-- dump date 20120504_153216 -- class Genbank::misc_feature -- table misc_feature_note -- id note 340047000001 Source organism was obtained from American Type Culture Collection. Contact: John Glass (jglass@venterstitute.org); Whole genome sequencing and draft assembly at TIGR; Finishing done by TIGR; Quality assurance done by TIGR; Annotation done by The J. Craig Venter Institute and The University of Missouri 340047000002 chromosomal replication initiation protein; Provisional; Region: dnaA; PRK14087 340047000003 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 340047000004 Walker A motif; other site 340047000005 ATP binding site [chemical binding]; other site 340047000006 Walker B motif; other site 340047000007 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 340047000008 DnaA box-binding interface [nucleotide binding]; other site 340047000009 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 340047000010 DNA polymerase III beta subunit; Region: POL3Bc; smart00480 340047000011 putative DNA binding surface [nucleotide binding]; other site 340047000012 dimer interface [polypeptide binding]; other site 340047000013 beta-clamp/clamp loader binding surface; other site 340047000014 beta-clamp/translesion DNA polymerase binding surface; other site 340047000015 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 340047000016 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 340047000017 putative active site [active] 340047000018 putative metal binding site [ion binding]; other site 340047000019 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 340047000020 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 340047000021 S-adenosylmethionine binding site [chemical binding]; other site 340047000022 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 340047000023 nucleoside/Zn binding site; other site 340047000024 dimer interface [polypeptide binding]; other site 340047000025 catalytic motif [active] 340047000026 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 340047000027 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 340047000028 Walker A motif; other site 340047000029 ATP binding site [chemical binding]; other site 340047000030 Walker B motif; other site 340047000031 arginine finger; other site 340047000032 DNA polymerase III PolC; Validated; Region: polC; PRK00448 340047000033 recombination protein RecR; Reviewed; Region: recR; PRK00076 340047000034 RecR protein; Region: RecR; pfam02132 340047000035 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 340047000036 putative active site [active] 340047000037 putative metal-binding site [ion binding]; other site 340047000038 tetramer interface [polypeptide binding]; other site 340047000039 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 340047000040 thymidylate kinase; Validated; Region: tmk; PRK00698 340047000041 TMP-binding site; other site 340047000042 ATP-binding site [chemical binding]; other site 340047000043 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 340047000044 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047000045 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 340047000046 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 340047000047 S-adenosylmethionine binding site [chemical binding]; other site 340047000048 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 340047000049 putative active site [active] 340047000050 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 340047000051 Ligand Binding Site [chemical binding]; other site 340047000052 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 340047000053 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 340047000054 Walker A motif; other site 340047000055 ATP binding site [chemical binding]; other site 340047000056 Walker B motif; other site 340047000057 arginine finger; other site 340047000058 Peptidase family M41; Region: Peptidase_M41; pfam01434 340047000059 FtsX-like permease family; Region: FtsX; cl15850 340047000060 GnsA/GnsB family; Region: GnsAB; pfam08178 340047000061 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 340047000062 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 340047000063 dimerization interface [polypeptide binding]; other site 340047000064 domain crossover interface; other site 340047000065 redox-dependent activation switch; other site 340047000066 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 340047000067 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 340047000068 Walker A/P-loop; other site 340047000069 ATP binding site [chemical binding]; other site 340047000070 Q-loop/lid; other site 340047000071 ABC transporter signature motif; other site 340047000072 Walker B; other site 340047000073 D-loop; other site 340047000074 H-loop/switch region; other site 340047000075 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 340047000076 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 340047000077 DNA-binding site [nucleotide binding]; DNA binding site 340047000078 RNA-binding motif; other site 340047000079 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 340047000080 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 340047000081 dimer interface [polypeptide binding]; other site 340047000082 ssDNA binding site [nucleotide binding]; other site 340047000083 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340047000084 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 340047000085 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 340047000086 Divergent AAA domain; Region: AAA_4; pfam04326 340047000087 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 340047000088 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 340047000089 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 340047000090 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 340047000091 active site 340047000092 P-loop; other site 340047000093 phosphorylation site [posttranslational modification] 340047000094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047000095 sorbitol-6-phosphate dehydrogenase; Provisional; Region: PRK12384 340047000096 NAD(P) binding site [chemical binding]; other site 340047000097 active site 340047000098 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 340047000099 active site 340047000100 phosphorylation site [posttranslational modification] 340047000101 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 340047000102 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 340047000103 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 340047000104 putative active site [active] 340047000105 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 340047000106 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 340047000107 mycoides cluster lipoprotein, LppA/P72 family; Region: Mycoplas_LppA; TIGR03490 340047000108 mycoides cluster lipoprotein, LppA/P72 family; Region: Mycoplas_LppA; TIGR03490 340047000109 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 340047000110 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 340047000111 active site 340047000112 HIGH motif; other site 340047000113 KMSKS motif; other site 340047000114 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 340047000115 tRNA binding surface [nucleotide binding]; other site 340047000116 anticodon binding site; other site 340047000117 