-- dump date 20140619_235106 -- class Genbank::misc_feature -- table misc_feature_note -- id note 452638000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 452638000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 452638000003 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 452638000004 Walker A motif; other site 452638000005 ATP binding site [chemical binding]; other site 452638000006 Walker B motif; other site 452638000007 arginine finger; other site 452638000008 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 452638000009 DnaA box-binding interface [nucleotide binding]; other site 452638000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 452638000011 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 452638000012 putative DNA binding surface [nucleotide binding]; other site 452638000013 dimer interface [polypeptide binding]; other site 452638000014 beta-clamp/clamp loader binding surface; other site 452638000015 beta-clamp/translesion DNA polymerase binding surface; other site 452638000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 452638000017 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 452638000018 ATP binding site [chemical binding]; other site 452638000019 Mg2+ binding site [ion binding]; other site 452638000020 G-X-G motif; other site 452638000021 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 452638000022 anchoring element; other site 452638000023 dimer interface [polypeptide binding]; other site 452638000024 ATP binding site [chemical binding]; other site 452638000025 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 452638000026 active site 452638000027 putative metal-binding site [ion binding]; other site 452638000028 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 452638000029 Proteins containing SET domain [General function prediction only]; Region: COG2940 452638000030 SET domain; Region: SET; pfam00856 452638000031 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 452638000032 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 452638000033 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 452638000034 Walker A/P-loop; other site 452638000035 ATP binding site [chemical binding]; other site 452638000036 Q-loop/lid; other site 452638000037 ABC transporter signature motif; other site 452638000038 Walker B; other site 452638000039 D-loop; other site 452638000040 H-loop/switch region; other site 452638000041 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 452638000042 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 452638000043 Walker A/P-loop; other site 452638000044 ATP binding site [chemical binding]; other site 452638000045 Q-loop/lid; other site 452638000046 ABC transporter signature motif; other site 452638000047 Walker B; other site 452638000048 D-loop; other site 452638000049 H-loop/switch region; other site 452638000050 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 452638000051 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 452638000052 putative ligand binding site [chemical binding]; other site 452638000053 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 452638000054 TM-ABC transporter signature motif; other site 452638000055 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 452638000056 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 452638000057 TM-ABC transporter signature motif; other site 452638000058 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 452638000059 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 452638000060 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 452638000061 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 452638000062 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 452638000063 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 452638000064 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 452638000065 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 452638000066 P-loop; other site 452638000067 Magnesium ion binding site [ion binding]; other site 452638000068 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 452638000069 ParB-like nuclease domain; Region: ParBc; pfam02195 452638000070 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 452638000071 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 452638000072 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 452638000073 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 452638000074 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 452638000075 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 452638000076 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 452638000077 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 452638000078 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 452638000079 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 452638000080 beta subunit interaction interface [polypeptide binding]; other site 452638000081 Walker A motif; other site 452638000082 ATP binding site [chemical binding]; other site 452638000083 Walker B motif; other site 452638000084 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 452638000085 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 452638000086 core domain interface [polypeptide binding]; other site 452638000087 delta subunit interface [polypeptide binding]; other site 452638000088 epsilon subunit interface [polypeptide binding]; other site 452638000089 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 452638000090 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 452638000091 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 452638000092 alpha subunit interaction interface [polypeptide binding]; other site 452638000093 Walker A motif; other site 452638000094 ATP binding site [chemical binding]; other site 452638000095 Walker B motif; other site 452638000096 inhibitor binding site; inhibition site 452638000097 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 452638000098 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 452638000099 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 452638000100 gamma subunit interface [polypeptide binding]; other site 452638000101 epsilon subunit interface [polypeptide binding]; other site 452638000102 LBP interface [polypeptide binding]; other site 452638000103 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 452638000104 substrate binding site [chemical binding]; other site 452638000105 active site 452638000106 primosome assembly protein PriA; Validated; Region: PRK05580 452638000107 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 452638000108 ATP binding site [chemical binding]; other site 452638000109 putative Mg++ binding site [ion binding]; other site 452638000110 helicase superfamily c-terminal domain; Region: HELICc; smart00490 452638000111 ATP-binding site [chemical binding]; other site 452638000112 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 452638000113 lipoyl attachment site [posttranslational modification]; other site 452638000114 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 452638000115 Fatty acid desaturase; Region: FA_desaturase; pfam00487 452638000116 putative di-iron ligands [ion binding]; other site 452638000117 Cytochrome c; Region: Cytochrom_C; cl11414 452638000118 Predicted methyltransferases [General function prediction only]; Region: COG0313 452638000119 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 452638000120 putative SAM binding site [chemical binding]; other site 452638000121 putative homodimer interface [polypeptide binding]; other site 452638000122 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 452638000123 dimer interface [polypeptide binding]; other site 452638000124 active site 452638000125 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 452638000126 BON domain; Region: BON; pfam04972 452638000127 BON domain; Region: BON; pfam04972 452638000128 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 452638000129 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452638000130 Coenzyme A binding pocket [chemical binding]; other site 452638000131 elongation factor Tu; Reviewed; Region: PRK00049 452638000132 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 452638000133 G1 box; other site 452638000134 GEF interaction site [polypeptide binding]; other site 452638000135 GTP/Mg2+ binding site [chemical binding]; other site 452638000136 Switch I region; other site 452638000137 G2 box; other site 452638000138 G3 box; other site 452638000139 Switch II region; other site 452638000140 G4 box; other site 452638000141 G5 box; other site 452638000142 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 452638000143 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 452638000144 Antibiotic Binding Site [chemical binding]; other site 452638000145 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 452638000146 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 452638000147 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 452638000148 putative homodimer interface [polypeptide binding]; other site 452638000149 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 452638000150 heterodimer interface [polypeptide binding]; other site 452638000151 homodimer interface [polypeptide binding]; other site 452638000152 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 452638000153 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 452638000154 23S rRNA interface [nucleotide binding]; other site 452638000155 L7/L12 interface [polypeptide binding]; other site 452638000156 putative thiostrepton binding site; other site 452638000157 L25 interface [polypeptide binding]; other site 452638000158 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 452638000159 mRNA/rRNA interface [nucleotide binding]; other site 452638000160 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 452638000161 23S rRNA interface [nucleotide binding]; other site 452638000162 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 452638000163 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 452638000164 core dimer interface [polypeptide binding]; other site 452638000165 peripheral dimer interface [polypeptide binding]; other site 452638000166 L10 interface [polypeptide binding]; other site 452638000167 L11 interface [polypeptide binding]; other site 452638000168 putative EF-Tu interaction site [polypeptide binding]; other site 452638000169 putative EF-G interaction site [polypeptide binding]; other site 452638000170 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 452638000171 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 452638000172 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 452638000173 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 452638000174 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 452638000175 RPB3 interaction site [polypeptide binding]; other site 452638000176 RPB1 interaction site [polypeptide binding]; other site 452638000177 RPB11 interaction site [polypeptide binding]; other site 452638000178 RPB10 interaction site [polypeptide binding]; other site 452638000179 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 452638000180 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 452638000181 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 452638000182 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 452638000183 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 452638000184 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 452638000185 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 452638000186 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 452638000187 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 452638000188 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 452638000189 DNA binding site [nucleotide binding] 452638000190 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 452638000191 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 452638000192 S17 interaction site [polypeptide binding]; other site 452638000193 S8 interaction site; other site 452638000194 16S rRNA interaction site [nucleotide binding]; other site 452638000195 streptomycin interaction site [chemical binding]; other site 452638000196 23S rRNA interaction site [nucleotide binding]; other site 452638000197 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 452638000198 30S ribosomal protein S7; Validated; Region: PRK05302 452638000199 elongation factor G; Reviewed; Region: PRK00007 452638000200 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 452638000201 G1 box; other site 452638000202 putative GEF interaction site [polypeptide binding]; other site 452638000203 GTP/Mg2+ binding site [chemical binding]; other site 452638000204 Switch I region; other site 452638000205 G2 box; other site 452638000206 G3 box; other site 452638000207 Switch II region; other site 452638000208 G4 box; other site 452638000209 G5 box; other site 452638000210 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 452638000211 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 452638000212 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 452638000213 elongation factor Tu; Reviewed; Region: PRK00049 452638000214 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 452638000215 G1 box; other site 452638000216 GEF interaction site [polypeptide binding]; other site 452638000217 GTP/Mg2+ binding site [chemical binding]; other site 452638000218 Switch I region; other site 452638000219 G2 box; other site 452638000220 G3 box; other site 452638000221 Switch II region; other site 452638000222 G4 box; other site 452638000223 G5 box; other site 452638000224 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 452638000225 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 452638000226 Antibiotic Binding Site [chemical binding]; other site 452638000227 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 452638000228 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 452638000229 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 452638000230 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 452638000231 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 452638000232 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 452638000233 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 452638000234 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 452638000235 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 452638000236 putative translocon binding site; other site 452638000237 protein-rRNA interface [nucleotide binding]; other site 452638000238 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 452638000239 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 452638000240 G-X-X-G motif; other site 452638000241 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 452638000242 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 452638000243 23S rRNA interface [nucleotide binding]; other site 452638000244 5S rRNA interface [nucleotide binding]; other site 452638000245 putative antibiotic binding site [chemical binding]; other site 452638000246 L25 interface [polypeptide binding]; other site 452638000247 L27 interface [polypeptide binding]; other site 452638000248 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 452638000249 putative translocon interaction site; other site 452638000250 23S rRNA interface [nucleotide binding]; other site 452638000251 signal recognition particle (SRP54) interaction site; other site 452638000252 L23 interface [polypeptide binding]; other site 452638000253 trigger factor interaction site; other site 452638000254 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 452638000255 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 452638000256 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 452638000257 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 452638000258 RNA binding site [nucleotide binding]; other site 452638000259 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 452638000260 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 452638000261 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 452638000262 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 452638000263 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 452638000264 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 452638000265 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 452638000266 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 452638000267 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 452638000268 5S rRNA interface [nucleotide binding]; other site 452638000269 23S rRNA interface [nucleotide binding]; other site 452638000270 L5 interface [polypeptide binding]; other site 452638000271 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 452638000272 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 452638000273 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 452638000274 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 452638000275 23S rRNA binding site [nucleotide binding]; other site 452638000276 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 452638000277 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 452638000278 SecY translocase; Region: SecY; pfam00344 452638000279 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 452638000280 rRNA binding site [nucleotide binding]; other site 452638000281 predicted 30S ribosome binding site; other site 452638000282 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 452638000283 30S ribosomal protein S13; Region: bact_S13; TIGR03631 452638000284 30S ribosomal protein S11; Validated; Region: PRK05309 452638000285 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 452638000286 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 452638000287 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 452638000288 RNA binding surface [nucleotide binding]; other site 452638000289 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 452638000290 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 452638000291 alphaNTD homodimer interface [polypeptide binding]; other site 452638000292 alphaNTD - beta interaction site [polypeptide binding]; other site 452638000293 alphaNTD - beta' interaction site [polypeptide binding]; other site 452638000294 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 452638000295 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 452638000296 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 452638000297 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 452638000298 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 452638000299 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 452638000300 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 452638000301 DsbD alpha interface [polypeptide binding]; other site 452638000302 catalytic residues [active] 452638000303 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 452638000304 dimer interface [polypeptide binding]; other site 452638000305 active site 452638000306 aspartate-rich active site metal binding site; other site 452638000307 allosteric magnesium binding site [ion binding]; other site 452638000308 Schiff base residues; other site 452638000309 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 452638000310 G1 box; other site 452638000311 GTP/Mg2+ binding site [chemical binding]; other site 452638000312 Switch I region; other site 452638000313 G2 box; other site 452638000314 G3 box; other site 452638000315 Switch II region; other site 452638000316 G4 box; other site 452638000317 G5 box; other site 452638000318 Cytochrome c553 [Energy production and conversion]; Region: COG2863 452638000319 Cytochrome c; Region: Cytochrom_C; cl11414 452638000320 diaminopimelate decarboxylase; Region: lysA; TIGR01048 452638000321 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 452638000322 active site 452638000323 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 452638000324 substrate binding site [chemical binding]; other site 452638000325 catalytic residues [active] 452638000326 dimer interface [polypeptide binding]; other site 452638000327 Frataxin-like domain; Region: Frataxin_Cyay; pfam01491 452638000328 putative iron binding site [ion binding]; other site 452638000329 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 452638000330 active site 452638000331 dimer interface [polypeptide binding]; other site 452638000332 metal binding site [ion binding]; metal-binding site 452638000333 shikimate kinase; Reviewed; Region: aroK; PRK00131 452638000334 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 452638000335 ADP binding site [chemical binding]; other site 452638000336 magnesium binding site [ion binding]; other site 452638000337 putative shikimate binding site; other site 452638000338 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 452638000339 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 452638000340 Transglycosylase; Region: Transgly; pfam00912 452638000341 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 452638000342 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 452638000343 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 452638000344 Walker A/P-loop; other site 452638000345 ATP binding site [chemical binding]; other site 452638000346 Q-loop/lid; other site 452638000347 ABC transporter signature motif; other site 452638000348 Walker B; other site 452638000349 D-loop; other site 452638000350 H-loop/switch region; other site 452638000351 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 452638000352 Permease; Region: Permease; pfam02405 452638000353 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 452638000354 mce related protein; Region: MCE; pfam02470 452638000355 VacJ like lipoprotein; Region: VacJ; cl01073 452638000356 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 452638000357 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 452638000358 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 452638000359 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 452638000360 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 452638000361 hinge; other site 452638000362 active site 452638000363 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 452638000364 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 452638000365 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 452638000366 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 452638000367 NAD binding site [chemical binding]; other site 452638000368 dimerization interface [polypeptide binding]; other site 452638000369 product binding site; other site 452638000370 substrate binding site [chemical binding]; other site 452638000371 zinc binding site [ion binding]; other site 452638000372 catalytic residues [active] 452638000373 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 452638000374 putative active site pocket [active] 452638000375 4-fold oligomerization interface [polypeptide binding]; other site 452638000376 metal binding residues [ion binding]; metal-binding site 452638000377 3-fold/trimer interface [polypeptide binding]; other site 452638000378 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 452638000379 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 452638000380 putative active site [active] 452638000381 oxyanion strand; other site 452638000382 catalytic triad [active] 452638000383 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 452638000384 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 452638000385 catalytic residues [active] 452638000386 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 452638000387 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 452638000388 substrate binding site [chemical binding]; other site 452638000389 glutamase interaction surface [polypeptide binding]; other site 452638000390 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 452638000391 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 452638000392 metal binding site [ion binding]; metal-binding site 452638000393 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 452638000394 nucleotide binding site/active site [active] 452638000395 HIT family signature motif; other site 452638000396 catalytic residue [active] 452638000397 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 452638000398 sec-independent translocase; Provisional; Region: tatB; PRK01919 452638000399 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 452638000400 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 452638000401 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 452638000402 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 452638000403 eyelet of channel; other site 452638000404 trimer interface [polypeptide binding]; other site 452638000405 TPR repeat; Region: TPR_11; pfam13414 452638000406 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 452638000407 binding surface 452638000408 TPR motif; other site 452638000409 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 452638000410 dimer interface [polypeptide binding]; other site 452638000411 conserved gate region; other site 452638000412 putative PBP binding loops; other site 452638000413 ABC-ATPase subunit interface; other site 452638000414 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 452638000415 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 452638000416 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 452638000417 protein binding site [polypeptide binding]; other site 452638000418 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 452638000419 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 452638000420 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 452638000421 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 452638000422 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 452638000423 [2Fe-2S] cluster binding site [ion binding]; other site 452638000424 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 452638000425 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 452638000426 Qi binding site; other site 452638000427 intrachain domain interface; other site 452638000428 interchain domain interface [polypeptide binding]; other site 452638000429 heme bH binding site [chemical binding]; other site 452638000430 heme bL binding site [chemical binding]; other site 452638000431 Qo binding site; other site 452638000432 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 452638000433 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 452638000434 stringent starvation protein A; Provisional; Region: sspA; PRK09481 452638000435 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 452638000436 C-terminal domain interface [polypeptide binding]; other site 452638000437 putative GSH binding site (G-site) [chemical binding]; other site 452638000438 dimer interface [polypeptide binding]; other site 452638000439 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 452638000440 dimer interface [polypeptide binding]; other site 452638000441 N-terminal domain interface [polypeptide binding]; other site 452638000442 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 452638000443 TPR repeat; Region: TPR_11; pfam13414 452638000444 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 452638000445 binding surface 452638000446 TPR motif; other site 452638000447 TPR repeat; Region: TPR_11; pfam13414 452638000448 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 452638000449 RmuC family; Region: RmuC; pfam02646 452638000450 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 452638000451 putative GSH binding site [chemical binding]; other site 452638000452 catalytic residues [active] 452638000453 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 452638000454 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 452638000455 S-adenosylmethionine binding site [chemical binding]; other site 452638000456 peptide chain release factor 1; Validated; Region: prfA; PRK00591 452638000457 This domain is found in peptide chain release factors; Region: PCRF; smart00937 452638000458 RF-1 domain; Region: RF-1; pfam00472 452638000459 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 452638000460 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 452638000461 tRNA; other site 452638000462 putative tRNA binding site [nucleotide binding]; other site 452638000463 putative NADP binding site [chemical binding]; other site 452638000464 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 452638000465 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 452638000466 ligand binding site [chemical binding]; other site 452638000467 active site 452638000468 UGI interface [polypeptide binding]; other site 452638000469 catalytic site [active] 452638000470 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 452638000471 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 452638000472 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 452638000473 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 452638000474 dimerization domain [polypeptide binding]; other site 452638000475 dimer interface [polypeptide binding]; other site 452638000476 catalytic residues [active] 452638000477 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 452638000478 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 452638000479 GTP-binding protein YchF; Reviewed; Region: PRK09601 452638000480 YchF GTPase; Region: YchF; cd01900 452638000481 G1 box; other site 452638000482 GTP/Mg2+ binding site [chemical binding]; other site 452638000483 Switch I region; other site 452638000484 G2 box; other site 452638000485 Switch II region; other site 452638000486 G3 box; other site 452638000487 G4 box; other site 452638000488 G5 box; other site 452638000489 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 452638000490 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 452638000491 active site 452638000492 ribulose/triose binding site [chemical binding]; other site 452638000493 phosphate binding site [ion binding]; other site 452638000494 substrate (anthranilate) binding pocket [chemical binding]; other site 452638000495 product (indole) binding pocket [chemical binding]; other site 452638000496 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 452638000497 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 452638000498 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 452638000499 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 452638000500 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 452638000501 glutamine binding [chemical binding]; other site 452638000502 catalytic triad [active] 452638000503 anthranilate synthase component I; Provisional; Region: PRK13565 452638000504 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 452638000505 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 452638000506 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 452638000507 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 452638000508 substrate binding site [chemical binding]; other site 452638000509 hexamer interface [polypeptide binding]; other site 452638000510 metal binding site [ion binding]; metal-binding site 452638000511 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 452638000512 MltA specific insert domain; Region: MltA; smart00925 452638000513 3D domain; Region: 3D; pfam06725 452638000514 enoyl-CoA hydratase; Provisional; Region: PRK05862 452638000515 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 452638000516 substrate binding site [chemical binding]; other site 452638000517 oxyanion hole (OAH) forming residues; other site 452638000518 trimer interface [polypeptide binding]; other site 452638000519 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 452638000520 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 452638000521 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452638000522 catalytic residue [active] 452638000523 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 452638000524 diiron binding motif [ion binding]; other site 452638000525 MraW methylase family; Region: Methyltransf_5; cl17771 452638000526 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 452638000527 Cell division protein FtsL; Region: FtsL; cl11433 452638000528 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 452638000529 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 452638000530 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 452638000531 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 452638000532 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 452638000533 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452638000534 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 452638000535 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 452638000536 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 452638000537 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452638000538 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 452638000539 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 452638000540 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 452638000541 Mg++ binding site [ion binding]; other site 452638000542 