site 648757009321 elongation factor P; Validated; Region: PRK00529 648757009322 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 648757009323 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 648757009324 RNA binding site [nucleotide binding]; other site 648757009325 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 648757009326 RNA binding site [nucleotide binding]; other site 648757009327 Predicted ATPase [General function prediction only]; Region: COG1485 648757009328 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 648757009329 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 648757009330 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 648757009331 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 648757009332 Walker A/P-loop; other site 648757009333 ATP binding site [chemical binding]; other site 648757009334 Q-loop/lid; other site 648757009335 ABC transporter signature motif; other site 648757009336 Walker B; other site 648757009337 D-loop; other site 648757009338 H-loop/switch region; other site 648757009339 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 648757009340 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 648757009341 putative active site [active] 648757009342 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 648757009343 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 648757009344 putative acyl-acceptor binding pocket; other site 648757009345 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 648757009346 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 648757009347 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757009348 catalytic residue [active] 648757009349 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 648757009350 siroheme synthase; Provisional; Region: cysG; PRK10637 648757009351 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 648757009352 Putative NAD(P)-binding; Region: NAD_binding_7; cl17660 648757009353 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 648757009354 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 648757009355 active site 648757009356 SAM binding site [chemical binding]; other site 648757009357 homodimer interface [polypeptide binding]; other site 648757009358 CsbD-like; Region: CsbD; cl17424 648757009359 PRC-barrel domain; Region: PRC; pfam05239 648757009360 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 648757009361 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 648757009362 homodimer interface [polypeptide binding]; other site 648757009363 substrate-cofactor binding pocket; other site 648757009364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757009365 catalytic residue [active] 648757009366 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 648757009367 substrate binding site [chemical binding]; other site 648757009368 hypothetical protein; Validated; Region: PRK06886 648757009369 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 648757009370 active site 648757009371 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 648757009372 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 648757009373 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 648757009374 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 648757009375 putative active site [active] 648757009376 putative substrate binding site [chemical binding]; other site 648757009377 ATP binding site [chemical binding]; other site 648757009378 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 648757009379 RNA/DNA hybrid binding site [nucleotide binding]; other site 648757009380 active site 648757009381 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757009382 Winged helix-turn helix; Region: HTH_29; pfam13551 648757009383 Integrase core domain; Region: rve; pfam00665 648757009384 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757009385 Integrase core domain; Region: rve_3; pfam13683 648757009386 AAA domain; Region: AAA_31; pfam13614 648757009387 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 648757009388 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 648757009389 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 648757009390 BON domain; Region: BON; pfam04972 648757009391 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 648757009392 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 648757009393 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 648757009394 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 648757009395 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 648757009396 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 648757009397 NAD binding site [chemical binding]; other site 648757009398 homodimer interface [polypeptide binding]; other site 648757009399 homotetramer interface [polypeptide binding]; other site 648757009400 active site 648757009401 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 648757009402 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 648757009403 dimer interface [polypeptide binding]; other site 648757009404 active site 648757009405 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 648757009406 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 648757009407 FAD binding site [chemical binding]; other site 648757009408 homotetramer interface [polypeptide binding]; other site 648757009409 substrate binding pocket [chemical binding]; other site 648757009410 catalytic base [active] 648757009411 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 648757009412 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 648757009413 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 648757009414 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 648757009415 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 648757009416 tetrameric interface [polypeptide binding]; other site 648757009417 NAD binding site [chemical binding]; other site 648757009418 catalytic residues [active] 648757009419 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 648757009420 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 648757009421 active site 648757009422 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 648757009423 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 648757009424 substrate binding site [chemical binding]; other site 648757009425 oxyanion hole (OAH) forming residues; other site 648757009426 trimer interface [polypeptide binding]; other site 648757009427 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 648757009428 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 648757009429 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 648757009430 enoyl-CoA hydratase; Provisional; Region: PRK05862 648757009431 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 648757009432 substrate binding site [chemical binding]; other site 