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 340047000118 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 340047000119 Walker A/P-loop; other site 340047000120 ATP binding site [chemical binding]; other site 340047000121 Q-loop/lid; other site 340047000122 ABC transporter signature motif; other site 340047000123 Walker B; other site 340047000124 D-loop; other site 340047000125 H-loop/switch region; other site 340047000126 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 340047000127 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 340047000128 TM-ABC transporter signature motif; other site 340047000129 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 340047000130 TM-ABC transporter signature motif; other site 340047000131 DNA gyrase subunit A; Validated; Region: PRK05560 340047000132 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 340047000133 CAP-like domain; other site 340047000134 active site 340047000135 primary dimer interface [polypeptide binding]; other site 340047000136 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340047000137 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340047000138 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340047000139 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340047000140 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340047000141 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340047000142 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 340047000143 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 340047000144 ATP binding site [chemical binding]; other site 340047000145 Mg2+ binding site [ion binding]; other site 340047000146 G-X-G motif; other site 340047000147 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 340047000148 anchoring element; other site 340047000149 dimer interface [polypeptide binding]; other site 340047000150 ATP binding site [chemical binding]; other site 340047000151 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 340047000152 active site 340047000153 putative metal-binding site [ion binding]; other site 340047000154 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 340047000155 V-type ATP synthase subunit I; Validated; Region: PRK05771 340047000156 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12903 340047000157 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 340047000158 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 340047000159 nucleotide binding region [chemical binding]; other site 340047000160 ATP-binding site [chemical binding]; other site 340047000161 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 340047000162 5'-3' exonuclease; Region: 53EXOc; smart00475 340047000163 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 340047000164 active site 340047000165 metal binding site 1 [ion binding]; metal-binding site 340047000166 putative 5' ssDNA interaction site; other site 340047000167 metal binding site 3; metal-binding site 340047000168 metal binding site 2 [ion binding]; metal-binding site 340047000169 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 340047000170 putative DNA binding site [nucleotide binding]; other site 340047000171 putative metal binding site [ion binding]; other site 340047000172 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047000173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047000174 AlwI restriction endonuclease; Region: RE_AlwI; pfam09491 340047000175 TIR domain; Region: TIR_2; cl15770 340047000176 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047000177 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 340047000178 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 340047000179 RNA binding surface [nucleotide binding]; other site 340047000180 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 340047000181 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 340047000182 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 340047000183 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 340047000184 generic binding surface II; other site 340047000185 generic binding surface I; other site 340047000186 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 340047000187 putative RNA binding site [nucleotide binding]; other site 340047000188 endonuclease IV; Provisional; Region: PRK01060 340047000189 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 340047000190 AP (apurinic/apyrimidinic) site pocket; other site 340047000191 DNA interaction; other site 340047000192 Metal-binding active site; metal-binding site 340047000193 Riboflavin kinase; Region: Flavokinase; cl03312 340047000194 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 340047000195 active site 340047000196 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 340047000197 active site 340047000198 tetramer interface; other site 340047000199 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 340047000200 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 340047000201 23S rRNA interface [nucleotide binding]; other site 340047000202 L7/L12 interface [polypeptide binding]; other site 340047000203 putative thiostrepton binding site; other site 340047000204 L25 interface [polypeptide binding]; other site 340047000205 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 340047000206 mRNA/rRNA interface [nucleotide binding]; other site 340047000207 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 340047000208 23S rRNA interface [nucleotide binding]; other site 340047000209 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 340047000210 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 340047000211 L11 interface [polypeptide binding]; other site 340047000212 putative EF-Tu interaction site [polypeptide binding]; other site 340047000213 putative EF-G interaction site [polypeptide binding]; other site 340047000214 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 340047000215 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 340047000216 RPB1 interaction site [polypeptide binding]; other site 340047000217 RPB10 interaction site [polypeptide binding]; other site 340047000218 RPB11 interaction site [polypeptide binding]; other site 340047000219 RPB3 interaction site [polypeptide binding]; other site 340047000220 RPB12 interaction site [polypeptide binding]; other site 340047000221 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 340047000222 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 340047000223 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 340047000224 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 340047000225 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 340047000226 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 340047000227 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 340047000228 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 340047000229 G-loop; other site 340047000230 DNA binding site [nucleotide binding] 340047000231 Putative peptidase (DUF31); Region: DUF31; pfam01732 340047000232 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 340047000233 active site residue [active] 340047000234 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 340047000235 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 340047000236 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 