putative catalytic motif [active] 452638000543 putative substrate binding site [chemical binding]; other site 452638000544 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 452638000545 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452638000546 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 452638000547 cell division protein FtsW; Region: ftsW; TIGR02614 452638000548 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 452638000549 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 452638000550 active site 452638000551 homodimer interface [polypeptide binding]; other site 452638000552 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 452638000553 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 452638000554 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452638000555 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 452638000556 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 452638000557 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 452638000558 ATP-grasp domain; Region: ATP-grasp_4; cl17255 452638000559 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 452638000560 Cell division protein FtsQ; Region: FtsQ; pfam03799 452638000561 cell division protein FtsA; Region: ftsA; TIGR01174 452638000562 Cell division protein FtsA; Region: FtsA; smart00842 452638000563 Cell division protein FtsA; Region: FtsA; pfam14450 452638000564 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 452638000565 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 452638000566 nucleotide binding site [chemical binding]; other site 452638000567 SulA interaction site; other site 452638000568 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 452638000569 catalytic triad [active] 452638000570 dimer interface [polypeptide binding]; other site 452638000571 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 452638000572 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 452638000573 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 452638000574 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 452638000575 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 452638000576 SEC-C motif; Region: SEC-C; pfam02810 452638000577 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 452638000578 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 452638000579 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452638000580 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 452638000581 heterotetramer interface [polypeptide binding]; other site 452638000582 active site pocket [active] 452638000583 cleavage site 452638000584 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 452638000585 active site 452638000586 8-oxo-dGMP binding site [chemical binding]; other site 452638000587 nudix motif; other site 452638000588 metal binding site [ion binding]; metal-binding site 452638000589 hypothetical protein; Provisional; Region: PRK05287 452638000590 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 452638000591 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 452638000592 CoA-binding site [chemical binding]; other site 452638000593 ATP-binding [chemical binding]; other site 452638000594 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 452638000595 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 452638000596 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 452638000597 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 452638000598 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 452638000599 Walker A motif; other site 452638000600 ATP binding site [chemical binding]; other site 452638000601 Walker B motif; other site 452638000602 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 452638000603 Domain of unknown function DUF21; Region: DUF21; pfam01595 452638000604 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 452638000605 Transporter associated domain; Region: CorC_HlyC; smart01091 452638000606 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 452638000607 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 452638000608 DNA binding site [nucleotide binding] 452638000609 active site 452638000610 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 452638000611 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 452638000612 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 452638000613 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 452638000614 substrate binding pocket [chemical binding]; other site 452638000615 chain length determination region; other site 452638000616 substrate-Mg2+ binding site; other site 452638000617 catalytic residues [active] 452638000618 aspartate-rich region 1; other site 452638000619 active site lid residues [active] 452638000620 aspartate-rich region 2; other site 452638000621 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 452638000622 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 452638000623 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 452638000624 GTPase CgtA; Reviewed; Region: obgE; PRK12299 452638000625 GTP1/OBG; Region: GTP1_OBG; pfam01018 452638000626 Obg GTPase; Region: Obg; cd01898 452638000627 G1 box; other site 452638000628 GTP/Mg2+ binding site [chemical binding]; other site 452638000629 Switch I region; other site 452638000630 G2 box; other site 452638000631 G3 box; other site 452638000632 Switch II region; other site 452638000633 G4 box; other site 452638000634 G5 box; other site 452638000635 gamma-glutamyl kinase; Provisional; Region: PRK05429 452638000636 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 452638000637 nucleotide binding site [chemical binding]; other site 452638000638 homotetrameric interface [polypeptide binding]; other site 452638000639 putative phosphate binding site [ion binding]; other site 452638000640 putative allosteric binding site; other site 452638000641 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 452638000642 putative active site [active] 452638000643 Ap4A binding site [chemical binding]; other site 452638000644 nudix motif; other site 452638000645 putative metal binding site [ion binding]; other site 452638000646 prolyl-tRNA synthetase; Provisional; Region: PRK09194 452638000647 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_prok; cd00779 452638000648 dimer interface [polypeptide binding]; other site 452638000649 motif 1; other site 452638000650 active site 452638000651 motif 2; other site 452638000652 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 452638000653 putative deacylase active site [active] 452638000654 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 452638000655 active site 452638000656 motif 3; other site 452638000657 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 452638000658 anticodon binding site; other site 452638000659 signal recognition particle protein; Provisional; Region: PRK10867 452638000660 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 452638000661 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 452638000662 P loop; other site 452638000663 GTP binding site [chemical binding]; other site 452638000664 Signal peptide binding domain; Region: SRP_SPB; pfam02978 452638000665 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 452638000666 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 452638000667 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 452638000668 amidase catalytic site [active] 452638000669 Zn binding residues [ion binding]; other site 452638000670 substrate binding site [chemical binding]; other site 452638000671 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 452638000672 ATP cone domain; Region: ATP-cone; pfam03477 452638000673 Class I ribonucleotide reductase; Region: RNR_I; cd01679 452638000674 active site 452638000675 dimer interface [polypeptide binding]; other site 452638000676 catalytic residues [active] 452638000677 effector binding site; other site 452638000678 R2 peptide binding site; other site 452638000679 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 452638000680 dimer interface [polypeptide binding]; other site 452638000681 putative radical transfer pathway; other site 452638000682 diiron center [ion binding]; other site 452638000683 tyrosyl radical; other site 452638000684 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 452638000685 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 452638000686 substrate binding site [chemical binding]; other site 452638000687 ATP binding site [chemical binding]; other site 452638000688 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 452638000689 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 452638000690 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 452638000691 S-adenosylmethionine binding site [chemical binding]; other site 452638000692 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 452638000693 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 452638000694 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 452638000695 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 452638000696 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 452638000697 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 452638000698 carboxyltransferase (CT) interaction site; other site 452638000699 biotinylation site [posttranslational modification]; other site 452638000700 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 452638000701 Dehydroquinase class II; Region: DHquinase_II; pfam01220 452638000702 trimer interface [polypeptide binding]; other site 452638000703 active site 452638000704 dimer interface [polypeptide binding]; other site 452638000705 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 452638000706 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 452638000707 catalytic residues [active] 452638000708 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 452638000709 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 452638000710 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452638000711 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 452638000712 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 452638000713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452638000714 NAD(P) binding site [chemical binding]; other site 452638000715 active site 452638000716 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 452638000717 RNB domain; Region: RNB; pfam00773 452638000718 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 452638000719 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 452638000720 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 452638000721 shikimate binding site; other site 452638000722 NAD(P) binding site [chemical binding]; other site 452638000723 Transglycosylase; Region: Transgly; cl17702 452638000724 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 452638000725 active site 452638000726 dimer interface [polypeptide binding]; other site 452638000727 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 452638000728 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 452638000729 Cl binding site [ion binding]; other site 452638000730 oligomer interface [polypeptide binding]; other site 452638000731 Competence-damaged protein; Region: CinA; cl00666 452638000732 Competence-damaged protein; Region: CinA; pfam02464 452638000733 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 452638000734 tetramer interfaces [polypeptide binding]; other site 452638000735 binuclear metal-binding site [ion binding]; other site 452638000736 Barstar (barnase inhibitor); Region: Barstar; pfam01337 452638000737 RNAase interaction site [polypeptide binding]; other site 452638000738 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 452638000739 RNA methyltransferase, RsmE family; Region: TIGR00046 452638000740 transketolase; Reviewed; Region: PRK12753 452638000741 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 452638000742 TPP-binding site [chemical binding]; other site 452638000743 dimer interface [polypeptide binding]; other site 452638000744 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 452638000745 PYR/PP interface [polypeptide binding]; other site 452638000746 dimer interface [polypeptide binding]; other site 452638000747 TPP binding site [chemical binding]; other site 452638000748 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 452638000749 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 452638000750 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 452638000751 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 452638000752 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 452638000753 ferric uptake regulator; Provisional; Region: fur; PRK09462 452638000754 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 452638000755 metal binding site 2 [ion binding]; metal-binding site 452638000756 putative DNA binding helix; other site 452638000757 metal binding site 1 [ion binding]; metal-binding site 452638000758 dimer interface [polypeptide binding]; other site 452638000759 structural Zn2+ binding site [ion binding]; other site 452638000760 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 452638000761 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 452638000762 dihydrodipicolinate reductase; Provisional; Region: PRK00048 452638000763 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 452638000764 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 452638000765 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 452638000766 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 452638000767 HIGH motif; other site 452638000768 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 452638000769 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452638000770 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452638000771 active site 452638000772 KMSKS motif; other site 452638000773 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 452638000774 tRNA binding surface [nucleotide binding]; other site 452638000775 Lipopolysaccharide-assembly; Region: LptE; pfam04390 452638000776 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 452638000777 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 452638000778 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 452638000779 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 452638000780 putative catalytic cysteine [active] 452638000781 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 452638000782 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 452638000783 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 452638000784 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 452638000785 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 452638000786 Rubredoxin [Energy production and conversion]; Region: COG1773 452638000787 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 452638000788 iron binding site [ion binding]; other site 452638000789 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 452638000790 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 452638000791 inhibitor-cofactor binding pocket; inhibition site 452638000792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452638000793 catalytic residue [active] 452638000794 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 452638000795 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 452638000796 active site 452638000797 metal binding site [ion binding]; metal-binding site 452638000798 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 452638000799 DNA photolyase; Region: DNA_photolyase; pfam00875 452638000800 hypothetical protein; Validated; Region: PRK00228 452638000801 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 452638000802 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 452638000803 active site 452638000804 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 452638000805 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 452638000806 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 452638000807 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 452638000808 Glycosyltransferase family 17; Region: Glyco_transf_17; pfam04724 452638000809 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 452638000810 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 452638000811 NAD binding site [chemical binding]; other site 452638000812 substrate binding site [chemical binding]; other site 452638000813 homodimer interface [polypeptide binding]; other site 452638000814 active site 452638000815 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 452638000816 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 452638000817 NADP binding site [chemical binding]; other site 452638000818 active site 452638000819 putative substrate binding site [chemical binding]; other site 452638000820 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 452638000821 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 452638000822 substrate binding site; other site 452638000823 tetramer interface; other site 452638000824 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 452638000825 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 452638000826 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 452638000827 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 452638000828 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 452638000829 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 452638000830 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 452638000831 succinic semialdehyde dehydrogenase; Region: PLN02278 452638000832 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 452638000833 tetramerization interface [polypeptide binding]; other site 452638000834 NAD(P) binding site [chemical binding]; other site 452638000835 catalytic residues [active] 452638000836 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 452638000837 putative RNA binding site [nucleotide binding]; other site 452638000838 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 452638000839 homopentamer interface [polypeptide binding]; other site 452638000840 active site 452638000841 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 452638000842 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 452638000843 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 452638000844 dimerization interface [polypeptide binding]; other site 452638000845 active site 452638000846 putative major pilin subunit; Provisional; Region: PRK10574 452638000847 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 452638000848 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 452638000849 catalytic motif [active] 452638000850 Zn binding site [ion binding]; other site 452638000851 RibD C-terminal domain; Region: RibD_C; cl17279 452638000852 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 452638000853 Lumazine binding domain; Region: Lum_binding; pfam00677 452638000854 Lumazine binding domain; Region: Lum_binding; pfam00677 452638000855 Predicted PP-loop superfamily ATPase [General function prediction only]; Region: COG0603 452638000856 Ligand Binding Site [chemical binding]; other site 452638000857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 452638000858 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 452638000859 ligand binding site [chemical binding]; other site 452638000860 translocation protein TolB; Provisional; Region: tolB; PRK02889 452638000861 TolB amino-terminal domain; Region: TolB_N; pfam04052 452638000862 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452638000863 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452638000864 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 452638000865 TolA protein; Region: tolA_full; TIGR02794 452638000866 TonB C terminal; Region: TonB_2; pfam13103 452638000867 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 452638000868 TolR protein; Region: tolR; TIGR02801 452638000869 TolQ protein; Region: tolQ; TIGR02796 452638000870 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 452638000871 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 452638000872 dimer interface [polypeptide binding]; other site 452638000873 active site 452638000874 glycine-pyridoxal phosphate binding site [chemical binding]; other site 452638000875 folate binding site [chemical binding]; other site 452638000876 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 452638000877 Transcription factor S-II (TFIIS); Region: TFIIS_C; cl02609 452638000878 ATP cone domain; Region: ATP-cone; pfam03477 452638000879 adenylate kinase; Reviewed; Region: adk; PRK00279 452638000880 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 452638000881 AMP-binding site [chemical binding]; other site 452638000882 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 452638000883 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 452638000884 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 452638000885 Ligand binding site; other site 452638000886 oligomer interface; other site 452638000887 Uncharacterized conserved protein [Function unknown]; Region: COG2835 452638000888 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 452638000889 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 452638000890 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 452638000891 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 452638000892 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 452638000893 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 452638000894 generic binding surface II; other site 452638000895 generic binding surface I; other site 452638000896 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 452638000897 FAD binding domain; Region: FAD_binding_4; pfam01565 452638000898 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 452638000899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 452638000900 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 452638000901 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 452638000902 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 452638000903 active site 452638000904 DNA binding site [nucleotide binding] 452638000905 Int/Topo IB signature motif; other site 452638000906 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 452638000907 Predicted membrane protein [Function unknown]; Region: COG3686 452638000908 High potential iron-sulfur protein; Region: HIPIP; pfam01355 452638000909 HPP family; Region: HPP; pfam04982 452638000910 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 452638000911 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 452638000912 Substrate binding site; other site 452638000913 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 452638000914 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 452638000915 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 452638000916 substrate binding site; other site 452638000917 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 452638000918 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 452638000919 NAD binding site [chemical binding]; other site 452638000920 homotetramer interface [polypeptide binding]; other site 452638000921 homodimer interface [polypeptide binding]; other site 452638000922 substrate binding site [chemical binding]; other site 452638000923 active site 452638000924 Sialic acid synthase [Cell envelope biogenesis, outer membrane]; Region: SpsE; COG2089 452638000925 NeuB family; Region: NeuB; pfam03102 452638000926 This domain family includes a range of different proteins. Such as antifreeze proteins and flagellar FlgA proteins, and CpaB pilus proteins; Region: SAF; smart00858 452638000927 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 452638000928 classical (c) SDRs; Region: SDR_c; cd05233 452638000929 NAD(P) binding site [chemical binding]; other site 452638000930 active site 452638000931 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like1; cd08196 452638000932 putative active site [active] 452638000933 metal binding site [ion binding]; metal-binding site 452638000934 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 452638000935 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452638000936 NAD(P) binding site [chemical binding]; other site 452638000937 active site 452638000938 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 452638000939 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 452638000940 PYR/PP interface [polypeptide binding]; other site 452638000941 dimer interface [polypeptide binding]; other site 452638000942 TPP binding site [chemical binding]; other site 452638000943 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 452638000944 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 452638000945 TPP-binding site [chemical binding]; other site 452638000946 Predicted membrane protein [Function unknown]; Region: COG2246 452638000947 GtrA-like protein; Region: GtrA; pfam04138 452638000948 Methyltransferase domain; Region: Methyltransf_23; pfam13489 452638000949 Methyltransferase domain; Region: Methyltransf_12; pfam08242 452638000950 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 452638000951 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 452638000952 Ligand binding site; other site 452638000953 Putative Catalytic site; other site 452638000954 DXD motif; other site 452638000955 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 452638000956 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 452638000957 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 452638000958 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 452638000959 Probable Catalytic site; other site 452638000960 metal-binding site 452638000961 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 452638000962 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 452638000963 Mg++ binding site [ion binding]; other site 452638000964 putative catalytic motif [active] 452638000965 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 452638000966 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 452638000967 dimerization interface [polypeptide binding]; other site 452638000968 putative DNA binding site [nucleotide binding]; other site 452638000969 putative Zn2+ binding site [ion binding]; other site 452638000970 FMN-binding domain; Region: FMN_bind; pfam04205 452638000971 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 452638000972 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 452638000973 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 452638000974 active site 452638000975 substrate binding site [chemical binding]; other site 452638000976 Mg2+ binding site [ion binding]; other site 452638000977 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 452638000978 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 452638000979 N-acetyl-D-glucosamine binding site [chemical binding]; other site 452638000980 catalytic residue [active] 452638000981 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 452638000982 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 452638000983 Sensors of blue-light using FAD; Region: BLUF; pfam04940 452638000984 TMAO/DMSO reductase; Reviewed; Region: PRK05363 452638000985 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 452638000986 Moco binding site; other site 452638000987 metal coordination site [ion binding]; other site 452638000988 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 452638000989 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 452638000990 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 452638000991 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 452638000992 active site 452638000993 uracil binding [chemical binding]; other site 452638000994 pterin-4-alpha-carbinolamine dehydratase; Validated; Region: phhB; PRK00823 452638000995 aromatic arch; other site 452638000996 DCoH dimer interaction site [polypeptide binding]; other site 452638000997 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 452638000998 DCoH tetramer interaction site [polypeptide binding]; other site 452638000999 substrate binding site [chemical binding]; other site 452638001000 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 452638001001 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 452638001002 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 452638001003 folate binding site [chemical binding]; other site 452638001004 NADP+ binding site [chemical binding]; other site 452638001005 thymidylate synthase; Reviewed; Region: thyA; PRK01827 452638001006 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 452638001007 dimerization interface [polypeptide binding]; other site 452638001008 active site 452638001009 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 452638001010 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452638001011 Ferredoxin [Energy production and conversion]; Region: COG1146 452638001012 4Fe-4S binding domain; Region: Fer4; pfam00037 452638001013 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 452638001014 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 452638001015 MPT binding site; other site 452638001016 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 452638001017 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 452638001018 GTP binding site; other site 452638001019 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 452638001020 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 452638001021 homodimer interface [polypeptide binding]; other site 452638001022 oligonucleotide binding site [chemical binding]; other site 452638001023 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 452638001024 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 452638001025 RNA binding surface [nucleotide binding]; other site 452638001026 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 452638001027 active site 452638001028 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 452638001029 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 452638001030 motif II; other site 452638001031 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 452638001032 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 452638001033 tandem repeat interface [polypeptide binding]; other site 452638001034 oligomer interface [polypeptide binding]; other site 452638001035 active site residues [active] 452638001036 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 452638001037 putative SAM binding site [chemical binding]; other site 452638001038 homodimer interface [polypeptide binding]; other site 452638001039 Maf-like protein; Region: Maf; pfam02545 452638001040 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 452638001041 active site 452638001042 dimer interface [polypeptide binding]; other site 452638001043 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 452638001044 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 452638001045 putative phosphate acyltransferase; Provisional; Region: PRK05331 452638001046 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 452638001047 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 452638001048 dimer interface [polypeptide binding]; other site 452638001049 active site 452638001050 CoA binding pocket [chemical binding]; other site 452638001051 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 452638001052 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 452638001053 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 452638001054 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 452638001055 NAD(P) binding site [chemical binding]; other site 452638001056 homotetramer interface [polypeptide binding]; other site 452638001057 homodimer interface [polypeptide binding]; other site 452638001058 active site 452638001059 acyl carrier protein; Provisional; Region: acpP; PRK00982 452638001060 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 452638001061 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 452638001062 dimer interface [polypeptide binding]; other site 452638001063 active site 452638001064 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 452638001065 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 452638001066 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 452638001067 protein binding site [polypeptide binding]; other site 452638001068 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 452638001069 protein binding site [polypeptide binding]; other site 452638001070 GTP-binding protein LepA; Provisional; Region: PRK05433 452638001071 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 452638001072 G1 box; other site 452638001073 putative GEF interaction site [polypeptide binding]; other site 452638001074 GTP/Mg2+ binding site [chemical binding]; other site 452638001075 Switch I region; other site 452638001076 G2 box; other site 452638001077 G3 box; other site 452638001078 Switch II region; other site 452638001079 G4 box; other site 452638001080 G5 box; other site 452638001081 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 452638001082 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 452638001083 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 