648757009433 oxyanion hole (OAH) forming residues; other site 648757009434 trimer interface [polypeptide binding]; other site 648757009435 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 648757009436 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757009437 catalytic residue [active] 648757009438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 648757009439 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 648757009440 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 648757009441 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 648757009442 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 648757009443 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 648757009444 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 648757009445 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 648757009446 carboxyltransferase (CT) interaction site; other site 648757009447 biotinylation site [posttranslational modification]; other site 648757009448 Dehydroquinase class II; Region: DHquinase_II; pfam01220 648757009449 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 648757009450 trimer interface [polypeptide binding]; other site 648757009451 active site 648757009452 dimer interface [polypeptide binding]; other site 648757009453 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 648757009454 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 648757009455 catalytic residues [active] 648757009456 Peptidase family M48; Region: Peptidase_M48; cl12018 648757009457 Tetratricopeptide repeat; Region: TPR_16; pfam13432 648757009458 aspartate aminotransferase; Provisional; Region: PRK05764 648757009459 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 648757009460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757009461 homodimer interface [polypeptide binding]; other site 648757009462 catalytic residue [active] 648757009463 Cysteine rich repeat; Region: Cys_rich_FGFR; pfam00839 648757009464 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 648757009465 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 648757009466 putative catalytic cysteine [active] 648757009467 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 648757009468 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 648757009469 CoA-ligase; Region: Ligase_CoA; pfam00549 648757009470 CoA binding domain; Region: CoA_binding; smart00881 648757009471 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 648757009472 CoA-ligase; Region: Ligase_CoA; pfam00549 648757009473 excinuclease ABC subunit B; Provisional; Region: PRK05298 648757009474 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 648757009475 ATP binding site [chemical binding]; other site 648757009476 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 648757009477 nucleotide binding region [chemical binding]; other site 648757009478 ATP-binding site [chemical binding]; other site 648757009479 Ultra-violet resistance protein B; Region: UvrB; pfam12344 648757009480 UvrB/uvrC motif; Region: UVR; pfam02151 648757009481 putative molybdenum utilization protein ModD; Region: modD; TIGR01334 648757009482 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 648757009483 dimerization interface [polypeptide binding]; other site 648757009484 active site 648757009485 SIR2-like domain; Region: SIR2_2; pfam13289 648757009486 NifT/FixU protein; Region: NifT; pfam06988 648757009487 NifZ domain; Region: NifZ; pfam04319 648757009488 NifZ domain; Region: NifZ; pfam04319 648757009489 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 648757009490 HEAT repeats; Region: HEAT_2; pfam13646 648757009491 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 648757009492 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 648757009493 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 648757009494 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 648757009495 FeS/SAM binding site; other site 648757009496 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes 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 as part of...; Region: NifB; cd00852 648757009497 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 648757009498 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 648757009499 acyl-activating enzyme (AAE) consensus motif; other site 648757009500 putative AMP binding site [chemical binding]; other site 648757009501 putative active site [active] 648757009502 putative CoA binding site [chemical binding]; other site 648757009503 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 648757009504 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 648757009505 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 648757009506 ATP-grasp domain; Region: ATP-grasp_4; cl17255 648757009507 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 648757009508 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 648757009509 carboxyltransferase (CT) interaction site; other site 648757009510 biotinylation site [posttranslational modification]; other site 648757009511 Amino acid permease; Region: AA_permease_2; pfam13520 648757009512 Heavy-metal resistance; Region: Metal_resist; pfam13801 648757009513 RNA polymerase sigma factor; Reviewed; Region: PRK05602 648757009514 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 648757009515 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 648757009516 DNA binding residues [nucleotide binding] 648757009517 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 648757009518 heat shock protein GrpE; Provisional; Region: PRK14141 648757009519 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 648757009520 dimer interface [polypeptide binding]; other site 648757009521 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 648757009522 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 648757009523 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 648757009524 putative active site [active] 648757009525 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 648757009526 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 648757009527 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 648757009528 dimer interface [polypeptide binding]; other site 648757009529 active site 648757009530 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 648757009531 dimer interface [polypeptide binding]; other site 648757009532 active site 648757009533 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 648757009534 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 648757009535 active site 648757009536 dimer interface [polypeptide binding]; other site 648757009537 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 648757009538 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 648757009539 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757009540 catalytic residue [active] 