340047000237 dimer interface [polypeptide binding]; other site 340047000238 glycine-pyridoxal phosphate binding site [chemical binding]; other site 340047000239 active site 340047000240 folate binding site [chemical binding]; other site 340047000241 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340047000242 active site 340047000243 ATP synthase A chain; Region: ATP-synt_A; cl00413 340047000244 ATP synthase subunit C; Region: ATP-synt_C; cl00466 340047000245 Plant ATP synthase F0; Region: YMF19; cl07975 340047000246 Plant ATP synthase F0; Region: YMF19; cl07975 340047000247 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 340047000248 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 340047000249 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 340047000250 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 340047000251 beta subunit interaction interface [polypeptide binding]; other site 340047000252 Walker A motif; other site 340047000253 ATP binding site [chemical binding]; other site 340047000254 Walker B motif; other site 340047000255 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 340047000256 ATP synthase; Region: ATP-synt; cl00365 340047000257 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 340047000258 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 340047000259 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 340047000260 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 340047000261 alpha subunit interaction interface [polypeptide binding]; other site 340047000262 Walker A motif; other site 340047000263 ATP binding site [chemical binding]; other site 340047000264 Walker B motif; other site 340047000265 inhibitor binding site; inhibition site 340047000266 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 340047000267 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 340047000268 magnesium-translocating P-type ATPase; Region: ATPase-IIIB_Mg; TIGR01524 340047000269 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 340047000270 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340047000271 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 340047000272 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340047000273 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 340047000274 Amidinotransferase; Region: Amidinotransf; cl12043 340047000275 ornithine carbamoyltransferase; Validated; Region: PRK02102 340047000276 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 340047000277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047000278 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 340047000279 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 340047000280 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 340047000281 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 340047000282 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 340047000283 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 340047000284 active site turn [active] 340047000285 phosphorylation site [posttranslational modification] 340047000286 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 340047000287 SmpB-tmRNA interface; other site 340047000288 ribonuclease R; Region: RNase_R; TIGR02063 340047000289 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 340047000290 RNB domain; Region: RNB; pfam00773 340047000291 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 340047000292 RNA binding site [nucleotide binding]; other site 340047000293 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 340047000294 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 340047000295 dimer interface [polypeptide binding]; other site 340047000296 putative radical transfer pathway; other site 340047000297 diiron center [ion binding]; other site 340047000298 tyrosyl radical; other site 340047000299 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 340047000300 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07187 340047000301 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 340047000302 Class I ribonucleotide reductase; Region: RNR_I; cd01679 340047000303 active site 340047000304 dimer interface [polypeptide binding]; other site 340047000305 catalytic residues [active] 340047000306 effector binding site; other site 340047000307 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 340047000308 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 340047000309 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 340047000310 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340047000311 active site 340047000312 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 340047000313 putative active site [active] 340047000314 catalytic residue [active] 340047000315 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 340047000316 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 340047000317 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 340047000318 replicative DNA helicase; Region: DnaB; TIGR00665 340047000319 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 340047000320 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 340047000321 Walker A motif; other site 340047000322 ATP binding site [chemical binding]; other site 340047000323 Walker B motif; other site 340047000324 DNA binding loops [nucleotide binding] 340047000325 hypothetical protein; Provisional; Region: PRK09609 340047000326 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 340047000327 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340047000328 active site 340047000329 HIGH motif; other site 340047000330 nucleotide binding site [chemical binding]; other site 340047000331 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340047000332 active site 340047000333 KMSKS motif; other site 340047000334 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 340047000335 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 340047000336 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 340047000337 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 340047000338 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 340047000339 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 340047000340 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 340047000341 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 340047000342 putative homodimer interface [polypeptide binding]; other site 340047000343 KOW motif; Region: KOW; cl00354 340047000344 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 340047000345 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 340047000346 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 340047000347 dimer interface [polypeptide binding]; other site 340047000348 conserved gate region; other site 340047000349 putative PBP binding loops; other site 340047000350 ABC-ATPase subunit interface; other site 340047000351 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 340047000352 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 340047000353 dimer interface [polypeptide binding]; other site 340047000354 conserved gate region; other site 340047000355 putative PBP binding loops; other site 340047000356 ABC-ATPase subunit interface; other site 340047000357 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 340047000358 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 340047000359 