452638001084 signal peptidase I; Provisional; Region: PRK10861 452638001085 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 452638001086 Catalytic site [active] 452638001087 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 452638001088 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 452638001089 dimerization interface [polypeptide binding]; other site 452638001090 active site 452638001091 metal binding site [ion binding]; metal-binding site 452638001092 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 452638001093 GTPase Era; Reviewed; Region: era; PRK00089 452638001094 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 452638001095 GTP/Mg2+ binding site [chemical binding]; other site 452638001096 Switch I region; other site 452638001097 G2 box; other site 452638001098 Switch II region; other site 452638001099 G3 box; other site 452638001100 G5 box; other site 452638001101 KH domain; Region: KH_2; pfam07650 452638001102 Recombination protein O N terminal; Region: RecO_N; pfam11967 452638001103 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 452638001104 Recombination protein O C terminal; Region: RecO_C; pfam02565 452638001105 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 452638001106 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 452638001107 beta-hexosaminidase; Provisional; Region: PRK05337 452638001108 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452638001109 Coenzyme A binding pocket [chemical binding]; other site 452638001110 elongation factor P; Validated; Region: PRK00529 452638001111 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 452638001112 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 452638001113 RNA binding site [nucleotide binding]; other site 452638001114 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 452638001115 RNA binding site [nucleotide binding]; other site 452638001116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 452638001117 conserved hypothetical protein, PP_1857 family; Region: efp_adjacent_2; TIGR03837 452638001118 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 452638001119 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 452638001120 GIY-YIG motif/motif A; other site 452638001121 active site 452638001122 catalytic site [active] 452638001123 putative DNA binding site [nucleotide binding]; other site 452638001124 metal binding site [ion binding]; metal-binding site 452638001125 UvrB/uvrC motif; Region: UVR; pfam02151 452638001126 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 452638001127 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 452638001128 LexA repressor; Validated; Region: PRK00215 452638001129 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 452638001130 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 452638001131 Catalytic site [active] 452638001132 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 452638001133 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 452638001134 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 452638001135 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 452638001136 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 452638001137 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 452638001138 replicative DNA helicase; Region: DnaB; TIGR00665 452638001139 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 452638001140 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 452638001141 Walker A motif; other site 452638001142 ATP binding site [chemical binding]; other site 452638001143 Walker B motif; other site 452638001144 DNA binding loops [nucleotide binding] 452638001145 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 452638001146 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 452638001147 catalytic triad [active] 452638001148 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 452638001149 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 452638001150 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 452638001151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452638001152 NAD(P) binding site [chemical binding]; other site 452638001153 active site 452638001154 putative formyltransferase; Provisional; Region: PRK06988 452638001155 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 452638001156 active site 452638001157 substrate binding site [chemical binding]; other site 452638001158 cosubstrate binding site; other site 452638001159 catalytic site [active] 452638001160 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 452638001161 active site 452638001162 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 452638001163 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 452638001164 Ligand binding site; other site 452638001165 Putative Catalytic site; other site 452638001166 DXD motif; other site 452638001167 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 452638001168 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 452638001169 inhibitor-cofactor binding pocket; inhibition site 452638001170 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452638001171 catalytic residue [active] 452638001172 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 452638001173 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 452638001174 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 452638001175 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 452638001176 aminotransferase AlaT; Validated; Region: PRK09265 452638001177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452638001178 homodimer interface [polypeptide binding]; other site 452638001179 catalytic residue [active] 452638001180 homoserine dehydrogenase; Provisional; Region: PRK06349 452638001181 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 452638001182 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 452638001183 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 452638001184 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 452638001185 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 452638001186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452638001187 catalytic residue [active] 452638001188 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 452638001189 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 452638001190 dimer interface [polypeptide binding]; other site 452638001191 putative functional site; other site 452638001192 Ubiquitin-like proteins; Region: UBQ; cl00155 452638001193 Ubiquitin-like proteins; Region: UBQ; cl00155 452638001194 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 452638001195 MoaE homodimer interface [polypeptide binding]; other site 452638001196 MoaD interaction [polypeptide binding]; other site 452638001197 active site residues [active] 452638001198 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 452638001199 GIY-YIG motif/motif A; other site 452638001200 putative active site [active] 452638001201 putative metal binding site [ion binding]; other site 452638001202 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 452638001203 Clp amino terminal domain; Region: Clp_N; pfam02861 452638001204 Clp amino terminal domain; Region: Clp_N; pfam02861 452638001205 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 452638001206 Walker A motif; other site 452638001207 ATP binding site [chemical binding]; other site 452638001208 Walker B motif; other site 452638001209 arginine finger; other site 452638001210 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 452638001211 Walker A motif; other site 452638001212 ATP binding site [chemical binding]; other site 452638001213 Walker B motif; other site 452638001214 arginine finger; other site 452638001215 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 452638001216 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 452638001217 nucleotide binding site/active site [active] 452638001218 HIT family signature motif; other site 452638001219 catalytic residue [active] 452638001220 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 452638001221 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 452638001222 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 452638001223 minor groove reading motif; other site 452638001224 helix-hairpin-helix signature motif; other site 452638001225 substrate binding pocket [chemical binding]; other site 452638001226 active site 452638001227 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 452638001228 ferredoxin; Provisional; Region: PRK08764 452638001229 Putative Fe-S cluster; Region: FeS; pfam04060 452638001230 4Fe-4S binding domain; Region: Fer4; pfam00037 452638001231 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 452638001232 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 452638001233 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 452638001234 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 452638001235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452638001236 homodimer interface [polypeptide binding]; other site 452638001237 catalytic residue [active] 452638001238 excinuclease ABC subunit B; Provisional; Region: PRK05298 452638001239 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 452638001240 ATP binding site [chemical binding]; other site 452638001241 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 452638001242 nucleotide binding region [chemical binding]; other site 452638001243 ATP-binding site [chemical binding]; other site 452638001244 Ultra-violet resistance protein B; Region: UvrB; pfam12344 452638001245 UvrB/uvrC motif; Region: UVR; pfam02151 452638001246 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 452638001247 Rrf2 family protein; Region: rrf2_super; TIGR00738 452638001248 cysteine desulfurase; Provisional; Region: PRK14012 452638001249 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 452638001250 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452638001251 catalytic residue [active] 452638001252 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 452638001253 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 452638001254 trimerization site [polypeptide binding]; other site 452638001255 active site 452638001256 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 452638001257 co-chaperone HscB; Provisional; Region: hscB; PRK03578 452638001258 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 452638001259 HSP70 interaction site [polypeptide binding]; other site 452638001260 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 452638001261 chaperone protein HscA; Provisional; Region: hscA; PRK05183 452638001262 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 452638001263 nucleotide binding site [chemical binding]; other site 452638001264 putative NEF/HSP70 interaction site [polypeptide binding]; other site 452638001265 SBD interface [polypeptide binding]; other site 452638001266 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 452638001267 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 452638001268 catalytic loop [active] 452638001269 iron binding site [ion binding]; other site 452638001270 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 452638001271 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 452638001272 Active Sites [active] 452638001273 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 452638001274 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 452638001275 Active Sites [active] 452638001276 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 452638001277 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 452638001278 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 452638001279 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 452638001280 FAD binding pocket [chemical binding]; other site 452638001281 FAD binding motif [chemical binding]; other site 452638001282 phosphate binding motif [ion binding]; other site 452638001283 beta-alpha-beta structure motif; other site 452638001284 NAD binding pocket [chemical binding]; other site 452638001285 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 452638001286 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 452638001287 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 452638001288 dimer interface [polypeptide binding]; other site 452638001289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452638001290 catalytic residue [active] 452638001291 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 452638001292 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 452638001293 dimer interface [polypeptide binding]; other site 452638001294 putative anticodon binding site; other site 452638001295 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 452638001296 motif 1; other site 452638001297 active site 452638001298 motif 2; other site 452638001299 motif 3; other site 452638001300 peptide chain release factor 2; Validated; Region: prfB; PRK00578 452638001301 This domain is found in peptide chain release factors; Region: PCRF; smart00937 452638001302 RF-1 domain; Region: RF-1; pfam00472 452638001303 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 452638001304 DHH family; Region: DHH; pfam01368 452638001305 DHHA1 domain; Region: DHHA1; pfam02272 452638001306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 452638001307 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 452638001308 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 452638001309 FtsX-like permease family; Region: FtsX; pfam02687 452638001310 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 452638001311 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 452638001312 Walker A/P-loop; other site 452638001313 ATP binding site [chemical binding]; other site 452638001314 Q-loop/lid; other site 452638001315 ABC transporter signature motif; other site 452638001316 Walker B; other site 452638001317 D-loop; other site 452638001318 H-loop/switch region; other site 452638001319 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 452638001320 active site 452638001321 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452638001322 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 452638001323 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 452638001324 DNA repair protein RadA; Provisional; Region: PRK11823 452638001325 Walker A motif; other site 452638001326 ATP binding site [chemical binding]; other site 452638001327 Walker B motif; other site 452638001328 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 452638001329 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 452638001330 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 452638001331 S-adenosylmethionine binding site [chemical binding]; other site 452638001332 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 452638001333 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 452638001334 metal binding site [ion binding]; metal-binding site 452638001335 dimer interface [polypeptide binding]; other site 452638001336 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 452638001337 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 452638001338 trimer interface [polypeptide binding]; other site 452638001339 active site 452638001340 substrate binding site [chemical binding]; other site 452638001341 CoA binding site [chemical binding]; other site 452638001342 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 452638001343 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 452638001344 Walker A/P-loop; other site 452638001345 ATP binding site [chemical binding]; other site 452638001346 Q-loop/lid; other site 452638001347 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 452638001348 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 452638001349 ABC transporter signature motif; other site 452638001350 Walker B; other site 452638001351 D-loop; other site 452638001352 H-loop/switch region; other site 452638001353 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 452638001354 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 452638001355 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 452638001356 nucleotide binding pocket [chemical binding]; other site 452638001357 K-X-D-G motif; other site 452638001358 catalytic site [active] 452638001359 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 452638001360 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 452638001361 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 452638001362 Dimer interface [polypeptide binding]; other site 452638001363 BRCT sequence motif; other site 452638001364 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 452638001365 nudix motif; other site 452638001366 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 452638001367 active site 452638001368 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 452638001369 rRNA interaction site [nucleotide binding]; other site 452638001370 S8 interaction site; other site 452638001371 putative laminin-1 binding site; other site 452638001372 elongation factor Ts; Provisional; Region: tsf; PRK09377 452638001373 UBA/TS-N domain; Region: UBA; pfam00627 452638001374 Elongation factor TS; Region: EF_TS; pfam00889 452638001375 Elongation factor TS; Region: EF_TS; pfam00889 452638001376 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 452638001377 putative nucleotide binding site [chemical binding]; other site 452638001378 uridine monophosphate binding site [chemical binding]; other site 452638001379 homohexameric interface [polypeptide binding]; other site 452638001380 ribosome recycling factor; Reviewed; Region: frr; PRK00083 452638001381 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 452638001382 hinge region; other site 452638001383 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 452638001384 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 452638001385 catalytic residue [active] 452638001386 putative FPP diphosphate binding site; other site 452638001387 putative FPP binding hydrophobic cleft; other site 452638001388 dimer interface [polypeptide binding]; other site 452638001389 putative IPP diphosphate binding site; other site 452638001390 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 452638001391 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 452638001392 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 452638001393 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 452638001394 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 452638001395 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 452638001396 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 452638001397 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 452638001398 active site 452638001399 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 452638001400 putative substrate binding region [chemical binding]; other site 452638001401 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 452638001402 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 452638001403 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 452638001404 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 452638001405 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 452638001406 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 452638001407 Surface antigen; Region: Bac_surface_Ag; pfam01103 452638001408 periplasmic chaperone; Provisional; Region: PRK10780 452638001409 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 452638001410 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 452638001411 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 452638001412 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 452638001413 trimer interface [polypeptide binding]; other site 452638001414 active site 452638001415 UDP-GlcNAc binding site [chemical binding]; other site 452638001416 lipid binding site [chemical binding]; lipid-binding site 452638001417 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 452638001418 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 452638001419 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 452638001420 active site 452638001421 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 452638001422 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 452638001423 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 452638001424 RNA/DNA hybrid binding site [nucleotide binding]; other site 452638001425 active site 452638001426 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 452638001427 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 452638001428 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 452638001429 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 452638001430 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 452638001431 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 452638001432 SmpB-tmRNA interface; other site 452638001433 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 452638001434 putative coenzyme Q binding site [chemical binding]; other site 452638001435 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 452638001436 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 452638001437 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 452638001438 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 452638001439 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 452638001440 active site 452638001441 GMP synthase; Reviewed; Region: guaA; PRK00074 452638001442 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 452638001443 AMP/PPi binding site [chemical binding]; other site 452638001444 candidate oxyanion hole; other site 452638001445 catalytic triad [active] 452638001446 potential glutamine specificity residues [chemical binding]; other site 452638001447 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 452638001448 ATP Binding subdomain [chemical binding]; other site 452638001449 Ligand Binding sites [chemical binding]; other site 452638001450 Dimerization subdomain; other site 452638001451 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 452638001452 dinuclear metal binding motif [ion binding]; other site 452638001453 4Fe-4S single cluster domain; Region: Fer4_14; pfam13394 452638001454 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 452638001455 FeS/SAM binding site; other site 452638001456 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 452638001457 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 452638001458 nucleoside/Zn binding site; other site 452638001459 dimer interface [polypeptide binding]; other site 452638001460 catalytic motif [active] 452638001461 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 452638001462 dimer interface [polypeptide binding]; other site 452638001463 catalytic triad [active] 452638001464 SOUL heme-binding protein; Region: SOUL; pfam04832 452638001465 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 452638001466 active site 452638001467 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 452638001468 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 452638001469 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 452638001470 putative active site [active] 452638001471 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 452638001472 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 452638001473 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 452638001474 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 452638001475 Soluble P-type ATPase [General function prediction only]; Region: COG4087 452638001476 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 452638001477 metal-binding site [ion binding] 452638001478 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 452638001479 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 452638001480 antiporter inner membrane protein; Provisional; Region: PRK11670 452638001481 Domain of unknown function DUF59; Region: DUF59; pfam01883 452638001482 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 452638001483 Walker A motif; other site 452638001484 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 452638001485 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 452638001486 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 452638001487 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 452638001488 4Fe-4S binding domain; Region: Fer4; cl02805 452638001489 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 452638001490 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 452638001491 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452638001492 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 452638001493 Walker A/P-loop; other site 452638001494 ATP binding site [chemical binding]; other site 452638001495 Q-loop/lid; other site 452638001496 ABC transporter signature motif; other site 452638001497 Walker B; other site 452638001498 D-loop; other site 452638001499 H-loop/switch region; other site 452638001500 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 452638001501 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 452638001502 dimer interface [polypeptide binding]; other site 452638001503 conserved gate region; other site 452638001504 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 452638001505 putative catalytic site [active] 452638001506 putative metal binding site [ion binding]; other site 452638001507 putative phosphate binding site [ion binding]; other site 452638001508 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 452638001509 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 452638001510 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 452638001511 putative active site [active] 452638001512 catalytic site [active] 452638001513 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 452638001514 putative active site [active] 452638001515 catalytic site [active] 452638001516 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 452638001517 CoA-transferase family III; Region: CoA_transf_3; pfam02515 452638001518 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 452638001519 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 452638001520 Predicted membrane protein [Function unknown]; Region: COG1238 452638001521 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 452638001522 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 452638001523 NAD binding site [chemical binding]; other site 452638001524 homotetramer interface [polypeptide binding]; other site 452638001525 homodimer interface [polypeptide binding]; other site 452638001526 substrate binding site [chemical binding]; other site 452638001527 active site 452638001528 Protein of unknown function (DUF989); Region: DUF989; pfam06181 452638001529 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 452638001530 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 452638001531 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 452638001532 FMN binding site [chemical binding]; other site 452638001533 active site 452638001534 substrate binding site [chemical binding]; other site 452638001535 catalytic residue [active] 452638001536 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 452638001537 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 452638001538 EamA-like transporter family; Region: EamA; pfam00892 452638001539 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 452638001540 putative substrate binding site [chemical binding]; other site 452638001541 putative ATP binding site [chemical binding]; other site 452638001542 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 452638001543 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 452638001544 substrate binding pocket [chemical binding]; other site 452638001545 membrane-bound complex binding site; other site 452638001546 hinge residues; other site 452638001547 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 452638001548 Predicted flavoproteins [General function prediction only]; Region: COG2081 452638001549 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 452638001550 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 452638001551 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 452638001552 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 452638001553 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 452638001554 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 452638001555 selenophosphate synthetase; Provisional; Region: PRK00943 452638001556 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 452638001557 dimerization interface [polypeptide binding]; other site 452638001558 putative ATP binding site [chemical binding]; other site 452638001559 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 452638001560 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 452638001561 catalytic residues [active] 452638001562 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 452638001563 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 452638001564 active site 452638001565 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452638001566 Coenzyme A binding pocket [chemical binding]; other site 452638001567 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 452638001568 PBP superfamily domain; Region: PBP_like_2; pfam12849 452638001569 PBP superfamily domain; Region: PBP_like; cl17867 452638001570 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 452638001571 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 452638001572 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 452638001573 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 452638001574 FeoA domain; Region: FeoA; pfam04023 452638001575 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 452638001576 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 452638001577 G1 box; other site 452638001578 GTP/Mg2+ binding site [chemical binding]; other site 452638001579 Switch I region; other site 452638001580 G2 box; other site 452638001581 G3 box; other site 452638001582 Switch II region; other site 452638001583 G4 box; other site 452638001584 G5 box; other site 452638001585 Nucleoside recognition; Region: Gate; pfam07670 452638001586 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 452638001587 Nucleoside recognition; Region: Gate; pfam07670 452638001588 Cytochrome c; Region: Cytochrom_C; cl11414 452638001589 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 452638001590 enoyl-CoA hydratase; Provisional; Region: PRK06144 452638001591 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 452638001592 substrate binding site [chemical binding]; other site 452638001593 oxyanion hole (OAH) forming residues; other site 452638001594 trimer interface [polypeptide binding]; other site 452638001595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 452638001596 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 452638001597 putative dimer interface [polypeptide binding]; other site 452638001598 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 452638001599 multidrug efflux protein; Reviewed; Region: PRK01766 452638001600 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 452638001601 cation binding site [ion binding]; other site 452638001602 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 452638001603 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 452638001604 transcription termination factor Rho; Provisional; Region: rho; PRK09376 452638001605 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 452638001606 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 452638001607 RNA binding site [nucleotide binding]; other site 452638001608 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 452638001609 multimer interface [polypeptide binding]; other site 452638001610 Walker A motif; other site 452638001611 ATP binding site [chemical binding]; other site 452638001612 Walker B motif; other site 452638001613 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 452638001614 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 452638001615 catalytic residues [active] 452638001616 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 452638001617 probable DNA repair protein; Region: TIGR03623 452638001618 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 452638001619 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 452638001620 Part of AAA domain; Region: AAA_19; pfam13245 452638001621 Family description; Region: UvrD_C_2; pfam13538 452638001622 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 452638001623 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 452638001624 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 452638001625 Walker A motif; other site 452638001626 ATP binding site [chemical binding]; other site 452638001627 Walker B motif; other site 452638001628 arginine finger; other site 452638001629 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 452638001630 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 452638001631 hypothetical protein; Validated; Region: PRK00153 452638001632 recombination protein RecR; Reviewed; Region: recR; PRK00076 452638001633 RecR protein; Region: RecR; pfam02132 452638001634 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 452638001635 putative