648757009541 biotin synthase; Region: bioB; TIGR00433 648757009542 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 648757009543 FeS/SAM binding site; other site 648757009544 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 648757009545 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 648757009546 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 648757009547 dimer interface [polypeptide binding]; other site 648757009548 phosphorylation site [posttranslational modification] 648757009549 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 648757009550 ATP binding site [chemical binding]; other site 648757009551 Mg2+ binding site [ion binding]; other site 648757009552 G-X-G motif; other site 648757009553 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 648757009554 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 648757009555 DNA binding residues [nucleotide binding] 648757009556 dimerization interface [polypeptide binding]; other site 648757009557 Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases); Region: Rab; cd00154 648757009558 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 648757009559 Rab subfamily motif 1 (RabSF1); other site 648757009560 G1 box; other site 648757009561 GTP/Mg2+ binding site [chemical binding]; other site 648757009562 Rab subfamily motif 2 (RabSF2); other site 648757009563 Switch I region; other site 648757009564 G2 box; other site 648757009565 effector interaction site; other site 648757009566 GDI interaction site; other site 648757009567 Rab family motif 1 (RabF1); other site 648757009568 GEF interaction site [polypeptide binding]; other site 648757009569 Rab family motif 2 (RabF2); other site 648757009570 G3 box; other site 648757009571 Switch II region; other site 648757009572 Rab family motif 3 (RabF3); other site 648757009573 Rab family motif 4 (RabF4); other site 648757009574 Rab family motif 5 (RabF5); other site 648757009575 Rab subfamily motif 3 (RabSF3); other site 648757009576 G4 box; other site 648757009577 G5 box; other site 648757009578 Rab subfamily motif 4 (RabSF4); other site 648757009579 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 648757009580 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 648757009581 ligand binding site [chemical binding]; other site 648757009582 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 648757009583 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 648757009584 N-terminal plug; other site 648757009585 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 648757009586 ligand-binding site [chemical binding]; other site 648757009587 FeoA domain; Region: FeoA; pfam04023 648757009588 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 648757009589 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 648757009590 G1 box; other site 648757009591 GTP/Mg2+ binding site [chemical binding]; other site 648757009592 Switch I region; other site 648757009593 G2 box; other site 648757009594 G3 box; other site 648757009595 Switch II region; other site 648757009596 G4 box; other site 648757009597 G5 box; other site 648757009598 Nucleoside recognition; Region: Gate; pfam07670 648757009599 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 648757009600 Nucleoside recognition; Region: Gate; pfam07670 648757009601 FeoC like transcriptional regulator; Region: FeoC; pfam09012 648757009602 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 648757009603 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 648757009604 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 648757009605 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 648757009606 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 648757009607 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 648757009608 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 648757009609 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 648757009610 GAF domain; Region: GAF; pfam01590 648757009611 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 648757009612 Walker A motif; other site 648757009613 ATP binding site [chemical binding]; other site 648757009614 Walker B motif; other site 648757009615 arginine finger; other site 648757009616 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 648757009617 TonB-dependent vitamin B12 receptor; Region: TonB-B12; TIGR01779 648757009618 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 648757009619 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 648757009620 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 648757009621 TOBE domain; Region: TOBE; cl01440 648757009622 TOBE domain; Region: TOBE; cl01440 648757009623 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 648757009624 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 648757009625 PqqA family; Region: PqqA; cl15372 648757009626 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 648757009627 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 648757009628 catalytic loop [active] 648757009629 iron binding site [ion binding]; other site 648757009630 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 648757009631 diiron binding motif [ion binding]; other site 648757009632 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 648757009633 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 648757009634 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 648757009635 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 648757009636 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 648757009637 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 648757009638 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 648757009639 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 648757009640 GTP cyclohydrolase; Provisional; Region: PRK08815 648757009641 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 648757009642 dimerization interface [polypeptide binding]; other site 648757009643 active site 648757009644 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757009645 Winged helix-turn helix; Region: HTH_29; pfam13551 648757009646 Integrase core domain; Region: rve; pfam00665 648757009647 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757009648 Integrase core domain; Region: rve_3; pfam13683 648757009649 short chain dehydrogenase; Provisional; Region: PRK09134 648757009650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 648757009651 NAD(P) binding site [chemical binding]; other site 648757009652 active site 648757009653 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 648757009654 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 648757009655 GIY-YIG motif/motif A; other site 648757009656 active site 648757009657 catalytic site [active] 648757009658 putative DNA binding site [nucleotide binding]; other site 648757009659 metal