Walker A/P-loop; other site 340047000360 ATP binding site [chemical binding]; other site 340047000361 Q-loop/lid; other site 340047000362 ABC transporter signature motif; other site 340047000363 Walker B; other site 340047000364 D-loop; other site 340047000365 H-loop/switch region; other site 340047000366 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340047000367 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047000368 AAA domain; Region: AAA_21; pfam13304 340047000369 Walker A/P-loop; other site 340047000370 ATP binding site [chemical binding]; other site 340047000371 Q-loop/lid; other site 340047000372 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 340047000373 ABC transporter signature motif; other site 340047000374 Walker B; other site 340047000375 D-loop; other site 340047000376 H-loop/switch region; other site 340047000377 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340047000378 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 340047000379 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 340047000380 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 340047000381 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 340047000382 ABC transporter; Region: ABC_tran_2; pfam12848 340047000383 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 340047000384 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 340047000385 active site 340047000386 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 340047000387 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 340047000388 tetramer interface [polypeptide binding]; other site 340047000389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340047000390 catalytic residue [active] 340047000391 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340047000392 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 340047000393 active site 340047000394 trimer interface [polypeptide binding]; other site 340047000395 allosteric site; other site 340047000396 active site lid [active] 340047000397 hexamer (dimer of trimers) interface [polypeptide binding]; other site 340047000398 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 340047000399 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 340047000400 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 340047000401 active site turn [active] 340047000402 phosphorylation site [posttranslational modification] 340047000403 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 340047000404 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 340047000405 HIGH motif; other site 340047000406 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 340047000407 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 340047000408 active site 340047000409 KMSKS motif; other site 340047000410 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 340047000411 CTP synthetase; Validated; Region: pyrG; PRK05380 340047000412 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 340047000413 Catalytic site [active] 340047000414 active site 340047000415 UTP binding site [chemical binding]; other site 340047000416 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 340047000417 active site 340047000418 putative oxyanion hole; other site 340047000419 catalytic triad [active] 340047000420 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000421 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000422 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000423 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 340047000424 hypothetical protein; Provisional; Region: PRK08185 340047000425 intersubunit interface [polypeptide binding]; other site 340047000426 active site 340047000427 zinc binding site [ion binding]; other site 340047000428 Na+ binding site [ion binding]; other site 340047000429 Major Facilitator Superfamily; Region: MFS_1; pfam07690 340047000430 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 340047000431 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 340047000432 active site 340047000433 catalytic site [active] 340047000434 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 340047000435 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 340047000436 DHH family; Region: DHH; pfam01368 340047000437 DHHA1 domain; Region: DHHA1; pfam02272 340047000438 thymidine kinase; Provisional; Region: PRK04296 340047000439 peptide chain release factor 1; Validated; Region: prfA; PRK00591 340047000440 RF-1 domain; Region: RF-1; cl02875 340047000441 RF-1 domain; Region: RF-1; cl02875 340047000442 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 340047000443 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 340047000444 S-adenosylmethionine binding site [chemical binding]; other site 340047000445 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 340047000446 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 340047000447 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 340047000448 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 340047000449 putative active site [active] 340047000450 catalytic site [active] 340047000451 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 340047000452 putative active site [active] 340047000453 catalytic site [active] 340047000454 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 340047000455 S17 interaction site [polypeptide binding]; other site 340047000456 S8 interaction site; other site 340047000457 16S rRNA interaction site [nucleotide binding]; other site 340047000458 streptomycin interaction site [chemical binding]; other site 340047000459 23S rRNA interaction site [nucleotide binding]; other site 340047000460 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 340047000461 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 340047000462 elongation factor G; Reviewed; Region: PRK00007 340047000463 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 340047000464 G1 box; other site 340047000465 putative GEF interaction site [polypeptide binding]; other site 340047000466 GTP/Mg2+ binding site [chemical binding]; other site 340047000467 Switch I region; other site 340047000468 G2 box; other site 340047000469 G3 box; other site 340047000470 Switch II region; other site 340047000471 G4 box; other site 340047000472 G5 box; other site 340047000473 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 340047000474 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 340047000475 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 340047000476 elongation factor Tu; Reviewed; Region: PRK00049 340047000477 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 340047000478 G1 box; other site 340047000479 GEF interaction site [polypeptide binding]; other site 340047000480 GTP/Mg2+ binding site [chemical binding]; other site 340047000481 Switch I region; other site 340047000482 G2 box; other site 340047000483 G3 box; other site 340047000484 Switch II region; other site 340047000485 G4 box; other site 340047000486 G5 box; other site 340047000487 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 340047000488 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 340047000489 Antibiotic Binding Site [chemical binding]; other site 340047000490 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 340047000491 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 340047000492 