active site [active] 452638001636 putative metal-binding site [ion binding]; other site 452638001637 tetramer interface [polypeptide binding]; other site 452638001638 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 452638001639 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 452638001640 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 452638001641 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 452638001642 S-adenosylmethionine binding site [chemical binding]; other site 452638001643 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 452638001644 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 452638001645 Peptidase family M23; Region: Peptidase_M23; pfam01551 452638001646 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 452638001647 TRAM domain; Region: TRAM; cl01282 452638001648 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 452638001649 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 452638001650 S-adenosylmethionine binding site [chemical binding]; other site 452638001651 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 452638001652 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 452638001653 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 452638001654 active site 452638001655 multimer interface [polypeptide binding]; other site 452638001656 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 452638001657 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 452638001658 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 452638001659 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 452638001660 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 452638001661 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 452638001662 dimer interface [polypeptide binding]; other site 452638001663 motif 1; other site 452638001664 active site 452638001665 motif 2; other site 452638001666 motif 3; other site 452638001667 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 452638001668 anticodon binding site; other site 452638001669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 452638001670 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 452638001671 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 452638001672 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 452638001673 Trp docking motif [polypeptide binding]; other site 452638001674 active site 452638001675 GTP-binding protein Der; Reviewed; Region: PRK00093 452638001676 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 452638001677 G1 box; other site 452638001678 GTP/Mg2+ binding site [chemical binding]; other site 452638001679 Switch I region; other site 452638001680 G2 box; other site 452638001681 Switch II region; other site 452638001682 G3 box; other site 452638001683 G4 box; other site 452638001684 G5 box; other site 452638001685 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 452638001686 G1 box; other site 452638001687 GTP/Mg2+ binding site [chemical binding]; other site 452638001688 Switch I region; other site 452638001689 G2 box; other site 452638001690 G3 box; other site 452638001691 Switch II region; other site 452638001692 G4 box; other site 452638001693 G5 box; other site 452638001694 bacterial Hfq-like; Region: Hfq; cd01716 452638001695 hexamer interface [polypeptide binding]; other site 452638001696 Sm1 motif; other site 452638001697 RNA binding site [nucleotide binding]; other site 452638001698 Sm2 motif; other site 452638001699 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 452638001700 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 452638001701 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 452638001702 HflK protein; Region: hflK; TIGR01933 452638001703 HflC protein; Region: hflC; TIGR01932 452638001704 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 452638001705 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 452638001706 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 452638001707 dimer interface [polypeptide binding]; other site 452638001708 motif 1; other site 452638001709 active site 452638001710 motif 2; other site 452638001711 motif 3; other site 452638001712 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 452638001713 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 452638001714 GDP-binding site [chemical binding]; other site 452638001715 ACT binding site; other site 452638001716 IMP binding site; other site 452638001717 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl17217 452638001718 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 452638001719 amino acid transporter; Region: 2A0306; TIGR00909 452638001720 VacB and RNase II family 3'-5' exoribonucleases; Region: 3_prime_RNase; TIGR00358 452638001721 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 452638001722 RNA binding site [nucleotide binding]; other site 452638001723 RNB domain; Region: RNB; pfam00773 452638001724 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 452638001725 RNA binding site [nucleotide binding]; other site 452638001726 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 452638001727 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 452638001728 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 452638001729 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 452638001730 transaldolase-like protein; Provisional; Region: PTZ00411 452638001731 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 452638001732 active site 452638001733 dimer interface [polypeptide binding]; other site 452638001734 catalytic residue [active] 452638001735 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 452638001736 tetramer (dimer of dimers) interface [polypeptide binding]; other site 452638001737 active site 452638001738 dimer interface [polypeptide binding]; other site 452638001739 oxidative damage protection protein; Provisional; Region: PRK05408 452638001740 N-acetylglutamate synthase; Validated; Region: PRK05279 452638001741 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 452638001742 putative feedback inhibition sensing region; other site 452638001743 putative nucleotide binding site [chemical binding]; other site 452638001744 putative substrate binding site [chemical binding]; other site 452638001745 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452638001746 Coenzyme A binding pocket [chemical binding]; other site 452638001747 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 452638001748 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 452638001749 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 452638001750 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 452638001751 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 452638001752 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 452638001753 putative MPT binding site; other site 452638001754 glutamine synthetase; Provisional; Region: glnA; PRK09469 452638001755 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 452638001756 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 452638001757 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 452638001758 Response regulator receiver domain; Region: Response_reg; pfam00072 452638001759 active site 452638001760 phosphorylation site [posttranslational modification] 452638001761 intermolecular recognition site; other site 452638001762 dimerization interface [polypeptide binding]; other site 452638001763 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 452638001764 putative catalytic site [active] 452638001765 putative phosphate binding site [ion binding]; other site 452638001766 active site 452638001767 metal binding site A [ion binding]; metal-binding site 452638001768 DNA binding site [nucleotide binding] 452638001769 putative AP binding site [nucleotide binding]; other site 452638001770 putative metal binding site B [ion binding]; other site 452638001771 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 452638001772 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 452638001773 active site 452638001774 Zn binding site [ion binding]; other site 452638001775 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 452638001776 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 452638001777 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 452638001778 homodimer interface [polypeptide binding]; other site 452638001779 NADP binding site [chemical binding]; other site 452638001780 substrate binding site [chemical binding]; other site 452638001781 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 452638001782 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 452638001783 active site 452638001784 phosphorylation site [posttranslational modification] 452638001785 intermolecular recognition site; other site 452638001786 dimerization interface [polypeptide binding]; other site 452638001787 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 452638001788 DNA binding residues [nucleotide binding] 452638001789 dimerization interface [polypeptide binding]; other site 452638001790 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 452638001791 ATP binding site [chemical binding]; other site 452638001792 Mg2+ binding site [ion binding]; other site 452638001793 G-X-G motif; other site 452638001794 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 452638001795 Sodium Bile acid symporter family; Region: SBF; cl17470 452638001796 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 452638001797 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 452638001798 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 452638001799 active site 452638001800 FMN binding site [chemical binding]; other site 452638001801 substrate binding site [chemical binding]; other site 452638001802 3Fe-4S cluster binding site [ion binding]; other site 452638001803 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 452638001804 Response regulator receiver domain; Region: Response_reg; pfam00072 452638001805 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 452638001806 active site 452638001807 phosphorylation site [posttranslational modification] 452638001808 intermolecular recognition site; other site 452638001809 dimerization interface [polypeptide binding]; other site 452638001810 PAS domain; Region: PAS_9; pfam13426 452638001811 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 452638001812 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 452638001813 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 452638001814 DNA binding residues [nucleotide binding] 452638001815 dimerization interface [polypeptide binding]; other site 452638001816 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 452638001817 ATP binding site [chemical binding]; other site 452638001818 Mg2+ binding site [ion binding]; other site 452638001819 G-X-G motif; other site 452638001820 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 452638001821 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 452638001822 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 452638001823 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 452638001824 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 452638001825 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 452638001826 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 452638001827 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 452638001828 Competence protein A; Region: Competence_A; pfam11104 452638001829 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 452638001830 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 452638001831 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 452638001832 Secretin and TonB N terminus short domain; Region: STN; smart00965 452638001833 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 452638001834 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 452638001835 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 452638001836 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 452638001837 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 452638001838 FMN binding site [chemical binding]; other site 452638001839 active site 452638001840 catalytic residues [active] 452638001841 substrate binding site [chemical binding]; other site 452638001842 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 452638001843 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 452638001844 LrgB-like family; Region: LrgB; pfam04172 452638001845 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 452638001846 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 452638001847 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 452638001848 active site 452638001849 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 452638001850 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 452638001851 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 452638001852 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 452638001853 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 452638001854 glutamate racemase; Provisional; Region: PRK00865 452638001855 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 452638001856 Fumarase C-terminus; Region: Fumerase_C; pfam05683 452638001857 acetyl-CoA synthetase; Provisional; Region: PRK00174 452638001858 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 452638001859 active site 452638001860 CoA binding site [chemical binding]; other site 452638001861 acyl-activating enzyme (AAE) consensus motif; other site 452638001862 AMP binding site [chemical binding]; other site 452638001863 acetate binding site [chemical binding]; other site 452638001864 choline-sulfatase; Region: chol_sulfatase; TIGR03417 452638001865 Sulfatase; Region: Sulfatase; cl17466 452638001866 YCII-related domain; Region: YCII; cl00999 452638001867 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 452638001868 L-aspartate oxidase; Provisional; Region: PRK09077 452638001869 L-aspartate oxidase; Provisional; Region: PRK06175 452638001870 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 452638001871 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 452638001872 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 452638001873 dimerization interface [polypeptide binding]; other site 452638001874 active site 452638001875 quinolinate synthetase; Provisional; Region: PRK09375 452638001876 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 452638001877 Surface antigen; Region: Bac_surface_Ag; pfam01103 452638001878 SurA N-terminal domain; Region: SurA_N_3; cl07813 452638001879 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 452638001880 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 452638001881 active site 452638001882 substrate binding site [chemical binding]; other site 452638001883 metal binding site [ion binding]; metal-binding site 452638001884 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 452638001885 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 452638001886 active site 452638001887 dimer interface [polypeptide binding]; other site 452638001888 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 452638001889 dimer interface [polypeptide binding]; other site 452638001890 active site 452638001891 MarC family integral membrane protein; Region: MarC; cl00919 452638001892 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 452638001893 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 452638001894 FeS/SAM binding site; other site 452638001895 HemN C-terminal domain; Region: HemN_C; pfam06969 452638001896 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 452638001897 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 452638001898 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 452638001899 catalytic site [active] 452638001900 G-X2-G-X-G-K; other site 452638001901 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 452638001902 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 452638001903 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 452638001904 Zn2+ binding site [ion binding]; other site 452638001905 Mg2+ binding site [ion binding]; other site 452638001906 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 452638001907 synthetase active site [active] 452638001908 NTP binding site [chemical binding]; other site 452638001909 metal binding site [ion binding]; metal-binding site 452638001910 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 452638001911 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 452638001912 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 452638001913 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 452638001914 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 452638001915 Permease; Region: Permease; pfam02405 452638001916 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452638001917 Walker A/P-loop; other site 452638001918 ATP binding site [chemical binding]; other site 452638001919 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452638001920 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 452638001921 RDD family; Region: RDD; pfam06271 452638001922 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 452638001923 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 452638001924 RNA polymerase factor sigma-70; Validated; Region: PRK09047 452638001925 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 452638001926 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 452638001927 PYR/PP interface [polypeptide binding]; other site 452638001928 dimer interface [polypeptide binding]; other site 452638001929 TPP binding site [chemical binding]; other site 452638001930 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 452638001931 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 452638001932 TPP-binding site [chemical binding]; other site 452638001933 dimer interface [polypeptide binding]; other site 452638001934 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 452638001935 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 452638001936 putative valine binding site [chemical binding]; other site 452638001937 dimer interface [polypeptide binding]; other site 452638001938 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 452638001939 ketol-acid reductoisomerase; Provisional; Region: PRK05479 452638001940 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 452638001941 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 452638001942 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 452638001943 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 452638001944 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 452638001945 2-isopropylmalate synthase; Validated; Region: PRK00915 452638001946 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 452638001947 active site 452638001948 catalytic residues [active] 452638001949 metal binding site [ion binding]; metal-binding site 452638001950 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 452638001951 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 452638001952 16S/18S rRNA binding site [nucleotide binding]; other site 452638001953 S13e-L30e interaction site [polypeptide binding]; other site 452638001954 25S rRNA binding site [nucleotide binding]; other site 452638001955 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 452638001956 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 452638001957 RNase E interface [polypeptide binding]; other site 452638001958 trimer interface [polypeptide binding]; other site 452638001959 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 452638001960 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 452638001961 RNase E interface [polypeptide binding]; other site 452638001962 trimer interface [polypeptide binding]; other site 452638001963 active site 452638001964 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 452638001965 putative nucleic acid binding region [nucleotide binding]; other site 452638001966 G-X-X-G motif; other site 452638001967 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 452638001968 RNA binding site [nucleotide binding]; other site 452638001969 domain interface; other site 452638001970 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 452638001971 triosephosphate isomerase; Provisional; Region: PRK14567 452638001972 substrate binding site [chemical binding]; other site 452638001973 dimer interface [polypeptide binding]; other site 452638001974 catalytic triad [active] 452638001975 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 452638001976 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 452638001977 NADH dehydrogenase subunit B; Validated; Region: PRK06411 452638001978 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 452638001979 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 452638001980 NADH dehydrogenase subunit D; Validated; Region: PRK06075 452638001981 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 452638001982 NADH dehydrogenase subunit E; Validated; Region: PRK07539 452638001983 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 452638001984 putative dimer interface [polypeptide binding]; other site 452638001985 [2Fe-2S] cluster binding site [ion binding]; other site 452638001986 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 452638001987 SLBB domain; Region: SLBB; pfam10531 452638001988 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 452638001989 NADH dehydrogenase subunit G; Validated; Region: PRK09129 452638001990 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 452638001991 catalytic loop [active] 452638001992 iron binding site [ion binding]; other site 452638001993 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 452638001994 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 452638001995 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 452638001996 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 452638001997 4Fe-4S binding domain; Region: Fer4; pfam00037 452638001998 4Fe-4S binding domain; Region: Fer4; pfam00037 452638001999 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 452638002000 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 452638002001 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 452638002002 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 452638002003 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 452638002004 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 452638002005 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 452638002006 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 452638002007 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 452638002008 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 452638002009 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 452638002010 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 452638002011 dimer interface [polypeptide binding]; other site 452638002012 ADP-ribose binding site [chemical binding]; other site 452638002013 active site 452638002014 nudix motif; other site 452638002015 metal binding site [ion binding]; metal-binding site 452638002016 Protein of unknown function (DUF1178); Region: DUF1178; cl17833 452638002017 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 452638002018 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 452638002019 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 452638002020 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 452638002021 active site 452638002022 catalytic site [active] 452638002023 substrate binding site [chemical binding]; other site 452638002024 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 452638002025 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 452638002026 RNA/DNA hybrid binding site [nucleotide binding]; other site 452638002027 active site 452638002028 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 452638002029 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 452638002030 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 452638002031 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452638002032 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 452638002033 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 452638002034 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 452638002035 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 452638002036 catalytic site [active] 452638002037 subunit interface [polypeptide binding]; other site 452638002038 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 452638002039 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 452638002040 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 452638002041 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 452638002042 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 452638002043 ATP-grasp domain; Region: ATP-grasp_4; cl17255 452638002044 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 452638002045 IMP binding site; other site 452638002046 dimer interface [polypeptide binding]; other site 452638002047 interdomain contacts; other site 452638002048 partial ornithine binding site; other site 452638002049 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 452638002050 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 452638002051 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 452638002052 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 452638002053 FtsJ-like methyltransferase; Region: FtsJ; cl17430 452638002054 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 452638002055 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 452638002056 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 452638002057 Walker A motif; other site 452638002058 ATP binding site [chemical binding]; other site 452638002059 Walker B motif; other site 452638002060 arginine finger; other site 452638002061 Peptidase family M41; Region: Peptidase_M41; pfam01434 452638002062 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 452638002063 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 452638002064 active site 452638002065 substrate binding site [chemical binding]; other site 452638002066 metal binding site [ion binding]; metal-binding site 452638002067 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 452638002068 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 452638002069 FAD binding domain; Region: FAD_binding_4; pfam01565 452638002070 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 452638002071 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 452638002072 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 452638002073 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 452638002074 FOG: CBS domain [General function prediction only]; Region: COG0517 452638002075 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 452638002076 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 452638002077 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 452638002078 Tetramer interface [polypeptide binding]; other site 452638002079 active site 452638002080 FMN-binding site [chemical binding]; other site 452638002081 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 452638002082 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 452638002083 putative substrate translocation pore; other site 452638002084 BolA-like protein; Region: BolA; pfam01722 452638002085 intracellular septation protein A; Reviewed; Region: PRK00259 452638002086 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 452638002087 hypothetical protein; Validated; Region: PRK00029 452638002088 Uncharacterized conserved protein [Function unknown]; Region: COG0397 452638002089 hypothetical protein; Validated; Region: PRK00029 452638002090 NRDE protein; Region: NRDE; cl01315 452638002091 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 452638002092 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 452638002093 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 452638002094 YceG-like family; Region: YceG; pfam02618 452638002095 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 452638002096 dimerization interface [polypeptide binding]; other site 452638002097 thymidylate kinase; Validated; Region: tmk; PRK00698 452638002098 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 452638002099 TMP-binding site; other site 452638002100 ATP-binding site [chemical binding]; other site 452638002101 DNA polymerase III subunit delta'; Validated; Region: PRK06964 452638002102 DNA polymerase III subunit delta'; Validated; Region: PRK08485 452638002103 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 452638002104 active site 452638002105 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 452638002106 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 452638002107 active site 452638002108 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 452638002109 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452638002110 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 452638002111 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 452638002112 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 452638002113 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 452638002114 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 452638002115 active site 452638002116 HIGH motif; other site 452638002117 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 452638002118 active site 452638002119 KMSKS motif; other site 452638002120 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 452638002121 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 452638002122 enolase; Provisional; Region: eno; PRK00077 452638002123 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 452638002124 dimer interface [polypeptide binding]; other site 452638002125 metal binding site [ion binding]; metal-binding site 452638002126 substrate binding pocket [chemical binding]; other site 452638002127 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 452638002128 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 452638002129 CTP synthetase; Validated; Region: pyrG; PRK05380 452638002130 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 452638002131 Catalytic site [active] 452638002132 active site 452638002133 UTP binding site [chemical binding]; other site 452638002134 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 452638002135 active site 452638002136 putative oxyanion hole; other site 452638002137 catalytic triad [active] 452638002138 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 452638002139 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 452638002140 substrate binding site [chemical binding]; other site 452638002141 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 452638002142 substrate binding site [chemical binding]; other site 452638002143 ligand binding site [chemical binding]; other site 452638002144 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 452638002145 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 452638002146 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 452638002147 dimerization interface [polypeptide binding]; other site 452638002148 ATP binding site [chemical binding]; other site 452638002149 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 452638002150 dimerization interface [polypeptide binding]; other site 452638002151 ATP binding site [chemical binding]; other site 452638002152 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 452638002153 putative active site [active] 452638002154 catalytic triad [active] 452638002155 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452638002156 ABC transporter signature motif; other site 452638002157 Walker B; other site 452638002158 D-loop; other site 452638002159 H-loop/switch region; other site 452638002160 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 452638002161 catalytic triad [active] 452638002162 SurA N-terminal domain; Region: SurA_N_3; cl07813 452638002163 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 452638002164 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 452638002165 Found in ATP-dependent protease La (LON); Region: LON; smart00464 452638002166 Found in ATP-dependent protease La (LON); Region: LON; smart00464 452638002167 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 452638002168 Walker A motif; other site 452638002169 ATP binding site [chemical binding]; other site 452638002170 Walker B motif; other site 452638002171 arginine finger; other site 452638002172 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 452638002173 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 452638002174 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 452638002175 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 452638002176 Walker A motif; other site 452638002177 ATP binding site [chemical binding]; other site 452638002178 Walker B motif; other site 452638002179 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 452638002180 Clp protease; Region: CLP_protease; pfam00574 452638002181 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 452638002182 oligomer interface [polypeptide binding]; other site 452638002183 active site residues [active] 