binding site [ion binding]; metal-binding site 648757009660 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 648757009661 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 648757009662 YCII-related domain; Region: YCII; cl00999 648757009663 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 648757009664 putative deacylase active site [active] 648757009665 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 648757009666 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 648757009667 substrate-cofactor binding pocket; other site 648757009668 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757009669 catalytic residue [active] 648757009670 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 648757009671 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 648757009672 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 648757009673 catalytic site [active] 648757009674 subunit interface [polypeptide binding]; other site 648757009675 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 648757009676 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 648757009677 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 648757009678 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 648757009679 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 648757009680 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 648757009681 Ligand binding site [chemical binding]; other site 648757009682 Electron transfer flavoprotein domain; Region: ETF; pfam01012 648757009683 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 648757009684 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 648757009685 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 648757009686 ORF059 IMV protein VP55; Provisional; Region: PHA02688 648757009687 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 648757009688 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 648757009689 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 648757009690 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 648757009691 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 648757009692 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 648757009693 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 648757009694 putative active site [active] 648757009695 substrate binding site [chemical binding]; other site 648757009696 putative cosubstrate binding site; other site 648757009697 catalytic site [active] 648757009698 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 648757009699 substrate binding site [chemical binding]; other site 648757009700 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 648757009701 EVE domain; Region: EVE; pfam01878 648757009702 Gram-negative porin; Region: Porin_4; pfam13609 648757009703 YGGT family; Region: YGGT; pfam02325 648757009704 Uncharacterized conserved protein [Function unknown]; Region: COG1872 648757009705 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 648757009706 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 648757009707 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 648757009708 homodimer interface [polypeptide binding]; other site 648757009709 NADP binding site [chemical binding]; other site 648757009710 substrate binding site [chemical binding]; other site 648757009711 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 648757009712 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 648757009713 catalytic triad [active] 648757009714 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 648757009715 nudix motif; other site 648757009716 Protein of unknown function (DUF2385); Region: DUF2385; pfam09539 648757009717 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 648757009718 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 648757009719 lipoyl-biotinyl attachment site [posttranslational modification]; other site 648757009720 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 648757009721 active site 648757009722 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 648757009723 homodimer interface [polypeptide binding]; other site 648757009724 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 648757009725 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 648757009726 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 648757009727 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 648757009728 active site 648757009729 substrate binding site [chemical binding]; other site 648757009730 metal binding site [ion binding]; metal-binding site 648757009731 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 648757009732 dimerization interface [polypeptide binding]; other site 648757009733 putative DNA binding site [nucleotide binding]; other site 648757009734 putative Zn2+ binding site [ion binding]; other site 648757009735 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 648757009736 arsenical-resistance protein; Region: acr3; TIGR00832 648757009737 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 648757009738 ArsC family; Region: ArsC; pfam03960 648757009739 catalytic residues [active] 648757009740 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 648757009741 Low molecular weight phosphatase family; Region: LMWPc; cd00115 648757009742 active site 648757009743 Methyltransferase domain; Region: Methyltransf_31; pfam13847 648757009744 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 648757009745 S-adenosylmethionine binding site [chemical binding]; other site 648757009746 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 648757009747 putative DNA binding site [nucleotide binding]; other site 648757009748 dimerization interface [polypeptide binding]; other site 648757009749 putative Zn2+ binding site [ion binding]; other site 648757009750 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 648757009751 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 648757009752 Walker A/P-loop; other site 648757009753 ATP binding site [chemical binding]; other site 648757009754 Q-loop/lid; other site 648757009755 ABC transporter signature motif; other site 648757009756 Walker B; other site 648757009757 D-loop; other site 648757009758 H-loop/switch region; other site 648757009759 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 648757009760 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 648757009761 FtsX-like permease family; Region: FtsX; pfam02687 648757009762 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 648757009763 Low molecular weight phosphatase family; Region: LMWPc; cd00115 648757009764 active site 648757009765 Phosphotransferase enzyme family; Region: APH; pfam01636 648757009766 Fructosamine kinase; Region: Fructosamin_kin; cl17579 648757009767 prolyl-tRNA synthetase; Provisional; Region: PRK08661 648757009768 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 