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 340047000493 active site turn [active] 340047000494 phosphorylation site [posttranslational modification] 340047000495 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 340047000496 YicI alpha-xylosidase is a glycosyl hydrolase family 31 (GH31) enzyme that catalyzes the release of an alpha-xylosyl residue from the non-reducing end of alpha-xyloside substrates such as alpha-xylosyl fluoride and isoprimeverose. YicI forms a...; Region: GH31_xylosidase_YicI; cd06593 340047000497 active site 340047000498 homotrimer interface [polypeptide binding]; other site 340047000499 catalytic site [active] 340047000500 homohexamer (dimer of homotrimers) interface [polypeptide binding]; other site 340047000501 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 340047000502 interface (dimer of trimers) [polypeptide binding]; other site 340047000503 Substrate-binding/catalytic site; other site 340047000504 Zn-binding sites [ion binding]; other site 340047000505 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 340047000506 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 340047000507 motif 1; other site 340047000508 active site 340047000509 motif 2; other site 340047000510 motif 3; other site 340047000511 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 340047000512 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 340047000513 dimer interface [polypeptide binding]; other site 340047000514 conserved gate region; other site 340047000515 putative PBP binding loops; other site 340047000516 ABC-ATPase subunit interface; other site 340047000517 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 340047000518 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 340047000519 dimer interface [polypeptide binding]; other site 340047000520 conserved gate region; other site 340047000521 ABC-ATPase subunit interface; other site 340047000522 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047000523 AAA domain; Region: AAA_23; pfam13476 340047000524 Walker A/P-loop; other site 340047000525 ATP binding site [chemical binding]; other site 340047000526 AAA domain; Region: AAA_21; pfam13304 340047000527 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 340047000528 Q-loop/lid; other site 340047000529 ABC transporter signature motif; other site 340047000530 Walker B; other site 340047000531 D-loop; other site 340047000532 H-loop/switch region; other site 340047000533 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340047000534 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047000535 Walker A/P-loop; other site 340047000536 ATP binding site [chemical binding]; other site 340047000537 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 340047000538 Q-loop/lid; other site 340047000539 ABC transporter signature motif; other site 340047000540 Walker B; other site 340047000541 D-loop; other site 340047000542 H-loop/switch region; other site 340047000543 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 340047000544 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 340047000545 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 340047000546 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 340047000547 Tra island II element 340047000548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047000549 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000550 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000551 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000552 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000553 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000554 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000555 AAA-like domain; Region: AAA_10; pfam12846 340047000556 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047000557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047000558 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 340047000559 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 340047000560 P-loop; other site 340047000561 Magnesium ion binding site [ion binding]; other site 340047000562 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000563 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000564 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000565 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000566 HTH-like domain; Region: HTH_21; pfam13276 340047000567 Integrase core domain; Region: rve; cl01316 340047000568 C-terminal portion of Tra Island II disrupted gene in MCAP_0166; contains lppQ-Variable-Repeat-Peptide motif; MCAP_0188 340047000569 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 340047000570 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 340047000571 Walker A/P-loop; other site 340047000572 ATP binding site [chemical binding]; other site 340047000573 Q-loop/lid; other site 340047000574 ABC transporter signature motif; other site 340047000575 Walker B; other site 340047000576 D-loop; other site 340047000577 H-loop/switch region; other site 340047000578 maltose phosphorylase; Provisional; Region: PRK13807 340047000579 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 340047000580 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 340047000581 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 340047000582 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 340047000583 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 340047000584 Ca binding site [ion binding]; other site 340047000585 active site 340047000586 catalytic site [active] 340047000587 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 340047000588 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 340047000589 DNA-binding site [nucleotide binding]; DNA binding site 340047000590 UTRA domain; Region: UTRA; cl01230 340047000591 oligoendopeptidase F; Region: pepF; TIGR00181 340047000592 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 340047000593 active site 340047000594 Zn binding site [ion binding]; other site 340047000595 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 340047000596 interface (dimer of trimers) [polypeptide binding]; other site 340047000597 Substrate-binding/catalytic site; other site 340047000598 Zn-binding sites [ion binding]; other site 340047000599 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 340047000600 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047000601 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 340047000602 Chromate transporter; Region: Chromate_transp; pfam02417 340047000603 Chromate transporter; Region: Chromate_transp; pfam02417 340047000604 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 340047000605 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 340047000606 dimer interface [polypeptide binding]; other site 340047000607 conserved gate region; other site 340047000608 putative PBP binding loops; other site 340047000609 ABC-ATPase subunit interface; other site 340047000610 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 340047000611 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 340047000612 dimer interface [polypeptide binding]; other site 340047000613 conserved gate region; other site 340047000614 putative PBP binding loops; other site 340047000615 ABC-ATPase subunit interface; other site 340047000616 