452638002184 trigger factor; Provisional; Region: tig; PRK01490 452638002185 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 452638002186 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 452638002187 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 452638002188 homotrimer interaction site [polypeptide binding]; other site 452638002189 zinc binding site [ion binding]; other site 452638002190 CDP-binding sites; other site 452638002191 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 452638002192 substrate binding site; other site 452638002193 dimer interface; other site 452638002194 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 452638002195 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 452638002196 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 452638002197 ATP binding site [chemical binding]; other site 452638002198 putative Mg++ binding site [ion binding]; other site 452638002199 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 452638002200 nucleotide binding region [chemical binding]; other site 452638002201 ATP-binding site [chemical binding]; other site 452638002202 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 452638002203 phosphoserine phosphatase SerB; Region: serB; TIGR00338 452638002204 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 452638002205 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 452638002206 motif II; other site 452638002207 beta-ketothiolase; Provisional; Region: PRK09051 452638002208 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 452638002209 dimer interface [polypeptide binding]; other site 452638002210 active site 452638002211 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 452638002212 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 452638002213 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 452638002214 FeS/SAM binding site; other site 452638002215 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 452638002216 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 452638002217 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 452638002218 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 452638002219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452638002220 NAD(P) binding site [chemical binding]; other site 452638002221 active site 452638002222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452638002223 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 452638002224 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 452638002225 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 452638002226 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 452638002227 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 452638002228 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 452638002229 RNA binding surface [nucleotide binding]; other site 452638002230 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 452638002231 active site 452638002232 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 452638002233 alanine racemase; Reviewed; Region: dadX; PRK03646 452638002234 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 452638002235 active site 452638002236 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 452638002237 substrate binding site [chemical binding]; other site 452638002238 catalytic residues [active] 452638002239 dimer interface [polypeptide binding]; other site 452638002240 lysophospholipid transporter LplT; Provisional; Region: PRK11195 452638002241 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 452638002242 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 452638002243 active site 452638002244 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 452638002245 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452638002246 Coenzyme A binding pocket [chemical binding]; other site 452638002247 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 452638002248 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 452638002249 Glycoprotease family; Region: Peptidase_M22; pfam00814 452638002250 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 452638002251 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 452638002252 dimer interface [polypeptide binding]; other site 452638002253 substrate binding site [chemical binding]; other site 452638002254 metal binding site [ion binding]; metal-binding site 452638002255 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 452638002256 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 452638002257 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 452638002258 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 452638002259 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 452638002260 carboxyltransferase (CT) interaction site; other site 452638002261 biotinylation site [posttranslational modification]; other site 452638002262 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 452638002263 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 452638002264 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 452638002265 membrane ATPase/protein kinase; Provisional; Region: PRK09435 452638002266 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 452638002267 Walker A; other site 452638002268 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 452638002269 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 452638002270 active site 452638002271 substrate binding site [chemical binding]; other site 452638002272 coenzyme B12 binding site [chemical binding]; other site 452638002273 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 452638002274 B12 binding site [chemical binding]; other site 452638002275 cobalt ligand [ion binding]; other site 452638002276 Transcriptional regulators [Transcription]; Region: GntR; COG1802 452638002277 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 452638002278 DNA-binding site [nucleotide binding]; DNA binding site 452638002279 FCD domain; Region: FCD; pfam07729 452638002280 Cytochrome c553 [Energy production and conversion]; Region: COG2863 452638002281 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 452638002282 Cytochrome c; Region: Cytochrom_C; cl11414 452638002283 MoxR-like ATPases [General function prediction only]; Region: COG0714 452638002284 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 452638002285 Walker A motif; other site 452638002286 ATP binding site [chemical binding]; other site 452638002287 Walker B motif; other site 452638002288 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 452638002289 homotrimer interaction site [polypeptide binding]; other site 452638002290 putative active site [active] 452638002291 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 452638002292 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 452638002293 CAP-like domain; other site 452638002294 active site 452638002295 primary dimer interface [polypeptide binding]; other site 452638002296 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452638002297 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 452638002298 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 452638002299 ATP binding site [chemical binding]; other site 452638002300 Mg2+ binding site [ion binding]; other site 452638002301 G-X-G motif; other site 452638002302 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 452638002303 anchoring element; other site 452638002304 dimer interface [polypeptide binding]; other site 452638002305 ATP binding site [chemical binding]; other site 452638002306 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 452638002307 active site 452638002308 metal binding site [ion binding]; metal-binding site 452638002309 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 452638002310 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 452638002311 nudix motif; other site 452638002312 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 452638002313 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 452638002314 Thiamine monophosphate synthase/TENI; Region: TMP-TENI; cl17228 452638002315 putative protease; Provisional; Region: PRK15452 452638002316 Peptidase family U32; Region: Peptidase_U32; pfam01136 452638002317 HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PaaI; COG2050 452638002318 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 452638002319 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 452638002320 putative acyl-acceptor binding pocket; other site 452638002321 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 452638002322 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 452638002323 FMN binding site [chemical binding]; other site 452638002324 substrate binding site [chemical binding]; other site 452638002325 putative catalytic residue [active] 452638002326 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 452638002327 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 452638002328 acyl-activating enzyme (AAE) consensus motif; other site 452638002329 putative AMP binding site [chemical binding]; other site 452638002330 putative active site [active] 452638002331 putative CoA binding site [chemical binding]; other site 452638002332 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 452638002333 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 452638002334 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452638002335 active site 452638002336 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 452638002337 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 452638002338 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 452638002339 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452638002340 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 452638002341 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 452638002342 substrate binding site [chemical binding]; other site 452638002343 oxyanion hole (OAH) forming residues; other site 452638002344 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 452638002345 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 452638002346 dimer interface [polypeptide binding]; other site 452638002347 active site 452638002348 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 452638002349 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 452638002350 active site 452638002351 YqjK-like protein; Region: YqjK; pfam13997 452638002352 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 452638002353 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 452638002354 Smr domain; Region: Smr; pfam01713 452638002355 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 452638002356 aspartate kinase; Reviewed; Region: PRK06635 452638002357 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 452638002358 putative nucleotide binding site [chemical binding]; other site 452638002359 putative catalytic residues [active] 452638002360 putative Mg ion binding site [ion binding]; other site 452638002361 putative aspartate binding site [chemical binding]; other site 452638002362 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 452638002363 putative allosteric regulatory site; other site 452638002364 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 452638002365 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 452638002366 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 452638002367 Ligand Binding Site [chemical binding]; other site 452638002368 TilS substrate binding domain; Region: TilS; pfam09179 452638002369 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 452638002370 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 452638002371 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 452638002372 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 452638002373 endonuclease III; Region: ENDO3c; smart00478 452638002374 minor groove reading motif; other site 452638002375 helix-hairpin-helix signature motif; other site 452638002376 substrate binding pocket [chemical binding]; other site 452638002377 active site 452638002378 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 452638002379 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 452638002380 active site 452638002381 HIGH motif; other site 452638002382 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 452638002383 KMSKS motif; other site 452638002384 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 452638002385 tRNA binding surface [nucleotide binding]; other site 452638002386 anticodon binding site; other site 452638002387 TPR repeat; Region: TPR_11; pfam13414 452638002388 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 452638002389 TPR motif; other site 452638002390 binding surface 452638002391 Tetratricopeptide repeat; Region: TPR_16; pfam13432 452638002392 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 452638002393 substrate binding site [chemical binding]; other site 452638002394 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 452638002395 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 452638002396 putative active site [active] 452638002397 putative metal binding site [ion binding]; other site 452638002398 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 452638002399 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 452638002400 active site 452638002401 dimerization interface [polypeptide binding]; other site 452638002402 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 452638002403 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 452638002404 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 452638002405 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 452638002406 Uncharacterized conserved protein [Function unknown]; Region: COG2850 452638002407 Cupin-like domain; Region: Cupin_8; pfam13621 452638002408 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 452638002409 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 452638002410 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 452638002411 dihydrodipicolinate synthase; Region: dapA; TIGR00674 452638002412 dimer interface [polypeptide binding]; other site 452638002413 active site 452638002414 catalytic residue [active] 452638002415 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 452638002416 active site 452638002417 HIGH motif; other site 452638002418 dimer interface [polypeptide binding]; other site 452638002419 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452638002420 active site 452638002421 KMSKS motif; other site 452638002422 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 452638002423 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 452638002424 active site 452638002425 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 452638002426 Predicted ATPase [General function prediction only]; Region: COG1485 452638002427 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452638002428 Walker A/P-loop; other site 452638002429 ATP binding site [chemical binding]; other site 452638002430 Q-loop/lid; other site 452638002431 Walker B; other site 452638002432 D-loop; other site 452638002433 H-loop/switch region; other site 452638002434 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 452638002435 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452638002436 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 452638002437 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 452638002438 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 452638002439 E3 interaction surface; other site 452638002440 lipoyl attachment site [posttranslational modification]; other site 452638002441 e3 binding domain; Region: E3_binding; pfam02817 452638002442 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 452638002443 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 452638002444 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 452638002445 TPP-binding site [chemical binding]; other site 452638002446 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 452638002447 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 452638002448 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 452638002449 CoenzymeA binding site [chemical binding]; other site 452638002450 subunit interaction site [polypeptide binding]; other site 452638002451 PHB binding site; other site 452638002452 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 452638002453 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 452638002454 DNA binding residues [nucleotide binding] 452638002455 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 452638002456 IHF - DNA interface [nucleotide binding]; other site 452638002457 IHF dimer interface [polypeptide binding]; other site 452638002458 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 452638002459 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 452638002460 putative tRNA-binding site [nucleotide binding]; other site 452638002461 B3/4 domain; Region: B3_4; pfam03483 452638002462 tRNA synthetase B5 domain; Region: B5; smart00874 452638002463 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 452638002464 dimer interface [polypeptide binding]; other site 452638002465 motif 1; other site 452638002466 motif 3; other site 452638002467 motif 2; other site 452638002468 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 452638002469 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 452638002470 phenylalanyl-tRNA synthetase, alpha subunit; Region: pheS; TIGR00468 452638002471 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 452638002472 dimer interface [polypeptide binding]; other site 452638002473 motif 1; other site 452638002474 active site 452638002475 motif 2; other site 452638002476 motif 3; other site 452638002477 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 452638002478 23S rRNA binding site [nucleotide binding]; other site 452638002479 L21 binding site [polypeptide binding]; other site 452638002480 L13 binding site [polypeptide binding]; other site 452638002481 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 452638002482 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 452638002483 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 452638002484 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 452638002485 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 452638002486 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 452638002487 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 452638002488 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 452638002489 active site 452638002490 dimer interface [polypeptide binding]; other site 452638002491 motif 1; other site 452638002492 motif 2; other site 452638002493 motif 3; other site 452638002494 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 452638002495 anticodon binding site; other site 452638002496 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 452638002497 HD domain; Region: HD_4; pfam13328 452638002498 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 452638002499 synthetase active site [active] 452638002500 NTP binding site [chemical binding]; other site 452638002501 metal binding site [ion binding]; metal-binding site 452638002502 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 452638002503 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 452638002504 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 452638002505 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452638002506 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 452638002507 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 452638002508 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 452638002509 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 452638002510 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 452638002511 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 452638002512 Predicted Fe-S protein [General function prediction only]; Region: COG3313 452638002513 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452638002514 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 452638002515 active site 452638002516 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 452638002517 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 452638002518 active site residue [active] 452638002519 Putative phosphatase (DUF442); Region: DUF442; cl17385 452638002520 Predicted transporter component [General function prediction only]; Region: COG2391 452638002521 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 452638002522 Predicted transporter component [General function prediction only]; Region: COG2391 452638002523 Sulphur transport; Region: Sulf_transp; pfam04143 452638002524 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 452638002525 DsrE/DsrF-like family; Region: DrsE; pfam02635 452638002526 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 452638002527 active site 452638002528 metal binding site [ion binding]; metal-binding site 452638002529 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 452638002530 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 452638002531 Cytochrome c; Region: Cytochrom_C; pfam00034 452638002532 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 452638002533 Cytochrome c [Energy production and conversion]; Region: COG3258 452638002534 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 452638002535 Predicted secreted protein [Function unknown]; Region: COG5501 452638002536 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 452638002537 Cytochrome c; Region: Cytochrom_C; cl11414 452638002538 short chain dehydrogenase; Provisional; Region: PRK07035 452638002539 High potential iron-sulfur protein; Region: HIPIP; pfam01355 452638002540 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 452638002541 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 452638002542 ligand binding site [chemical binding]; other site 452638002543 flexible hinge region; other site 452638002544 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 452638002545 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 452638002546 S-adenosylmethionine binding site [chemical binding]; other site 452638002547 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 452638002548 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 452638002549 homodimer interface [polypeptide binding]; other site 452638002550 substrate-cofactor binding pocket; other site 452638002551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452638002552 catalytic residue [active] 452638002553 amidophosphoribosyltransferase; Provisional; Region: PRK09246 452638002554 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 452638002555 active site 452638002556 tetramer interface [polypeptide binding]; other site 452638002557 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 452638002558 active site 452638002559 Colicin V production protein; Region: Colicin_V; pfam02674 452638002560 Sporulation related domain; Region: SPOR; pfam05036 452638002561 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 452638002562 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 452638002563 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 452638002564 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 452638002565 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 452638002566 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 452638002567 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 452638002568 substrate binding site [chemical binding]; other site 452638002569 active site 452638002570 catalytic residues [active] 452638002571 heterodimer interface [polypeptide binding]; other site 452638002572 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 452638002573 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 452638002574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452638002575 catalytic residue [active] 452638002576 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 452638002577 active site 452638002578 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 452638002579 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 452638002580 dimerization interface 3.5A [polypeptide binding]; other site 452638002581 active site 452638002582 FimV N-terminal domain; Region: FimV_core; TIGR03505 452638002583 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 452638002584 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 452638002585 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 452638002586 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 452638002587 tartrate dehydrogenase; Region: TTC; TIGR02089 452638002588 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 452638002589 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 452638002590 substrate binding site [chemical binding]; other site 452638002591 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 452638002592 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 452638002593 substrate binding site [chemical binding]; other site 452638002594 ligand binding site [chemical binding]; other site 452638002595 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 452638002596 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 452638002597 dimer interface [polypeptide binding]; other site 452638002598 active site 452638002599 citrylCoA binding site [chemical binding]; other site 452638002600 NADH binding [chemical binding]; other site 452638002601 cationic pore residues; other site 452638002602 oxalacetate/citrate binding site [chemical binding]; other site 452638002603 coenzyme A binding site [chemical binding]; other site 452638002604 catalytic triad [active] 452638002605 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 452638002606 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 452638002607 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 452638002608 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 452638002609 L-aspartate oxidase; Provisional; Region: PRK06175 452638002610 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 452638002611 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 452638002612 cardiolipin binding site; other site 452638002613 SdhC subunit interface [polypeptide binding]; other site 452638002614 proximal heme binding site [chemical binding]; other site 452638002615 Iron-sulfur protein interface; other site 452638002616 proximal quinone binding site [chemical binding]; other site 452638002617 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 452638002618 Iron-sulfur protein interface; other site 452638002619 proximal quinone binding site [chemical binding]; other site 452638002620 SdhD (CybS) interface [polypeptide binding]; other site 452638002621 proximal heme binding site [chemical binding]; other site 452638002622 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 452638002623 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 452638002624 DNA-binding site [nucleotide binding]; DNA binding site 452638002625 UTRA domain; Region: UTRA; pfam07702 452638002626 malate dehydrogenase; Provisional; Region: PRK05442 452638002627 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 452638002628 NAD(P) binding site [chemical binding]; other site 452638002629 dimer interface [polypeptide binding]; other site 452638002630 malate binding site [chemical binding]; other site 452638002631 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 452638002632 hypothetical protein; Validated; Region: PRK02101 452638002633 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 452638002634 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 452638002635 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 452638002636 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 452638002637 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 452638002638 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 452638002639 Walker A motif; other site 452638002640 ATP binding site [chemical binding]; other site 452638002641 Walker B motif; other site 452638002642 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 452638002643 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 452638002644 substrate binding site [chemical binding]; other site 452638002645 chorismate binding enzyme; Region: Chorismate_bind; cl10555 452638002646 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 452638002647 Aminotransferase class IV; Region: Aminotran_4; pfam01063 452638002648 substrate-cofactor binding pocket; other site 452638002649 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_4; cd04511 452638002650 nudix motif; other site 452638002651 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 452638002652 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 452638002653 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 452638002654 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 452638002655 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 452638002656 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 452638002657 quinone interaction residues [chemical binding]; other site 452638002658 active site 452638002659 catalytic residues [active] 452638002660 FMN binding site [chemical binding]; other site 452638002661 substrate binding site [chemical binding]; other site 452638002662 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 452638002663 Transcriptional regulator [Transcription]; Region: IclR; COG1414 452638002664 Bacterial transcriptional regulator; Region: IclR; pfam01614 452638002665 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 452638002666 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 452638002667 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 452638002668 EamA-like transporter family; Region: EamA; cl17759 452638002669 EamA-like transporter family; Region: EamA; pfam00892 452638002670 Phasin protein; Region: Phasin_2; cl11491 452638002671 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 452638002672 E3 interaction surface; other site 452638002673 lipoyl attachment site [posttranslational modification]; other site 452638002674 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 452638002675 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 452638002676 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452638002677 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 452638002678 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 452638002679 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 452638002680 E3 interaction surface; other site 452638002681 lipoyl attachment site [posttranslational modification]; other site 452638002682 e3 binding domain; Region: E3_binding; pfam02817 452638002683 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 452638002684 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 452638002685 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 452638002686 dimer interface [polypeptide binding]; other site 452638002687 TPP-binding site [chemical binding]; other site 452638002688 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 452638002689 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 452638002690 RNA binding site [nucleotide binding]; other site 452638002691 active site 452638002692 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 452638002693 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 452638002694 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 452638002695 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 452638002696 translation initiation factor IF-2; Region: IF-2; TIGR00487 452638002697 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 452638002698 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 452638002699 G1 box; other site 452638002700 putative GEF interaction site [polypeptide binding]; other site 452638002701 GTP/Mg2+ binding site [chemical binding]; other site 452638002702 Switch I region; other site 452638002703 G2 box; other site 452638002704 G3 box; other site 452638002705 Switch II region; other site 452638002706 G4 box; other site 452638002707 G5 box; other site 452638002708 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 452638002709 Translation-initiation factor 2; Region: IF-2; pfam11987 452638002710 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 452638002711 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 452638002712 NusA N-terminal domain; Region: NusA_N; pfam08529 452638002713 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 452638002714 RNA binding site [nucleotide binding]; other site 452638002715 homodimer interface [polypeptide binding]; other site 452638002716 NusA-like KH domain; Region: KH_5; pfam13184 452638002717 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 452638002718 G-X-X-G motif; other site 452638002719 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 452638002720 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 452638002721 ribosome maturation protein RimP; Reviewed; Region: PRK00092 452638002722 Sm and related proteins; Region: Sm_like; cl00259 452638002723 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 452638002724 putative oligomer interface [polypeptide binding]; other site 452638002725 putative RNA binding site [nucleotide