648757009769 dimer interface [polypeptide binding]; other site 648757009770 motif 1; other site 648757009771 active site 648757009772 motif 2; other site 648757009773 motif 3; other site 648757009774 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 648757009775 anticodon binding site; other site 648757009776 FOG: CBS domain [General function prediction only]; Region: COG0517 648757009777 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 648757009778 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 648757009779 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 648757009780 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 648757009781 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 648757009782 S-adenosylmethionine binding site [chemical binding]; other site 648757009783 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 648757009784 Low molecular weight phosphatase family; Region: LMWPc; cd00115 648757009785 active site 648757009786 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 648757009787 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 648757009788 putative acyl-acceptor binding pocket; other site 648757009789 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 648757009790 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 648757009791 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 648757009792 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 648757009793 NMT1-like family; Region: NMT1_2; pfam13379 648757009794 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 648757009795 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 648757009796 dimer interface [polypeptide binding]; other site 648757009797 ABC-ATPase subunit interface; other site 648757009798 putative PBP binding loops; other site 648757009799 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 648757009800 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 648757009801 dimer interface [polypeptide binding]; other site 648757009802 conserved gate region; other site 648757009803 putative PBP binding loops; other site 648757009804 ABC-ATPase subunit interface; other site 648757009805 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 648757009806 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 648757009807 Walker A/P-loop; other site 648757009808 ATP binding site [chemical binding]; other site 648757009809 Q-loop/lid; other site 648757009810 ABC transporter signature motif; other site 648757009811 Walker B; other site 648757009812 D-loop; other site 648757009813 H-loop/switch region; other site 648757009814 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 648757009815 H+ Antiporter protein; Region: 2A0121; TIGR00900 648757009816 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757009817 nitrogenase iron protein; Region: nifH; TIGR01287 648757009818 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 648757009819 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 648757009820 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 648757009821 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 648757009822 HEAT repeats; Region: HEAT_2; pfam13646 648757009823 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 648757009824 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 648757009825 TPR motif; other site 648757009826 binding surface 648757009827 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 648757009828 Sulfatase; Region: Sulfatase; pfam00884 648757009829 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 648757009830 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 648757009831 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 648757009832 N-terminal plug; other site 648757009833 ligand-binding site [chemical binding]; other site 648757009834 TonB C terminal; Region: TonB_2; pfam13103 648757009835 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 648757009836 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 648757009837 TolR protein; Region: tolR; TIGR02801 648757009838 Helix-turn-helix domain; Region: HTH_28; pfam13518 648757009839 Winged helix-turn helix; Region: HTH_29; pfam13551 648757009840 Integrase core domain; Region: rve; pfam00665 648757009841 DDE domain; Region: DDE_Tnp_IS240; pfam13610 648757009842 Integrase core domain; Region: rve_3; pfam13683 648757009843 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 648757009844 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 648757009845 NMT1-like family; Region: NMT1_2; pfam13379 648757009846 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 648757009847 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 648757009848 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 648757009849 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 648757009850 Walker A/P-loop; other site 648757009851 ATP binding site [chemical binding]; other site 648757009852 Q-loop/lid; other site 648757009853 ABC transporter signature motif; other site 648757009854 Walker B; other site 648757009855 D-loop; other site 648757009856 H-loop/switch region; other site 648757009857 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 648757009858 ligand binding site [chemical binding]; other site 648757009859 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 648757009860 NAD binding site [chemical binding]; other site 648757009861 dimerization interface [polypeptide binding]; other site 648757009862 catalytic site [active] 648757009863 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 648757009864 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 648757009865 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 648757009866 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 648757009867 putative switch regulator; other site 648757009868 non-specific DNA interactions [nucleotide binding]; other site 648757009869 DNA binding site [nucleotide binding] 648757009870 sequence specific DNA binding site [nucleotide binding]; other site 648757009871 putative cAMP binding site [chemical binding]; other site 648757009872 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 648757009873 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 648757009874 substrate-cofactor binding pocket; other site 648757009875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757009876 catalytic residue [active] 648757009877 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 648757009878 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 648757009879 homodimer interface [polypeptide binding]; other site 648757009880 substrate-cofactor binding pocket; other site 648757009881 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757009882 catalytic residue [active] 648757009883 Cupin domain; Region: Cupin_2; pfam07883 648757009884 