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 340047000617 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 340047000618 Walker A/P-loop; other site 340047000619 ATP binding site [chemical binding]; other site 340047000620 Q-loop/lid; other site 340047000621 ABC transporter signature motif; other site 340047000622 Walker B; other site 340047000623 D-loop; other site 340047000624 H-loop/switch region; other site 340047000625 ribosomal protein L20; Region: rpl20; CHL00068 340047000626 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 340047000627 23S rRNA binding site [nucleotide binding]; other site 340047000628 L21 binding site [polypeptide binding]; other site 340047000629 L13 binding site [polypeptide binding]; other site 340047000630 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 340047000631 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 340047000632 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 340047000633 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 340047000634 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 340047000635 active site 340047000636 catalytic residues [active] 340047000637 metal binding site [ion binding]; metal-binding site 340047000638 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 340047000639 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 340047000640 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 340047000641 catalytic site [active] 340047000642 G-X2-G-X-G-K; other site 340047000643 16S rRNA methyltransferase B; Provisional; Region: PRK14902 340047000644 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 340047000645 putative RNA binding site [nucleotide binding]; other site 340047000646 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 340047000647 S-adenosylmethionine binding site [chemical binding]; other site 340047000648 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 340047000649 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 340047000650 G1 box; other site 340047000651 putative GEF interaction site [polypeptide binding]; other site 340047000652 GTP/Mg2+ binding site [chemical binding]; other site 340047000653 Switch I region; other site 340047000654 G2 box; other site 340047000655 G3 box; other site 340047000656 Switch II region; other site 340047000657 G4 box; other site 340047000658 G5 box; other site 340047000659 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 340047000660 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 340047000661 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000662 Domain of unknown function (DUF4092); Region: DUF4092; pfam13322 340047000663 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000664 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000665 enolase; Provisional; Region: eno; PRK00077 340047000666 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 340047000667 dimer interface [polypeptide binding]; other site 340047000668 metal binding site [ion binding]; metal-binding site 340047000669 substrate binding pocket [chemical binding]; other site 340047000670 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 340047000671 active site 340047000672 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 340047000673 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340047000674 active site 340047000675 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 340047000676 amphipathic channel; other site 340047000677 Asn-Pro-Ala signature motifs; other site 340047000678 glycerol kinase; Provisional; Region: glpK; PRK00047 340047000679 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 340047000680 N- and C-terminal domain interface [polypeptide binding]; other site 340047000681 active site 340047000682 MgATP binding site [chemical binding]; other site 340047000683 catalytic site [active] 340047000684 metal binding site [ion binding]; metal-binding site 340047000685 glycerol binding site [chemical binding]; other site 340047000686 homotetramer interface [polypeptide binding]; other site 340047000687 homodimer interface [polypeptide binding]; other site 340047000688 FBP binding site [chemical binding]; other site 340047000689 protein IIAGlc interface [polypeptide binding]; other site 340047000690 Predicted dehydrogenase [General function prediction only]; Region: COG0579 340047000691 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047000692 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 340047000693 active site 340047000694 ADP/pyrophosphate binding site [chemical binding]; other site 340047000695 dimerization interface [polypeptide binding]; other site 340047000696 allosteric effector site; other site 340047000697 fructose-1,6-bisphosphate binding site; other site 340047000698 pyruvate kinase; Provisional; Region: PRK05826 340047000699 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 340047000700 domain interfaces; other site 340047000701 active site 340047000702 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 340047000703 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 340047000704 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 340047000705 active site 340047000706 dimer interface [polypeptide binding]; other site 340047000707 motif 1; other site 340047000708 motif 2; other site 340047000709 motif 3; other site 340047000710 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 340047000711 anticodon binding site; other site 340047000712 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 340047000713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047000714 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340047000715 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340047000716 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 340047000717 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 340047000718 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 340047000719 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 340047000720 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 340047000721 tetramer interface [polypeptide binding]; other site 340047000722 TPP-binding site [chemical binding]; other site 340047000723 heterodimer interface [polypeptide binding]; other site 340047000724 phosphorylation loop region [posttranslational modification] 340047000725 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 340047000726 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 340047000727 alpha subunit interface [polypeptide binding]; other site 340047000728 TPP binding site [chemical binding]; other site 340047000729 heterodimer interface [polypeptide binding]; other site 340047000730 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 340047000731 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 340047000732 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 340047000733 E3 interaction surface; other site 340047000734 lipoyl attachment site [posttranslational modification]; other site 340047000735 e3 binding domain; Region: E3_binding; pfam02817 340047000736 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 340047000737 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 340047000738 E3 interaction surface; other site 340047000739 lipoyl attachment site [posttranslational modification]; other site 340047000740 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 