binding]; other site 452638002726 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 452638002727 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 452638002728 RNA binding surface [nucleotide binding]; other site 452638002729 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 452638002730 probable active site [active] 452638002731 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 452638002732 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 452638002733 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 452638002734 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 452638002735 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 452638002736 NlpC/P60 family; Region: NLPC_P60; pfam00877 452638002737 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 452638002738 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 452638002739 Walker A/P-loop; other site 452638002740 ATP binding site [chemical binding]; other site 452638002741 Q-loop/lid; other site 452638002742 ABC transporter signature motif; other site 452638002743 Walker B; other site 452638002744 D-loop; other site 452638002745 H-loop/switch region; other site 452638002746 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 452638002747 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 452638002748 Walker A/P-loop; other site 452638002749 ATP binding site [chemical binding]; other site 452638002750 Q-loop/lid; other site 452638002751 ABC transporter signature motif; other site 452638002752 Walker B; other site 452638002753 D-loop; other site 452638002754 H-loop/switch region; other site 452638002755 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 452638002756 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 452638002757 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 452638002758 dimer interface [polypeptide binding]; other site 452638002759 conserved gate region; other site 452638002760 putative PBP binding loops; other site 452638002761 ABC-ATPase subunit interface; other site 452638002762 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 452638002763 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 452638002764 dimer interface [polypeptide binding]; other site 452638002765 conserved gate region; other site 452638002766 putative PBP binding loops; other site 452638002767 ABC-ATPase subunit interface; other site 452638002768 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 452638002769 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 452638002770 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 452638002771 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 452638002772 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 452638002773 NAD binding site [chemical binding]; other site 452638002774 homotetramer interface [polypeptide binding]; other site 452638002775 homodimer interface [polypeptide binding]; other site 452638002776 substrate binding site [chemical binding]; other site 452638002777 active site 452638002778 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 452638002779 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 452638002780 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 452638002781 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 452638002782 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 452638002783 BNR repeat-like domain; Region: BNR_2; pfam13088 452638002784 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 452638002785 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 452638002786 Cytochrome c; Region: Cytochrom_C; cl11414 452638002787 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 452638002788 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 452638002789 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 452638002790 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 452638002791 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 452638002792 HSP70 interaction site [polypeptide binding]; other site 452638002793 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 452638002794 substrate binding site [polypeptide binding]; other site 452638002795 dimer interface [polypeptide binding]; other site 452638002796 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 452638002797 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 452638002798 ABC transporter ATPase component; Reviewed; Region: PRK11147 452638002799 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 452638002800 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 452638002801 ABC transporter; Region: ABC_tran_2; pfam12848 452638002802 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 452638002803 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 452638002804 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 452638002805 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 452638002806 FeS/SAM binding site; other site 452638002807 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 452638002808 YaeQ protein; Region: YaeQ; pfam07152 452638002809 PIN domain; Region: PIN_3; pfam13470 452638002810 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 452638002811 SlyX; Region: SlyX; pfam04102 452638002812 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 452638002813 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 452638002814 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 452638002815 PhnA protein; Region: PhnA; pfam03831 452638002816 protease 4; Provisional; Region: PRK10949 452638002817 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 452638002818 ATP binding site [chemical binding]; other site 452638002819 G-X-G motif; other site 452638002820 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 452638002821 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 452638002822 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 452638002823 dimer interface [polypeptide binding]; other site 452638002824 phosphorylation site [posttranslational modification] 452638002825 Response regulator receiver domain; Region: Response_reg; pfam00072 452638002826 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 452638002827 active site 452638002828 phosphorylation site [posttranslational modification] 452638002829 intermolecular recognition site; other site 452638002830 dimerization interface [polypeptide binding]; other site 452638002831 transcriptional regulator PhoU; Provisional; Region: PRK11115 452638002832 PhoU domain; Region: PhoU; pfam01895 452638002833 PhoU domain; Region: PhoU; pfam01895 452638002834 PBP superfamily domain; Region: PBP_like_2; cl17296 452638002835 MltA-interacting protein MipA; Region: MipA; cl01504 452638002836 seryl-tRNA synthetase; Provisional; Region: PRK05431 452638002837 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 452638002838 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 452638002839 dimer interface [polypeptide binding]; other site 452638002840 active site 452638002841 motif 1; other site 452638002842 motif 2; other site 452638002843 motif 3; other site 452638002844 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 452638002845 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 452638002846 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 452638002847 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 452638002848 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 452638002849 thioredoxin reductase; Provisional; Region: PRK10262 452638002850 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 452638002851 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452638002852 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 452638002853 dimer interface [polypeptide binding]; other site 452638002854 substrate binding site [chemical binding]; other site 452638002855 metal binding sites [ion binding]; metal-binding site 452638002856 NAD synthetase; Provisional; Region: PRK13981 452638002857 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 452638002858 multimer interface [polypeptide binding]; other site 452638002859 active site 452638002860 catalytic triad [active] 452638002861 protein interface 1 [polypeptide binding]; other site 452638002862 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 452638002863 homodimer interface [polypeptide binding]; other site 452638002864 NAD binding pocket [chemical binding]; other site 452638002865 ATP binding pocket [chemical binding]; other site 452638002866 Mg binding site [ion binding]; other site 452638002867 active-site loop [active] 452638002868 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 452638002869 Protein of unknown function (DUF461); Region: DUF461; pfam04314 452638002870 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 452638002871 AMP binding site [chemical binding]; other site 452638002872 metal binding site [ion binding]; metal-binding site 452638002873 active site 452638002874 aminopeptidase N; Provisional; Region: pepN; PRK14015 452638002875 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 452638002876 active site 452638002877 Zn binding site [ion binding]; other site 452638002878 Predicted membrane protein [Function unknown]; Region: COG2119 452638002879 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 452638002880 putative proline-specific permease; Provisional; Region: proY; PRK10580 452638002881 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 452638002882 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 452638002883 putative ATP binding site [chemical binding]; other site 452638002884 putative substrate interface [chemical binding]; other site 452638002885 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 452638002886 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 452638002887 LysE type translocator; Region: LysE; cl00565 452638002888 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 452638002889 DEAD-like helicases superfamily; Region: DEXDc; smart00487 452638002890 ATP binding site [chemical binding]; other site 452638002891 Mg++ binding site [ion binding]; other site 452638002892 motif III; other site 452638002893 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 452638002894 nucleotide binding region [chemical binding]; other site 452638002895 ATP-binding site [chemical binding]; other site 452638002896 Chorismate lyase; Region: Chor_lyase; cl01230 452638002897 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 452638002898 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 452638002899 active site 452638002900 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 452638002901 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 452638002902 domain interfaces; other site 452638002903 active site 452638002904 argininosuccinate lyase; Provisional; Region: PRK00855 452638002905 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 452638002906 active sites [active] 452638002907 tetramer interface [polypeptide binding]; other site 452638002908 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 452638002909 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 452638002910 DctM-like transporters; Region: DctM; pfam06808 452638002911 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 452638002912 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 452638002913 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 452638002914 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452638002915 catalytic residue [active] 452638002916 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 452638002917 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 452638002918 trimer interface [polypeptide binding]; other site 452638002919 active site 452638002920 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 452638002921 Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: MetG; COG0143 452638002922 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 452638002923 active site 452638002924 HIGH motif; other site 452638002925 KMSKS motif; other site 452638002926 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 452638002927 tRNA binding surface [nucleotide binding]; other site 452638002928 anticodon binding site; other site 452638002929 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 452638002930 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 452638002931 pantoate--beta-alanine ligase; Region: panC; TIGR00018 452638002932 Pantoate-beta-alanine ligase; Region: PanC; cd00560 452638002933 active site 452638002934 ATP-binding site [chemical binding]; other site 452638002935 pantoate-binding site; other site 452638002936 HXXH motif; other site 452638002937 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 452638002938 formyl-coenzyme A transferase; Provisional; Region: PRK05398 452638002939 CoA-transferase family III; Region: CoA_transf_3; pfam02515 452638002940 CoA-transferase family III; Region: CoA_transf_3; pfam02515 452638002941 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 452638002942 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 452638002943 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 452638002944 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 452638002945 Transcriptional regulator [Transcription]; Region: LysR; COG0583 452638002946 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 452638002947 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 452638002948 dimerization interface [polypeptide binding]; other site 452638002949 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 452638002950 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 452638002951 multifunctional aminopeptidase A; Provisional; Region: PRK00913 452638002952 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 452638002953 interface (dimer of trimers) [polypeptide binding]; other site 452638002954 Substrate-binding/catalytic site; other site 452638002955 Zn-binding sites [ion binding]; other site 452638002956 Predicted permeases [General function prediction only]; Region: COG0795 452638002957 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 452638002958 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 452638002959 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 452638002960 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 452638002961 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 452638002962 dimerization interface [polypeptide binding]; other site 452638002963 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 452638002964 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 452638002965 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 452638002966 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 452638002967 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 452638002968 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 452638002969 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 452638002970 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 452638002971 active site 452638002972 (T/H)XGH motif; other site 452638002973 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 452638002974 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 452638002975 Maf-like protein; Region: Maf; pfam02545 452638002976 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 452638002977 active site 452638002978 dimer interface [polypeptide binding]; other site 452638002979 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 452638002980 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 452638002981 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 452638002982 Walker A/P-loop; other site 452638002983 ATP binding site [chemical binding]; other site 452638002984 Q-loop/lid; other site 452638002985 ABC transporter signature motif; other site 452638002986 Walker B; other site 452638002987 D-loop; other site 452638002988 H-loop/switch region; other site 452638002989 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 452638002990 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 452638002991 putative metal binding site; other site 452638002992 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 452638002993 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 452638002994 Substrate binding site; other site 452638002995 metal-binding site 452638002996 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 452638002997 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 452638002998 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 452638002999 putative active site [active] 452638003000 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 452638003001 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 452638003002 putative active site [active] 452638003003 putative PHP Thumb interface [polypeptide binding]; other site 452638003004 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 452638003005 generic binding surface II; other site 452638003006 generic binding surface I; other site 452638003007 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452638003008 active site 452638003009 KMSKS motif; other site 452638003010 helicase 45; Provisional; Region: PTZ00424 452638003011 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 452638003012 ATP binding site [chemical binding]; other site 452638003013 Mg++ binding site [ion binding]; other site 452638003014 motif III; other site 452638003015 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 452638003016 nucleotide binding region [chemical binding]; other site 452638003017 ATP-binding site [chemical binding]; other site 452638003018 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 452638003019 Transcriptional regulators [Transcription]; Region: GntR; COG1802 452638003020 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 452638003021 DNA-binding site [nucleotide binding]; DNA binding site 452638003022 FCD domain; Region: FCD; pfam07729 452638003023 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 452638003024 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 452638003025 AzlC protein; Region: AzlC; pfam03591 452638003026 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 452638003027 AMIN domain; Region: AMIN; pfam11741 452638003028 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 452638003029 active site 452638003030 metal binding site [ion binding]; metal-binding site 452638003031 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 452638003032 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 452638003033 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 452638003034 active site 452638003035 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 452638003036 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 452638003037 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 452638003038 Predicted membrane protein [Function unknown]; Region: COG3235 452638003039 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 452638003040 putative hydrolase; Provisional; Region: PRK11460 452638003041 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 452638003042 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 452638003043 peptidase PmbA; Provisional; Region: PRK11040 452638003044 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 452638003045 catalytic site [active] 452638003046 putative active site [active] 452638003047 putative substrate binding site [chemical binding]; other site 452638003048 dimer interface [polypeptide binding]; other site 452638003049 Peptidase family M48; Region: Peptidase_M48; pfam01435 452638003050 GTPase RsgA; Reviewed; Region: PRK00098 452638003051 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 452638003052 RNA binding site [nucleotide binding]; other site 452638003053 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 452638003054 GTPase/Zn-binding domain interface [polypeptide binding]; other site 452638003055 GTP/Mg2+ binding site [chemical binding]; other site 452638003056 G4 box; other site 452638003057 G5 box; other site 452638003058 G1 box; other site 452638003059 Switch I region; other site 452638003060 G2 box; other site 452638003061 G3 box; other site 452638003062 Switch II region; other site 452638003063 CobD/Cbib protein; Region: CobD_Cbib; cl00561 452638003064 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 452638003065 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 452638003066 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 452638003067 RimM N-terminal domain; Region: RimM; pfam01782 452638003068 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 452638003069 META domain; Region: META; pfam03724 452638003070 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 452638003071 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 452638003072 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 452638003073 active site 452638003074 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 452638003075 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 452638003076 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 452638003077 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 452638003078 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 452638003079 Ligand binding site [chemical binding]; other site 452638003080 Electron transfer flavoprotein domain; Region: ETF; pfam01012 452638003081 acyl-CoA synthetase; Validated; Region: PRK08162 452638003082 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 452638003083 acyl-activating enzyme (AAE) consensus motif; other site 452638003084 putative active site [active] 452638003085 AMP binding site [chemical binding]; other site 452638003086 putative CoA binding site [chemical binding]; other site 452638003087 Transglycosylase SLT domain; Region: SLT_2; pfam13406 452638003088 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 452638003089 N-acetyl-D-glucosamine binding site [chemical binding]; other site 452638003090 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 452638003091 Helix-hairpin-helix motif; Region: HHH; pfam00633 452638003092 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 452638003093 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 452638003094 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 452638003095 NADP binding site [chemical binding]; other site 452638003096 homopentamer interface [polypeptide binding]; other site 452638003097 substrate binding site [chemical binding]; other site 452638003098 active site 452638003099 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 452638003100 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 452638003101 putative ribose interaction site [chemical binding]; other site 452638003102 putative ADP binding site [chemical binding]; other site 452638003103 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 452638003104 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 452638003105 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 452638003106 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 452638003107 tetratricopeptide repeat protein; Provisional; Region: PRK11788 452638003108 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 452638003109 TPR motif; other site 452638003110 binding surface 452638003111 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 452638003112 binding surface 452638003113 TPR motif; other site 452638003114 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 452638003115 IHF dimer interface [polypeptide binding]; other site 452638003116 IHF - DNA interface [nucleotide binding]; other site 452638003117 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 452638003118 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 452638003119 RNA binding site [nucleotide binding]; other site 452638003120 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 452638003121 RNA binding site [nucleotide binding]; other site 452638003122 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 452638003123 RNA binding site [nucleotide binding]; other site 452638003124 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 452638003125 RNA binding site [nucleotide binding]; other site 452638003126 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 452638003127 RNA binding site [nucleotide binding]; other site 452638003128 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 452638003129 RNA binding site [nucleotide binding]; other site 452638003130 cytidylate kinase; Provisional; Region: cmk; PRK00023 452638003131 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 452638003132 CMP-binding site; other site 452638003133 The sites determining sugar specificity; other site 452638003134 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 452638003135 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 452638003136 hinge; other site 452638003137 active site 452638003138 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 452638003139 prephenate dehydrogenase; Validated; Region: PRK08507 452638003140 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 452638003141 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 452638003142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452638003143 homodimer interface [polypeptide binding]; other site 452638003144 catalytic residue [active] 452638003145 Chorismate mutase type II; Region: CM_2; cl00693 452638003146 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 452638003147 Prephenate dehydratase; Region: PDT; pfam00800 452638003148 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 452638003149 putative L-Phe binding site [chemical binding]; other site 452638003150 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 452638003151 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 452638003152 catalytic residue [active] 452638003153 DNA gyrase subunit A; Validated; Region: PRK05560 452638003154 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 452638003155 CAP-like domain; other site 452638003156 active site 452638003157 primary dimer interface [polypeptide binding]; other site 452638003158 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452638003159 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452638003160 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452638003161 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452638003162 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452638003163 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 452638003164 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 452638003165 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 452638003166 ligand binding site [chemical binding]; other site 452638003167 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 452638003168 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 452638003169 S-adenosylmethionine binding site [chemical binding]; other site 452638003170 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 452638003171 TPR repeat; Region: TPR_11; pfam13414 452638003172 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 452638003173 binding surface 452638003174 TPR motif; other site 452638003175 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 452638003176 Tetratricopeptide repeat; Region: TPR_16; pfam13432 452638003177 TPR motif; other site 452638003178 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 452638003179 rhodanese superfamily protein; Provisional; Region: PRK05320 452638003180 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 452638003181 active site residue [active] 452638003182 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 452638003183 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 452638003184 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 452638003185 Chromate transporter; Region: Chromate_transp; cl17781 452638003186 Chromate transporter; Region: Chromate_transp; pfam02417 452638003187 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 452638003188 CrcB-like protein; Region: CRCB; cl09114 452638003189 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 452638003190 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 452638003191 putative active site [active] 452638003192 metal binding site [ion binding]; metal-binding site 452638003193 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 452638003194 Peptidase family M50; Region: Peptidase_M50; pfam02163 452638003195 active site 452638003196 putative substrate binding region [chemical binding]; other site 452638003197 Cytochrome C' Region: Cytochrom_C_2; pfam01322 452638003198 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 452638003199 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 452638003200 H+ Antiporter protein; Region: 2A0121; TIGR00900 452638003201 putative substrate translocation pore; other site 452638003202 Class I aldolases; Region: Aldolase_Class_I; cl17187 452638003203 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 452638003204 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 452638003205 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 452638003206 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 452638003207 Peptidase family M23; Region: Peptidase_M23; pfam01551 452638003208 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 452638003209 Ligand Binding Site [chemical binding]; other site 452638003210 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 452638003211 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 452638003212 putative transporter; Provisional; Region: PRK11660 452638003213 Sulfate transporter family; Region: Sulfate_transp; pfam00916 452638003214 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 452638003215 Family description; Region: DsbD_2; pfam13386 452638003216 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 452638003217 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 452638003218 ligand binding site [chemical binding]; other site 452638003219 flexible hinge region; other site 452638003220 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 452638003221 putative switch regulator; other site 452638003222 non-specific DNA interactions [nucleotide binding]; other site 452638003223 DNA binding site [nucleotide binding] 452638003224 sequence specific DNA binding site [nucleotide binding]; other site 452638003225 putative cAMP binding site [chemical binding]; other site 452638003226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 452638003227 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 452638003228 4Fe-4S binding domain; Region: Fer4_5; pfam12801 452638003229 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 452638003230 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 452638003231 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 452638003232 Cytochrome c; Region: Cytochrom_C; pfam00034 452638003233 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 452638003234 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 452638003235 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 452638003236 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 452638003237 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 452638003238 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 452638003239 Low-spin heme binding site [chemical binding]; other site 452638003240 Putative water exit pathway; other site 452638003241 Binuclear center (active site) [active] 452638003242 Putative proton exit pathway; other site 452638003243 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 452638003244 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 452638003245 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 452638003246 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 452638003247 metal-binding site [ion binding] 452638003248 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 452638003249 Soluble P-type ATPase [General function prediction only]; Region: COG4087 452638003250 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 452638003251 Biofilm formation and stress response factor; Region: BsmA; pfam10014 452638003252 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 452638003253 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 452638003254 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 452638003255 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 452638003256 binding surface 452638003257 TPR motif; other site 452638003258 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 452638003259 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 452638003260 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 452638003261 catalytic residues [active] 452638003262 central insert; other site 452638003263 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 452638003264 CcmE; Region: CcmE; pfam03100 452638003265 Heme exporter protein D (CcmD); Region: CcmD; cl11475 452638003266 heme exporter protein CcmC; Region: ccmC; TIGR01191 452638003267 heme exporter protein CcmB; Region: ccmB; TIGR01190 452638003268 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 452638003269 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 452638003270 Walker A/P-loop; other site 452638003271 ATP binding site [chemical binding]; other site 