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 648757009885 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 648757009886 substrate binding pocket [chemical binding]; other site 648757009887 membrane-bound complex binding site; other site 648757009888 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 648757009889 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 648757009890 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 648757009891 dimer interface [polypeptide binding]; other site 648757009892 ABC-ATPase subunit interface; other site 648757009893 putative PBP binding loops; other site 648757009894 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 648757009895 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 648757009896 Walker A/P-loop; other site 648757009897 ATP binding site [chemical binding]; other site 648757009898 Q-loop/lid; other site 648757009899 ABC transporter signature motif; other site 648757009900 Walker B; other site 648757009901 D-loop; other site 648757009902 H-loop/switch region; other site 648757009903 Protein of unknown function (DUF1847); Region: DUF1847; pfam08901 648757009904 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 648757009905 Radical SAM superfamily; Region: Radical_SAM; pfam04055 648757009906 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 648757009907 FeS/SAM binding site; other site 648757009908 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 648757009909 nitrogenase iron protein; Region: nifH; TIGR01287 648757009910 Nucleotide-binding sites [chemical binding]; other site 648757009911 Walker A motif; other site 648757009912 Switch I region of nucleotide binding site; other site 648757009913 Fe4S4 binding sites [ion binding]; other site 648757009914 Switch II region of nucleotide binding site; other site 648757009915 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 648757009916 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 648757009917 Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent...; Region: Nitrogenase_VnfN_like; cd01971 648757009918 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 648757009919 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 648757009920 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 648757009921 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757009922 catalytic residue [active] 648757009923 OsmC-like protein; Region: OsmC; pfam02566 648757009924 acetyl-CoA synthetase; Provisional; Region: PRK00174 648757009925 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 648757009926 active site 648757009927 CoA binding site [chemical binding]; other site 648757009928 acyl-activating enzyme (AAE) consensus motif; other site 648757009929 AMP binding site [chemical binding]; other site 648757009930 acetate binding site [chemical binding]; other site 648757009931 NMT1/THI5 like; Region: NMT1; pfam09084 648757009932 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 648757009933 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 648757009934 dimer interface [polypeptide binding]; other site 648757009935 conserved gate region; other site 648757009936 ABC-ATPase subunit interface; other site 648757009937 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 648757009938 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 648757009939 Walker A/P-loop; other site 648757009940 ATP binding site [chemical binding]; other site 648757009941 Q-loop/lid; other site 648757009942 ABC transporter signature motif; other site 648757009943 Walker B; other site 648757009944 D-loop; other site 648757009945 H-loop/switch region; other site 648757009946 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 648757009947 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 648757009948 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 648757009949 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 648757009950 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 648757009951 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 648757009952 FeS/SAM binding site; other site 648757009953 Uncharacterized conserved protein [Function unknown]; Region: COG3391 648757009954 enoyl-CoA hydratase; Validated; Region: PRK08139 648757009955 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 648757009956 substrate binding site [chemical binding]; other site 648757009957 oxyanion hole (OAH) forming residues; other site 648757009958 trimer interface [polypeptide binding]; other site 648757009959 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 648757009960 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 648757009961 TolR protein; Region: tolR; TIGR02801 648757009962 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 648757009963 TonB C terminal; Region: TonB_2; pfam13103 648757009964 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 648757009965 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 648757009966 dimer interface [polypeptide binding]; other site 648757009967 pyridoxal 5'-phosphate binding site [chemical binding]; other site 648757009968 catalytic residue [active] 648757009969 Rrf2 family protein; Region: rrf2_super; TIGR00738 648757009970 Transcriptional regulator; Region: Rrf2; pfam02082 648757009971 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 648757009972 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 648757009973 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 648757009974 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 648757009975 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 648757009976 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 648757009977 Walker A/P-loop; other site 648757009978 ATP binding site [chemical binding]; other site 648757009979 Q-loop/lid; other site 648757009980 ABC transporter signature motif; other site 648757009981 Walker B; other site 648757009982 D-loop; other site 648757009983 H-loop/switch region; other site 648757009984 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 648757009985 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 648757009986 dimer interface [polypeptide binding]; other site 648757009987 conserved gate region; other site 648757009988 putative PBP binding loops; other site 648757009989 ABC-ATPase subunit interface; other site 648757009990 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 648757009991 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 648757009992 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 648757009993 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 648757009994 substrate binding pocket [chemical binding]; other site 648757009995 membrane-bound complex binding site; other site 648757009996 hinge residues; other site 648757009997 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 648757009998 