340047000741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047000742 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340047000743 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340047000744 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 340047000745 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 340047000746 Acetokinase family; Region: Acetate_kinase; cl01029 340047000747 propionate/acetate kinase; Provisional; Region: PRK12379 340047000748 Putative peptidase (DUF31); Region: DUF31; pfam01732 340047000749 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK13964 340047000750 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340047000751 active site 340047000752 nucleotide binding site [chemical binding]; other site 340047000753 HIGH motif; other site 340047000754 KMSKS motif; other site 340047000755 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 340047000756 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 340047000757 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 340047000758 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 340047000759 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 340047000760 HPr interaction site; other site 340047000761 glycerol kinase (GK) interaction site [polypeptide binding]; other site 340047000762 active site 340047000763 phosphorylation site [posttranslational modification] 340047000764 DAK2 domain; Region: Dak2; cl03685 340047000765 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 340047000766 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 340047000767 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 340047000768 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 340047000769 RNA binding surface [nucleotide binding]; other site 340047000770 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 340047000771 THUMP domain; Region: THUMP; cl12076 340047000772 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 340047000773 Ligand Binding Site [chemical binding]; other site 340047000774 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 340047000775 Active site serine [active] 340047000776 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 340047000777 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 340047000778 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 340047000779 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000780 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000781 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 340047000782 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 340047000783 Growth-arrest specific micro-tubule binding; Region: GAS; pfam13851 340047000784 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 340047000785 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 340047000786 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340047000787 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 340047000788 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340047000789 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340047000790 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 340047000791 Predicted GTPase [General function prediction only]; Region: COG0218 340047000792 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 340047000793 G1 box; other site 340047000794 GTP/Mg2+ binding site [chemical binding]; other site 340047000795 Switch I region; other site 340047000796 G2 box; other site 340047000797 G3 box; other site 340047000798 Switch II region; other site 340047000799 G4 box; other site 340047000800 G5 box; other site 340047000801 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 340047000802 classical (c) SDRs; Region: SDR_c; cd05233 340047000803 NAD(P) binding site [chemical binding]; other site 340047000804 active site 340047000805 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 340047000806 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 340047000807 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 340047000808 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 340047000809 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 340047000810 GIY-YIG motif/motif A; other site 340047000811 active site 340047000812 catalytic site [active] 340047000813 putative DNA binding site [nucleotide binding]; other site 340047000814 metal binding site [ion binding]; metal-binding site 340047000815 UvrB/uvrC motif; Region: UVR; pfam02151 340047000816 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 340047000817 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 340047000818 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340047000819 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 340047000820 classical (c) SDRs; Region: SDR_c; cd05233 340047000821 NAD(P) binding site [chemical binding]; other site 340047000822 active site 340047000823 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 340047000824 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 340047000825 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340047000826 active site 340047000827 HIGH motif; other site 340047000828 nucleotide binding site [chemical binding]; other site 340047000829 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 340047000830 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 340047000831 active site 340047000832 KMSKS motif; other site 340047000833 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 340047000834 tRNA binding surface [nucleotide binding]; other site 340047000835 anticodon binding site; other site 340047000836 Thiamine pyrophosphokinase; Region: TPK; cd07995 340047000837 active site 340047000838 dimerization interface [polypeptide binding]; other site 340047000839 thiamine binding site [chemical binding]; other site 340047000840 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 340047000841 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 340047000842 substrate binding site [chemical binding]; other site 340047000843 hexamer interface [polypeptide binding]; other site 340047000844 metal binding site [ion binding]; metal-binding site 340047000845 GTPase RsgA; Reviewed; Region: PRK00098 340047000846 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 340047000847 RNA binding site [nucleotide binding]; other site 340047000848 homodimer interface [polypeptide binding]; other site 340047000849 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 340047000850 GTPase/Zn-binding domain interface [polypeptide binding]; other site 340047000851 GTP/Mg2+ binding site [chemical binding]; other site 340047000852 G4 box; other site 340047000853 G5 box; other site 340047000854 G1 box; other site 340047000855 Switch I region; other site 340047000856 G2 box; other site 340047000857 G3 box; other site 340047000858 Switch II region; other site 340047000859 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 340047000860 Catalytic domain of Protein Kinases; Region: PKc; cd00180 340047000861 active site 340047000862 ATP binding site [chemical binding]; other site 340047000863 substrate binding site [chemical binding]; other site 340047000864 activation loop (A-loop); other site 340047000865 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 340047000866 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 340047000867 