452638003272 Q-loop/lid; other site 452638003273 ABC transporter signature motif; other site 452638003274 Walker B; other site 452638003275 D-loop; other site 452638003276 H-loop/switch region; other site 452638003277 Predicted membrane protein [Function unknown]; Region: COG2259 452638003278 MarR family; Region: MarR_2; cl17246 452638003279 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 452638003280 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 452638003281 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 452638003282 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 452638003283 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 452638003284 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 452638003285 putative active site [active] 452638003286 Zn binding site [ion binding]; other site 452638003287 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 452638003288 peroxiredoxin; Region: AhpC; TIGR03137 452638003289 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 452638003290 dimer interface [polypeptide binding]; other site 452638003291 decamer (pentamer of dimers) interface [polypeptide binding]; other site 452638003292 catalytic triad [active] 452638003293 peroxidatic and resolving cysteines [active] 452638003294 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 452638003295 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 452638003296 catalytic residue [active] 452638003297 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 452638003298 catalytic residues [active] 452638003299 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 452638003300 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 452638003301 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 452638003302 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 452638003303 putative FMN binding site [chemical binding]; other site 452638003304 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 452638003305 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 452638003306 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 452638003307 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 452638003308 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452638003309 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 452638003310 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 452638003311 DNA binding residues [nucleotide binding] 452638003312 DNA primase; Validated; Region: dnaG; PRK05667 452638003313 CHC2 zinc finger; Region: zf-CHC2; pfam01807 452638003314 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 452638003315 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 452638003316 active site 452638003317 metal binding site [ion binding]; metal-binding site 452638003318 interdomain interaction site; other site 452638003319 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 452638003320 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 452638003321 Yqey-like protein; Region: YqeY; pfam09424 452638003322 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 452638003323 UGMP family protein; Validated; Region: PRK09604 452638003324 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 452638003325 putative GTP cyclohydrolase; Provisional; Region: PRK13674 452638003326 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 452638003327 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 452638003328 TPP-binding site; other site 452638003329 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 452638003330 PYR/PP interface [polypeptide binding]; other site 452638003331 dimer interface [polypeptide binding]; other site 452638003332 TPP binding site [chemical binding]; other site 452638003333 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 452638003334 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 452638003335 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 452638003336 substrate binding pocket [chemical binding]; other site 452638003337 chain length determination region; other site 452638003338 substrate-Mg2+ binding site; other site 452638003339 catalytic residues [active] 452638003340 aspartate-rich region 1; other site 452638003341 active site lid residues [active] 452638003342 aspartate-rich region 2; other site 452638003343 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 452638003344 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 452638003345 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 452638003346 [2Fe-2S] cluster binding site [ion binding]; other site 452638003347 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 452638003348 alpha subunit interface [polypeptide binding]; other site 452638003349 active site 452638003350 substrate binding site [chemical binding]; other site 452638003351 Fe binding site [ion binding]; other site 452638003352 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 452638003353 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 452638003354 active site residue [active] 452638003355 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 452638003356 active site residue [active] 452638003357 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 452638003358 ZIP Zinc transporter; Region: Zip; pfam02535 452638003359 DNA polymerase I; Provisional; Region: PRK05755 452638003360 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 452638003361 active site 452638003362 metal binding site 1 [ion binding]; metal-binding site 452638003363 putative 5' ssDNA interaction site; other site 452638003364 metal binding site 3; metal-binding site 452638003365 metal binding site 2 [ion binding]; metal-binding site 452638003366 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 452638003367 putative DNA binding site [nucleotide binding]; other site 452638003368 putative metal binding site [ion binding]; other site 452638003369 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 452638003370 active site 452638003371 catalytic site [active] 452638003372 substrate binding site [chemical binding]; other site 452638003373 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 452638003374 active site 452638003375 DNA binding site [nucleotide binding] 452638003376 catalytic site [active] 452638003377 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 452638003378 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 452638003379 putative active site [active] 452638003380 putative substrate binding site [chemical binding]; other site 452638003381 ATP binding site [chemical binding]; other site 452638003382 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 452638003383 Part of AAA domain; Region: AAA_19; pfam13245 452638003384 Family description; Region: UvrD_C_2; pfam13538 452638003385 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 452638003386 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452638003387 active site 452638003388 HIGH motif; other site 452638003389 nucleotide binding site [chemical binding]; other site 452638003390 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 452638003391 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 452638003392 active site 452638003393 KMSKS motif; other site 452638003394 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 452638003395 tRNA binding surface [nucleotide binding]; other site 452638003396 anticodon binding site; other site 452638003397 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 452638003398 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 452638003399 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 452638003400 active site 452638003401 tetramer interface; other site 452638003402 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 452638003403 CPxP motif; other site 452638003404 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 452638003405 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 452638003406 motif 1; other site 452638003407 active site 452638003408 motif 2; other site 452638003409 motif 3; other site 452638003410 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 452638003411 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 452638003412 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 452638003413 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 452638003414 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452638003415 active site 452638003416 HIGH motif; other site 452638003417 nucleotide binding site [chemical binding]; other site 452638003418 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 452638003419 KMSKS motif; other site 452638003420 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 452638003421 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 452638003422 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 452638003423 putative NAD(P) binding site [chemical binding]; other site 452638003424 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 452638003425 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 452638003426 catalytic loop [active] 452638003427 iron binding site [ion binding]; other site 452638003428 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 452638003429 FAD binding pocket [chemical binding]; other site 452638003430 FAD binding motif [chemical binding]; other site 452638003431 phosphate binding motif [ion binding]; other site 452638003432 beta-alpha-beta structure motif; other site 452638003433 NAD binding pocket [chemical binding]; other site 452638003434 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 452638003435 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 452638003436 inhibitor-cofactor binding pocket; inhibition site 452638003437 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452638003438 catalytic residue [active] 452638003439 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 452638003440 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 452638003441 Walker A/P-loop; other site 452638003442 ATP binding site [chemical binding]; other site 452638003443 Q-loop/lid; other site 452638003444 ABC transporter signature motif; other site 452638003445 Walker B; other site 452638003446 D-loop; other site 452638003447 H-loop/switch region; other site 452638003448 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 452638003449 Walker A/P-loop; other site 452638003450 ATP binding site [chemical binding]; other site 452638003451 ABC transporter; Region: ABC_tran; pfam00005 452638003452 Q-loop/lid; other site 452638003453 ABC transporter signature motif; other site 452638003454 Walker B; other site 452638003455 D-loop; other site 452638003456 H-loop/switch region; other site 452638003457 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 452638003458 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 452638003459 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 452638003460 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 452638003461 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 452638003462 MPN+ (JAMM) motif; other site 452638003463 Zinc-binding site [ion binding]; other site 452638003464 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 452638003465 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 452638003466 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 452638003467 Fatty acid desaturase; Region: FA_desaturase; pfam00487 452638003468 Di-iron ligands [ion binding]; other site 452638003469 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 452638003470 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 452638003471 S-adenosylmethionine binding site [chemical binding]; other site 452638003472 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 452638003473 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 452638003474 active site 452638003475 substrate binding site [chemical binding]; other site 452638003476 cosubstrate binding site; other site 452638003477 catalytic site [active] 452638003478 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 452638003479 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 452638003480 active site 452638003481 HIGH motif; other site 452638003482 nucleotide binding site [chemical binding]; other site 452638003483 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 452638003484 active site 452638003485 KMSKS motif; other site 452638003486 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 452638003487 tRNA binding surface [nucleotide binding]; other site 452638003488 anticodon binding site; other site 452638003489 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 452638003490 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 452638003491 lipoprotein signal peptidase; Provisional; Region: PRK14787 452638003492 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 452638003493 Flavoprotein; Region: Flavoprotein; pfam02441 452638003494 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 452638003495 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 452638003496 trimer interface [polypeptide binding]; other site 452638003497 active site 452638003498 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 452638003499 Clp amino terminal domain; Region: Clp_N; pfam02861 452638003500 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 452638003501 Walker A motif; other site 452638003502 ATP binding site [chemical binding]; other site 452638003503 Walker B motif; other site 452638003504 arginine finger; other site 452638003505 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 452638003506 Walker A motif; other site 452638003507 ATP binding site [chemical binding]; other site 452638003508 Walker B motif; other site 452638003509 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 452638003510 Uncharacterized conserved protein [Function unknown]; Region: COG2127 452638003511 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 452638003512 DNA-binding site [nucleotide binding]; DNA binding site 452638003513 RNA-binding motif; other site 452638003514 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 452638003515 argininosuccinate synthase; Provisional; Region: PRK13820 452638003516 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 452638003517 ANP binding site [chemical binding]; other site 452638003518 Substrate Binding Site II [chemical binding]; other site 452638003519 Substrate Binding Site I [chemical binding]; other site 452638003520 ornithine carbamoyltransferase; Provisional; Region: PRK00779 452638003521 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 452638003522 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 452638003523 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 452638003524 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 452638003525 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 452638003526 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 452638003527 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 452638003528 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 452638003529 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 452638003530 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 452638003531 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 452638003532 Walker A motif; other site 452638003533 ATP binding site [chemical binding]; other site 452638003534 Walker B motif; other site 452638003535 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 452638003536 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 452638003537 dimerization interface [polypeptide binding]; other site 452638003538 putative ATP binding site [chemical binding]; other site 452638003539 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 452638003540 Domain of unknown function DUF20; Region: UPF0118; pfam01594 452638003541 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 452638003542 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 452638003543 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 452638003544 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 452638003545 poly(A) polymerase; Region: pcnB; TIGR01942 452638003546 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 452638003547 active site 452638003548 NTP binding site [chemical binding]; other site 452638003549 metal binding triad [ion binding]; metal-binding site 452638003550 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 452638003551 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 452638003552 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 452638003553 oligomerization interface [polypeptide binding]; other site 452638003554 active site 452638003555 metal binding site [ion binding]; metal-binding site 452638003556 chaperone protein DnaJ; Provisional; Region: PRK10767 452638003557 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 452638003558 HSP70 interaction site [polypeptide binding]; other site 452638003559 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 452638003560 Zn binding sites [ion binding]; other site 452638003561 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 452638003562 dimer interface [polypeptide binding]; other site 452638003563 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 452638003564 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 452638003565 nucleotide binding site [chemical binding]; other site 452638003566 GrpE; Region: GrpE; pfam01025 452638003567 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 452638003568 dimer interface [polypeptide binding]; other site 452638003569 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 452638003570 ferrochelatase; Reviewed; Region: hemH; PRK00035 452638003571 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 452638003572 C-terminal domain interface [polypeptide binding]; other site 452638003573 active site 452638003574 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 452638003575 active site 452638003576 N-terminal domain interface [polypeptide binding]; other site 452638003577 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 452638003578 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 452638003579 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 452638003580 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 452638003581 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 452638003582 AAA domain; Region: AAA_23; pfam13476 452638003583 Walker A/P-loop; other site 452638003584 ATP binding site [chemical binding]; other site 452638003585 Q-loop/lid; other site 452638003586 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 452638003587 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 452638003588 ABC transporter signature motif; other site 452638003589 Walker B; other site 452638003590 D-loop; other site 452638003591 H-loop/switch region; other site 452638003592 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 452638003593 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 452638003594 metal binding triad; other site 452638003595 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 452638003596 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 452638003597 metal binding triad; other site 452638003598 TIGR02099 family protein; Region: TIGR02099 452638003599 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 452638003600 protease TldD; Provisional; Region: tldD; PRK10735 452638003601 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 452638003602 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 452638003603 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 452638003604 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 452638003605 Cysteine-rich domain; Region: CCG; pfam02754 452638003606 Cysteine-rich domain; Region: CCG; pfam02754 452638003607 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 452638003608 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 452638003609 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 452638003610 UbiA prenyltransferase family; Region: UbiA; pfam01040 452638003611 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 452638003612 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 452638003613 generic binding surface II; other site 452638003614 ssDNA binding site; other site 452638003615 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 452638003616 ATP binding site [chemical binding]; other site 452638003617 putative Mg++ binding site [ion binding]; other site 452638003618 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 452638003619 nucleotide binding region [chemical binding]; other site 452638003620 ATP-binding site [chemical binding]; other site 452638003621 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 452638003622 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 452638003623 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 452638003624 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 452638003625 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 452638003626 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 452638003627 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 452638003628 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 452638003629 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 452638003630 Protein export membrane protein; Region: SecD_SecF; pfam02355 452638003631 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 452638003632 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 452638003633 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 452638003634 adenylosuccinate lyase; Provisional; Region: PRK09285 452638003635 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 452638003636 tetramer interface [polypeptide binding]; other site 452638003637 active site 452638003638 putative glutathione S-transferase; Provisional; Region: PRK10357 452638003639 GST_N family, unknown subfamily 3; 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_3; cd03049 452638003640 putative C-terminal domain interface [polypeptide binding]; other site 452638003641 putative GSH binding site (G-site) [chemical binding]; other site 452638003642 putative dimer interface [polypeptide binding]; other site 452638003643 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 452638003644 dimer interface [polypeptide binding]; other site 452638003645 N-terminal domain interface [polypeptide binding]; other site 452638003646 putative substrate binding pocket (H-site) [chemical binding]; other site 452638003647 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 452638003648 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 452638003649 Ligand Binding Site [chemical binding]; other site 452638003650 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 452638003651 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 452638003652 ligand binding site [chemical binding]; other site 452638003653 homodimer interface [polypeptide binding]; other site 452638003654 NAD(P) binding site [chemical binding]; other site 452638003655 trimer interface B [polypeptide binding]; other site 452638003656 trimer interface A [polypeptide binding]; other site 452638003657 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 452638003658 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 452638003659 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 452638003660 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 452638003661 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 452638003662 ring oligomerisation interface [polypeptide binding]; other site 452638003663 ATP/Mg binding site [chemical binding]; other site 452638003664 stacking interactions; other site 452638003665 hinge regions; other site 452638003666 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 452638003667 oligomerisation interface [polypeptide binding]; other site 452638003668 mobile loop; other site 452638003669 roof hairpin; other site 452638003670 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 452638003671 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 452638003672 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 452638003673 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 452638003674 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 452638003675 NAD(P) binding site [chemical binding]; other site 452638003676 ATP-grasp domain; Region: ATP-grasp; pfam02222 452638003677 AIR carboxylase; Region: AIRC; pfam00731 452638003678 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 452638003679 ATP binding site [chemical binding]; other site 452638003680 active site 452638003681 substrate binding site [chemical binding]; other site 452638003682 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 452638003683 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 452638003684 intersubunit interface [polypeptide binding]; other site 452638003685 active site 452638003686 zinc binding site [ion binding]; other site 452638003687 Na+ binding site [ion binding]; other site 452638003688 pyruvate kinase; Provisional; Region: PRK05826 452638003689 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 452638003690 domain interfaces; other site 452638003691 active site 452638003692 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 452638003693 Phosphoglycerate kinase; Region: PGK; pfam00162 452638003694 substrate binding site [chemical binding]; other site 452638003695 hinge regions; other site 452638003696 ADP binding site [chemical binding]; other site 452638003697 catalytic site [active] 452638003698 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 452638003699 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 452638003700 homodimer interface [polypeptide binding]; other site 452638003701 substrate-cofactor binding pocket; other site 452638003702 catalytic residue [active] 452638003703 Zinc-finger domain; Region: zf-CHCC; cl01821 452638003704 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 452638003705 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 452638003706 putative active site [active] 452638003707 SnoaL-like domain; Region: SnoaL_3; pfam13474 452638003708 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 452638003709 Peptidase family M48; Region: Peptidase_M48; pfam01435 452638003710 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 452638003711 binding surface 452638003712 TPR motif; other site 452638003713 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 452638003714 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 452638003715 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 452638003716 CoA binding domain; Region: CoA_binding; smart00881 452638003717 CoA-ligase; Region: Ligase_CoA; pfam00549 452638003718 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 452638003719 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 452638003720 CoA-ligase; Region: Ligase_CoA; pfam00549 452638003721 recombination regulator RecX; Reviewed; Region: recX; PRK00117 452638003722 recombinase A; Provisional; Region: recA; PRK09354 452638003723 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 452638003724 hexamer interface [polypeptide binding]; other site 452638003725 Walker A motif; other site 452638003726 ATP binding site [chemical binding]; other site 452638003727 Walker B motif; other site 452638003728 Predicted membrane protein [Function unknown]; Region: COG2860 452638003729 UPF0126 domain; Region: UPF0126; pfam03458 452638003730 UPF0126 domain; Region: UPF0126; pfam03458 452638003731 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 452638003732 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 452638003733 trimer interface [polypeptide binding]; other site 452638003734 putative metal binding site [ion binding]; other site 452638003735 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 452638003736 OsmC-like protein; Region: OsmC; pfam02566 452638003737 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 452638003738 active site 452638003739 catalytic residue [active] 452638003740 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 452638003741 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 452638003742 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 452638003743 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 452638003744 FeS/SAM binding site; other site 452638003745 TRAM domain; Region: TRAM; pfam01938 452638003746 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 452638003747 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 452638003748 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 452638003749 Transporter associated domain; Region: CorC_HlyC; smart01091 452638003750 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 452638003751 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 452638003752 putative active site [active] 452638003753 catalytic triad [active] 452638003754 putative dimer interface [polypeptide binding]; other site 452638003755 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 452638003756 dimer interface [polypeptide binding]; other site 452638003757 motif 1; other site 452638003758 active site 452638003759 motif 2; other site 452638003760 motif 3; other site 452638003761 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 452638003762 DALR anticodon binding domain; Region: DALR_1; pfam05746 452638003763 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 452638003764 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 452638003765 active site 452638003766 motif I; other site 452638003767 motif II; other site 452638003768 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 452638003769 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 452638003770 putative acyl-acceptor binding pocket; other site 452638003771 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 452638003772 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 452638003773 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 452638003774 SurA N-terminal domain; Region: SurA_N; pfam09312 452638003775 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 452638003776 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 452638003777 OstA-like protein; Region: OstA; cl00844 452638003778 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 452638003779 Organic solvent tolerance protein; Region: OstA_C; pfam04453 452638003780 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 452638003781 Phosphotransferase enzyme family; Region: APH; pfam01636 452638003782 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 452638003783 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 452638003784 Substrate binding site; other site 452638003785 metal-binding site 452638003786 proline aminopeptidase P II; Provisional; Region: PRK10879 452638003787 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 452638003788 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 452638003789 active site 452638003790 hypothetical protein; Provisional; Region: PRK06996 452638003791 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 452638003792 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 452638003793 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 452638003794 FMN binding site [chemical binding]; other site 452638003795 active site 452638003796 catalytic residues [active] 452638003797 substrate binding site [chemical binding]; other site 452638003798 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 452638003799 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 452638003800 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 452638003801 purine monophosphate binding site [chemical binding]; other site 452638003802 dimer interface [polypeptide binding]; other site 452638003803 putative catalytic residues [active] 452638003804 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 452638003805 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 452638003806 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 452638003807 active site 452638003808 putative DNA-binding cleft [nucleotide binding]; other site 452638003809 dimer interface [polypeptide binding]; other site 452638003810 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 452638003811 RuvA N terminal domain; Region: RuvA_N; pfam01330 452638003812 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 452638003813 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 452638003814 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 452638003815 Walker A motif; other site 452638003816 ATP binding site [chemical binding]; other site 452638003817 Walker B motif; other site 452638003818 arginine finger; other site 452638003819 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 452638003820 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 452638003821 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 452638003822 active site 452638003823 HIGH motif; other site 452638003824 dimer interface [polypeptide binding]; other site 452638003825 KMSKS motif; other site 452638003826 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 452638003827 RNA binding surface [nucleotide binding]; other site 452638003828 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 452638003829 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 