H+ Antiporter protein; Region: 2A0121; TIGR00900 648757009999 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 648757010000 putative substrate translocation pore; other site 648757010001 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 648757010002 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 648757010003 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 648757010004 Walker A/P-loop; other site 648757010005 ATP binding site [chemical binding]; other site 648757010006 Q-loop/lid; other site 648757010007 ABC transporter signature motif; other site 648757010008 Walker B; other site 648757010009 D-loop; other site 648757010010 H-loop/switch region; other site 648757010011 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 648757010012 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 648757010013 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 648757010014 Walker A/P-loop; other site 648757010015 ATP binding site [chemical binding]; other site 648757010016 Q-loop/lid; other site 648757010017 ABC transporter signature motif; other site 648757010018 Walker B; other site 648757010019 D-loop; other site 648757010020 H-loop/switch region; other site 648757010021 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 648757010022 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 648757010023 ligand binding site [chemical binding]; other site 648757010024 flexible hinge region; other site 648757010025 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 648757010026 putative switch regulator; other site 648757010027 non-specific DNA interactions [nucleotide binding]; other site 648757010028 DNA binding site [nucleotide binding] 648757010029 sequence specific DNA binding site [nucleotide binding]; other site 648757010030 putative cAMP binding site [chemical binding]; other site 648757010031 NADH dehydrogenase; Validated; Region: PRK08183 648757010032 Methyltransferase domain; Region: Methyltransf_23; pfam13489 648757010033 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 648757010034 S-adenosylmethionine binding site [chemical binding]; other site 648757010035 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 648757010036 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 648757010037 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 648757010038 ABC transporter; Region: ABC_tran_2; pfam12848 648757010039 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 648757010040 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 648757010041 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 648757010042 ATP binding site [chemical binding]; other site 648757010043 putative Mg++ binding site [ion binding]; other site 648757010044 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 648757010045 nucleotide binding region [chemical binding]; other site 648757010046 ATP-binding site [chemical binding]; other site 648757010047 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 648757010048 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; pfam09723 648757010049 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 648757010050 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 648757010051 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 648757010052 active site 648757010053 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 648757010054 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 648757010055 TrkA-N domain; Region: TrkA_N; pfam02254 648757010056 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 648757010057 Coenzyme A binding pocket [chemical binding]; other site 648757010058 NADH dehydrogenase subunit G; Validated; Region: PRK09130 648757010059 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 648757010060 catalytic loop [active] 648757010061 iron binding site [ion binding]; other site 648757010062 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 648757010063 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 648757010064 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 648757010065 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 648757010066 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 648757010067 4Fe-4S binding domain; Region: Fer4; cl02805 648757010068 4Fe-4S binding domain; Region: Fer4; pfam00037 648757010069 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 648757010070 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 648757010071 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 648757010072 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 648757010073 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 648757010074 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 648757010075 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 648757010076 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 648757010077 NADH-ubiquinone oxidoreductase chain 4, amino terminus; Region: Oxidored_q5_N; pfam01059 648757010078 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 648757010079 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 648757010080 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 648757010081 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 648757010082 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 648757010083 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 648757010084 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 648757010085 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 648757010086 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 648757010087 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 648757010088 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 648757010089 dimer interface [polypeptide binding]; other site 648757010090 substrate binding site [chemical binding]; other site 648757010091 metal binding site [ion binding]; metal-binding site 648757010092 tricarballylate dehydrogenase; Validated; Region: PRK08274 648757010093 CitB domain protein; Region: CitB; TIGR02484 648757010094 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 648757010095 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 648757010096 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 648757010097 conserved cys residue [active] 648757010098 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 648757010099 active site 648757010100 SAM binding site [chemical binding]; other site 648757010101 homodimer interface [polypeptide binding]; other site 648757010102 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 648757010103 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 648757010104 active site 648757010105 putative homodimer interface [polypeptide binding]; other site 648757010106 SAM binding site [chemical binding]; other site 648757010107 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 