452638003830 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 452638003831 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 452638003832 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 452638003833 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 452638003834 23S rRNA interface [nucleotide binding]; other site 452638003835 L3 interface [polypeptide binding]; other site 452638003836 OsmC-like protein; Region: OsmC; cl00767 452638003837 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 452638003838 active site 452638003839 substrate binding pocket [chemical binding]; other site 452638003840 dimer interface [polypeptide binding]; other site 452638003841 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 452638003842 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 452638003843 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 452638003844 Walker A/P-loop; other site 452638003845 ATP binding site [chemical binding]; other site 452638003846 Q-loop/lid; other site 452638003847 ABC transporter signature motif; other site 452638003848 Walker B; other site 452638003849 D-loop; other site 452638003850 H-loop/switch region; other site 452638003851 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 452638003852 nudix motif; other site 452638003853 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 452638003854 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 452638003855 dimer interface [polypeptide binding]; other site 452638003856 anticodon binding site; other site 452638003857 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 452638003858 homodimer interface [polypeptide binding]; other site 452638003859 motif 1; other site 452638003860 active site 452638003861 motif 2; other site 452638003862 GAD domain; Region: GAD; pfam02938 452638003863 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 452638003864 motif 3; other site 452638003865 Uncharacterized conserved protein [Function unknown]; Region: COG2928 452638003866 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 452638003867 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 452638003868 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 452638003869 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 452638003870 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 452638003871 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 452638003872 S-adenosylmethionine binding site [chemical binding]; other site 452638003873 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 452638003874 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 452638003875 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 452638003876 FAD binding domain; Region: FAD_binding_4; pfam01565 452638003877 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 452638003878 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 452638003879 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 452638003880 Cysteine-rich domain; Region: CCG; pfam02754 452638003881 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 452638003882 threonine dehydratase; Reviewed; Region: PRK09224 452638003883 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 452638003884 tetramer interface [polypeptide binding]; other site 452638003885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 452638003886 catalytic residue [active] 452638003887 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 452638003888 putative Ile/Val binding site [chemical binding]; other site 452638003889 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 452638003890 putative Ile/Val binding site [chemical binding]; other site 452638003891 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 452638003892 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 452638003893 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 452638003894 dimer interface [polypeptide binding]; other site 452638003895 ssDNA binding site [nucleotide binding]; other site 452638003896 tetramer (dimer of dimers) interface [polypeptide binding]; other site 452638003897 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 452638003898 Major Facilitator Superfamily; Region: MFS_1; pfam07690 452638003899 putative substrate translocation pore; other site 452638003900 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 452638003901 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 452638003902 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 452638003903 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 452638003904 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 452638003905 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 452638003906 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 452638003907 TrkA-N domain; Region: TrkA_N; pfam02254 452638003908 TrkA-C domain; Region: TrkA_C; pfam02080 452638003909 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 452638003910 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 452638003911 putative active site [active] 452638003912 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 452638003913 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 452638003914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 452638003915 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 452638003916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 452638003917 OstA-like protein; Region: OstA; cl00844 452638003918 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 452638003919 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 452638003920 Walker A/P-loop; other site 452638003921 ATP binding site [chemical binding]; other site 452638003922 Q-loop/lid; other site 452638003923 ABC transporter signature motif; other site 452638003924 Walker B; other site 452638003925 D-loop; other site 452638003926 H-loop/switch region; other site 452638003927 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 452638003928 30S subunit binding site; other site 452638003929 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 452638003930 active site 452638003931 phosphorylation site [posttranslational modification] 452638003932 HPr kinase/phosphorylase; Provisional; Region: PRK05428 452638003933 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 452638003934 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 452638003935 Hpr binding site; other site 452638003936 active site 452638003937 homohexamer subunit interaction site [polypeptide binding]; other site 452638003938 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 452638003939 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 452638003940 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 452638003941 minor groove reading motif; other site 452638003942 helix-hairpin-helix signature motif; other site 452638003943 substrate binding pocket [chemical binding]; other site 452638003944 active site 452638003945 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 452638003946 DNA binding and oxoG recognition site [nucleotide binding] 452638003947 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 452638003948 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 452638003949 DNA binding site [nucleotide binding] 452638003950 catalytic residue [active] 452638003951 H2TH interface [polypeptide binding]; other site 452638003952 putative catalytic residues [active] 452638003953 turnover-facilitating residue; other site 452638003954 intercalation triad [nucleotide binding]; other site 452638003955 8OG recognition residue [nucleotide binding]; other site 452638003956 putative reading head residues; other site 452638003957 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 452638003958 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 452638003959 Tetratricopeptide repeat; Region: TPR_16; pfam13432 452638003960 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 452638003961 binding surface 452638003962 TPR motif; other site 452638003963 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 452638003964 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 452638003965 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 452638003966 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 452638003967 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 452638003968 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 452638003969 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 452638003970 active site 452638003971 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 452638003972 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 452638003973 5S rRNA interface [nucleotide binding]; other site 452638003974 CTC domain interface [polypeptide binding]; other site 452638003975 L16 interface [polypeptide binding]; other site 452638003976 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 452638003977 putative active site [active] 452638003978 catalytic residue [active] 452638003979 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 452638003980 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 452638003981 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 452638003982 active site 452638003983 (T/H)XGH motif; other site 452638003984 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 452638003985 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 452638003986 S-adenosylmethionine binding site [chemical binding]; other site 452638003987 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 452638003988 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 452638003989 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 452638003990 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 452638003991 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 452638003992 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 452638003993 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 452638003994 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 452638003995 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 452638003996 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 452638003997 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 452638003998 DNA binding residues [nucleotide binding] 452638003999 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 452638004000 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 452638004001 Cu(I) binding site [ion binding]; other site 452638004002 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 452638004003 UbiA prenyltransferase family; Region: UbiA; pfam01040 452638004004 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 452638004005 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 452638004006 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 452638004007 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 452638004008 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 452638004009 Subunit III/VIIa interface [polypeptide binding]; other site 452638004010 Phospholipid binding site [chemical binding]; other site 452638004011 Subunit I/III interface [polypeptide binding]; other site 452638004012 Subunit III/VIb interface [polypeptide binding]; other site 452638004013 Subunit III/VIa interface; other site 452638004014 Subunit III/Vb interface [polypeptide binding]; other site 452638004015 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 452638004016 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 452638004017 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 452638004018 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 452638004019 Subunit I/III interface [polypeptide binding]; other site 452638004020 D-pathway; other site 452638004021 Subunit I/VIIc interface [polypeptide binding]; other site 452638004022 Subunit I/IV interface [polypeptide binding]; other site 452638004023 Subunit I/II interface [polypeptide binding]; other site 452638004024 Low-spin heme (heme a) binding site [chemical binding]; other site 452638004025 Subunit I/VIIa interface [polypeptide binding]; other site 452638004026 Subunit I/VIa interface [polypeptide binding]; other site 452638004027 Dimer interface; other site 452638004028 Putative water exit pathway; other site 452638004029 Binuclear center (heme a3/CuB) [ion binding]; other site 452638004030 K-pathway; other site 452638004031 Subunit I/Vb interface [polypeptide binding]; other site 452638004032 Putative proton exit pathway; other site 452638004033 Subunit I/VIb interface; other site 452638004034 Subunit I/VIc interface [polypeptide binding]; other site 452638004035 Electron transfer pathway; other site 452638004036 Subunit I/VIIIb interface [polypeptide binding]; other site 452638004037 Subunit I/VIIb interface [polypeptide binding]; other site 452638004038 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 452638004039 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 452638004040 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 452638004041 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 452638004042 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 452638004043 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 452638004044 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 452638004045 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 452638004046 active site 452638004047 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 452638004048 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 452638004049 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 452638004050 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 452638004051 preprotein translocase subunit SecB; Validated; Region: PRK05751 452638004052 SecA binding site; other site 452638004053 Preprotein binding site; other site 452638004054 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 452638004055 GSH binding site [chemical binding]; other site 452638004056 catalytic residues [active] 452638004057 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 452638004058 active site residue [active] 452638004059 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 452638004060 catalytic core [active] 452638004061 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 452638004062 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 452638004063 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 452638004064 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 452638004065 protein binding site [polypeptide binding]; other site 452638004066 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 452638004067 Catalytic dyad [active] 452638004068 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 452638004069 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 452638004070 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 452638004071 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 452638004072 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 452638004073 dimerization domain swap beta strand [polypeptide binding]; other site 452638004074 regulatory protein interface [polypeptide binding]; other site 452638004075 active site 452638004076 regulatory phosphorylation site [posttranslational modification]; other site 452638004077 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 452638004078 active pocket/dimerization site; other site 452638004079 active site 452638004080 phosphorylation site [posttranslational modification] 452638004081 Glutamate-cysteine ligase; Region: GshA; pfam08886 452638004082 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 452638004083 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 452638004084 Nitrogen regulatory protein P-II; Region: P-II; smart00938 452638004085 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 452638004086 Membrane fusogenic activity; Region: BMFP; pfam04380 452638004087 lipoyl synthase; Provisional; Region: PRK05481 452638004088 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 452638004089 FeS/SAM binding site; other site 452638004090 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 452638004091 Protein of unknown function (DUF493); Region: DUF493; cl01102 452638004092 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 452638004093 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 452638004094 Predicted integral membrane protein [Function unknown]; Region: COG5652 452638004095 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 452638004096 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 452638004097 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 452638004098 Type III pantothenate kinase; Region: Pan_kinase; pfam03309 452638004099 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 452638004100 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 452638004101 active site 452638004102 nucleotide binding site [chemical binding]; other site 452638004103 HIGH motif; other site 452638004104 KMSKS motif; other site 452638004105 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 452638004106 catalytic residues [active] 452638004107 dimer interface [polypeptide binding]; other site 452638004108 Protein of unknown function (DUF1365); Region: DUF1365; cl17838 452638004109 Protein of unknown function (DUF1365); Region: DUF1365; cl17838 452638004110 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 452638004111 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 452638004112 catalytic residues [active] 452638004113 hinge region; other site 452638004114 alpha helical domain; other site 452638004115 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 452638004116 Sporulation related domain; Region: SPOR; pfam05036 452638004117 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 452638004118 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 452638004119 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 452638004120 active site 452638004121 HIGH motif; other site 452638004122 KMSK motif region; other site 452638004123 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 452638004124 tRNA binding surface [nucleotide binding]; other site 452638004125 anticodon binding site; other site 452638004126 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 452638004127 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 452638004128 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 452638004129 substrate binding pocket [chemical binding]; other site 452638004130 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 452638004131 B12 binding site [chemical binding]; other site 452638004132 cobalt ligand [ion binding]; other site 452638004133 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 452638004134 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 452638004135 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 452638004136 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 452638004137 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 452638004138 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 452638004139 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 452638004140 glutaminase active site [active] 452638004141 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 452638004142 dimer interface [polypeptide binding]; other site 452638004143 active site 452638004144 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 452638004145 dimer interface [polypeptide binding]; other site 452638004146 active site 452638004147 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 452638004148 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 452638004149 Substrate binding site; other site 452638004150 Mg++ binding site; other site 452638004151 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 452638004152 active site 452638004153 substrate binding site [chemical binding]; other site 452638004154 CoA binding site [chemical binding]; other site 452638004155 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 452638004156 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 452638004157 Ligand Binding Site [chemical binding]; other site 452638004158 Dihydroneopterin aldolase; Region: FolB; smart00905 452638004159 active site 452638004160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452638004161 NAD(P) binding site [chemical binding]; other site 452638004162 active site 452638004163 Uncharacterized conserved protein [Function unknown]; Region: COG1565 452638004164 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 452638004165 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 452638004166 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 452638004167 active site 452638004168 NTP binding site [chemical binding]; other site 452638004169 metal binding triad [ion binding]; metal-binding site 452638004170 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 452638004171 putative NAD(P) binding site [chemical binding]; other site 452638004172 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 452638004173 active site 452638004174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 452638004175 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 452638004176 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 452638004177 N-acetyl-D-glucosamine binding site [chemical binding]; other site 452638004178 catalytic residue [active] 452638004179 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 452638004180 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 452638004181 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 452638004182 FAD binding site [chemical binding]; other site 452638004183 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 452638004184 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 452638004185 homotetramer interface [polypeptide binding]; other site 452638004186 ligand binding site [chemical binding]; other site 452638004187 catalytic site [active] 452638004188 NAD binding site [chemical binding]; other site 452638004189 S-adenosylmethionine synthetase; Validated; Region: PRK05250 452638004190 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 452638004191 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 452638004192 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 452638004193 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 452638004194 putative acyl-acceptor binding pocket; other site 452638004195 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 452638004196 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 452638004197 putative acyl-acceptor binding pocket; other site 452638004198 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 452638004199 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 452638004200 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 452638004201 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 452638004202 active site 452638004203 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 452638004204 putative active site [active] 452638004205 putative catalytic site [active] 452638004206 putative DNA binding site [nucleotide binding]; other site 452638004207 putative phosphate binding site [ion binding]; other site 452638004208 metal binding site A [ion binding]; metal-binding site 452638004209 putative AP binding site [nucleotide binding]; other site 452638004210 putative metal binding site B [ion binding]; other site 452638004211 muropeptide transporter; Reviewed; Region: ampG; PRK11902 452638004212 AmpG-like permease; Region: 2A0125; TIGR00901 452638004213 Methyltransferase domain; Region: Methyltransf_23; pfam13489 452638004214 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 452638004215 S-adenosylmethionine binding site [chemical binding]; other site 452638004216 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 452638004217 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 452638004218 division inhibitor protein; Provisional; Region: slmA; PRK09480 452638004219 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 452638004220 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 452638004221 feedback inhibition sensing region; other site 452638004222 homohexameric interface [polypeptide binding]; other site 452638004223 nucleotide binding site [chemical binding]; other site 452638004224 N-acetyl-L-glutamate binding site [chemical binding]; other site 452638004225 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 452638004226 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 452638004227 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 452638004228 P-loop, Walker A motif; other site 452638004229 Base recognition motif; other site 452638004230 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 452638004231 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 452638004232 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 452638004233 active site 452638004234 DNA binding site [nucleotide binding] 452638004235 Int/Topo IB signature motif; other site 452638004236 Protein of unknown function, DUF484; Region: DUF484; cl17449 452638004237 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 452638004238 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 452638004239 GatB domain; Region: GatB_Yqey; smart00845 452638004240 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 452638004241 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 452638004242 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 452638004243 rod shape-determining protein MreB; Provisional; Region: PRK13927 452638004244 MreB and similar proteins; Region: MreB_like; cd10225 452638004245 nucleotide binding site [chemical binding]; other site 452638004246 Mg binding site [ion binding]; other site 452638004247 putative protofilament interaction site [polypeptide binding]; other site 452638004248 RodZ interaction site [polypeptide binding]; other site 452638004249 rod shape-determining protein MreC; Provisional; Region: PRK13922 452638004250 rod shape-determining protein MreC; Region: MreC; pfam04085 452638004251 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 452638004252 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 452638004253 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 452638004254 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 452638004255 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 452638004256 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 452638004257 IHF - DNA interface [nucleotide binding]; other site 452638004258 IHF dimer interface [polypeptide binding]; other site 452638004259 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 452638004260 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 452638004261 active site clefts [active] 452638004262 zinc binding site [ion binding]; other site 452638004263 dimer interface [polypeptide binding]; other site 452638004264 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 452638004265 Catalytic domain of Protein Kinases; Region: PKc; cd00180 452638004266 active site 452638004267 ATP binding site [chemical binding]; other site 452638004268 substrate binding site [chemical binding]; other site 452638004269 activation loop (A-loop); other site 452638004270 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 452638004271 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 452638004272 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 452638004273 RNA binding surface [nucleotide binding]; other site 452638004274 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 452638004275 active site 452638004276 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 452638004277 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 452638004278 putative GEF interaction site [polypeptide binding]; other site 452638004279 Switch I region; other site 452638004280 G2 box; other site 452638004281 G3 box; other site 452638004282 Switch II region; other site 452638004283 GTP/Mg2+ binding site [chemical binding]; other site 452638004284 G4 box; other site 452638004285 G5 box; other site 452638004286 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 452638004287 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 452638004288 MOSC domain; Region: MOSC; pfam03473 452638004289 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 452638004290 Coenzyme A binding pocket [chemical binding]; other site 452638004291 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 452638004292 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 452638004293 Dihaem cytochrome c; Region: DHC; pfam09626 452638004294 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 452638004295 MAPEG family; Region: MAPEG; cl09190 452638004296 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 452638004297 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 452638004298 motif II; other site 452638004299 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 452638004300 Response regulator receiver domain; Region: Response_reg; pfam00072 452638004301 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 452638004302 active site 452638004303 phosphorylation site [posttranslational modification] 452638004304 intermolecular recognition site; other site 452638004305 dimerization interface [polypeptide binding]; other site 452638004306 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 452638004307 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 452638004308 dimerization interface [polypeptide binding]; other site 452638004309 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 452638004310 dimer interface [polypeptide binding]; other site 452638004311 phosphorylation site [posttranslational modification] 452638004312 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 452638004313 ATP binding site [chemical binding]; other site 452638004314 Mg2+ binding site [ion binding]; other site 452638004315 G-X-G motif; other site 452638004316 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 452638004317 16S rRNA methyltransferase B; Provisional; Region: PRK10901 452638004318 NusB family; Region: NusB; pfam01029 452638004319 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 452638004320 S-adenosylmethionine binding site [chemical binding]; other site 452638004321 M48 family peptidase; Provisional; Region: PRK03001 452638004322 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 452638004323 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 452638004324 putative active site [active] 452638004325 substrate binding site [chemical binding]; other site 452638004326 putative cosubstrate binding site; other site 452638004327 catalytic site [active] 452638004328 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 452638004329 substrate binding site [chemical binding]; other site 452638004330 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 452638004331 active site 452638004332 catalytic residues [active] 452638004333 metal binding site [ion binding]; metal-binding site 452638004334 DNA protecting protein DprA; Region: dprA; TIGR00732 452638004335 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 452638004336 DNA topoisomerase III; Validated; Region: PRK08173 452638004337 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 452638004338 active site 452638004339 putative interdomain interaction site [polypeptide binding]; other site 452638004340 putative metal-binding site [ion binding]; other site 452638004341 putative nucleotide binding site [chemical binding]; other site 452638004342 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 452638004343 domain I; other site 452638004344 DNA binding groove [nucleotide binding] 452638004345 phosphate binding site [ion binding]; other site 452638004346 domain II; other site 452638004347 domain III; other site 452638004348 nucleotide binding site [chemical binding]; other site 452638004349 catalytic site [active] 452638004350 domain IV; other site 452638004351 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 452638004352 PADR1 (NUC008) domain; Region: PADR1; pfam08063 452638004353 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 452638004354 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 452638004355 active site 452638004356 substrate-binding site [chemical binding]; other site 452638004357 metal-binding site [ion binding] 452638004358 GTP binding site [chemical binding]; other site 452638004359 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 452638004360 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 452638004361 trmE is a tRNA modification GTPase; Region: trmE; cd04164 452638004362 G1 box; other site 452638004363 GTP/Mg2+ binding site [chemical binding]; other site 452638004364 Switch I region; other site 452638004365 G2 box; other site 452638004366 Switch II region; other site 452638004367 G3 box; other site 452638004368 G4 box; other site 452638004369 G5 box; other site 452638004370 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 452638004371 membrane protein insertase; Provisional; Region: PRK01318 452638004372 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 452638004373 Haemolytic domain; Region: Haemolytic; pfam01809 452638004374 Ribonuclease P; Region: Ribonuclease_P; cl00457 452638004375 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399