648757010108 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 648757010109 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 648757010110 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 648757010111 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 648757010112 active site 648757010113 SAM binding site [chemical binding]; other site 648757010114 homodimer interface [polypeptide binding]; other site 648757010115 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 648757010116 active site 648757010117 SAM binding site [chemical binding]; other site 648757010118 homodimer interface [polypeptide binding]; other site 648757010119 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 648757010120 Precorrin-8X methylmutase; Region: CbiC; pfam02570 648757010121 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 648757010122 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 648757010123 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 648757010124 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 648757010125 catalytic residue [active] 648757010126 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 648757010127 N-acetyl-D-glucosamine binding site [chemical binding]; other site 648757010128 catalytic residue [active] 648757010129 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 648757010130 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 648757010131 FeS/SAM binding site; other site 648757010132 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 648757010133 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 648757010134 putative FMN binding site [chemical binding]; other site 648757010135 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 648757010136 Cysteine-rich domain; Region: CCG; pfam02754 648757010137 Cysteine-rich domain; Region: CCG; pfam02754 648757010138 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 648757010139 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 648757010140 NAD binding site [chemical binding]; other site 648757010141 putative substrate binding site 2 [chemical binding]; other site 648757010142 putative substrate binding site 1 [chemical binding]; other site 648757010143 active site 648757010144 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 648757010145 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 648757010146 homoserine dehydrogenase; Provisional; Region: PRK06349 648757010147 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 648757010148 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 648757010149 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 648757010150 fructose 1,6-bisphosphatase II; Reviewed; Region: glpX; PRK09479 648757010151 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 648757010152 active site 648757010153 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 648757010154 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 648757010155 NodB motif; other site 648757010156 active site 648757010157 metal binding site [ion binding]; metal-binding site 648757010158 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 648757010159 PAS domain; Region: PAS_9; pfam13426 648757010160 putative active site [active] 648757010161 heme pocket [chemical binding]; other site 648757010162 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 648757010163 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 648757010164 dimer interface [polypeptide binding]; other site 648757010165 phosphorylation site [posttranslational modification] 648757010166 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 648757010167 ATP binding site [chemical binding]; other site 648757010168 Mg2+ binding site [ion binding]; other site 648757010169 G-X-G motif; other site 648757010170 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 648757010171 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 648757010172 active site 648757010173 phosphorylation site [posttranslational modification] 648757010174 intermolecular recognition site; other site 648757010175 dimerization interface [polypeptide binding]; other site 648757010176 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 648757010177 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 648757010178 NADH dehydrogenase subunit B; Validated; Region: PRK06411 648757010179 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 648757010180 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 648757010181 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 648757010182 NADH dehydrogenase subunit D; Validated; Region: PRK06075 648757010183 NADH dehydrogenase subunit E; Validated; Region: PRK07539 648757010184 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 648757010185 putative dimer interface [polypeptide binding]; other site 648757010186 [2Fe-2S] cluster binding site [ion binding]; other site 648757010187 Uncharacterized conserved protein [Function unknown]; Region: COG3743 648757010188 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 648757010189 SLBB domain; Region: SLBB; pfam10531 648757010190 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 648757010191 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 648757010192 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 648757010193 NAD(P) binding site [chemical binding]; other site 648757010194 active site 648757010195 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 648757010196 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 648757010197 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 648757010198 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 648757010199 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 648757010200 Protein of unknown function DUF58; Region: DUF58; pfam01882 648757010201 MoxR-like ATPases [General function prediction only]; Region: COG0714 648757010202 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 648757010203 Walker A motif; other site 648757010204 ATP binding site [chemical binding]; other site 648757010205 Walker B motif; other site 648757010206 arginine finger; other site 648757010207 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 648757010208 putative active site [active] 648757010209 putative CoA binding site [chemical binding]; other site 648757010210 nudix motif; other site 648757010211 metal binding site [ion binding]; metal-binding site 648757010212 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 648757010213 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 648757010214 active site 648757010215 NTP binding site [chemical binding]; other site 648757010216 metal binding triad [ion binding]; metal-binding site 648757010217 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 648757010218 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239