active site 340047000868 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 340047000869 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 340047000870 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000871 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000872 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000873 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000874 FtsX-like permease family; Region: FtsX; cl15850 340047000875 FtsX-like permease family; Region: FtsX; cl15850 340047000876 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000877 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000878 Plasmid replication protein; Region: Rep_2; pfam01719 340047000879 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 340047000880 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 340047000881 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 340047000882 P-loop; other site 340047000883 Magnesium ion binding site [ion binding]; other site 340047000884 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000885 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000886 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000887 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000888 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000889 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000890 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000891 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000892 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000893 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000894 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000895 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000896 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000897 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000898 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000899 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000900 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 340047000901 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047000902 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000903 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000904 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000905 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000906 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000907 AAA-like domain; Region: AAA_10; pfam12846 340047000908 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000909 2-oxoisovalerate dehydrogenase E2 component; Region: PLN02528 340047000910 e3 binding domain; Region: E3_binding; pfam02817 340047000911 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000912 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000913 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000914 phosphodiesterase; Provisional; Region: PRK12704 340047000915 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 340047000916 HSP70 interaction site [polypeptide binding]; other site 340047000917 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000918 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000919 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000920 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000921 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000922 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000923 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000924 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000925 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047000926 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047000927 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 340047000928 IHF dimer interface [polypeptide binding]; other site 340047000929 IHF - DNA interface [nucleotide binding]; other site 340047000930 HTH-like domain; Region: HTH_21; pfam13276 340047000931 Integrase core domain; Region: rve; cl01316 340047000932 prolyl-tRNA synthetase; Provisional; Region: PRK08661 340047000933 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_arch_euk; cd00778 340047000934 dimer interface [polypeptide binding]; other site 340047000935 motif 1; other site 340047000936 active site 340047000937 motif 2; other site 340047000938 motif 3; other site 340047000939 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 340047000940 anticodon binding site; other site 340047000941 zinc-binding site [ion binding]; other site 340047000942 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 340047000943 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 340047000944 RNA/DNA hybrid binding site [nucleotide binding]; other site 340047000945 active site 340047000946 GTP-binding protein LepA; Provisional; Region: PRK05433 340047000947 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 340047000948 G1 box; other site 340047000949 putative GEF interaction site [polypeptide binding]; other site 340047000950 GTP/Mg2+ binding site [chemical binding]; other site 340047000951 Switch I region; other site 340047000952 G2 box; other site 340047000953 G3 box; other site 340047000954 Switch II region; other site 340047000955 G4 box; other site 340047000956 G5 box; other site 340047000957 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 340047000958 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 340047000959 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 340047000960 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 340047000961 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 340047000962 dimer interface [polypeptide binding]; other site 340047000963 anticodon binding site; other site 340047000964 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 340047000965 homodimer interface [polypeptide binding]; other site 340047000966 motif 1; other site 340047000967 active site 340047000968 motif 2; other site 340047000969 GAD domain; Region: GAD; pfam02938 340047000970 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 340047000971 active site 340047000972 motif 3; other site 340047000973 histidyl-tRNA synthetase; Region: hisS; TIGR00442 340047000974 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 340047000975 dimer interface [polypeptide binding]; other site 340047000976 motif 1; other site 340047000977 active site 340047000978 motif 2; other site 340047000979 motif 3; other site 340047000980 Ribosome-binding factor A; Region: RBFA; cl00542 340047000981 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 340047000982 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 340047000983 RNA binding site [nucleotide binding]; other site 340047000984 active site 340047000985 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340047000986 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 340047000987 active site 340047000988 nucleotide binding site [chemical binding]; other site 340047000989 HIGH motif; other site 340047000990 KMSKS motif; other site 340047000991 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 340047000992 Active site serine [active] 340047000993 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 340047000994 Active site serine [active] 340047000995 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 340047000996 16S/18S rRNA binding site [nucleotide binding]; other site 340047000997 S13e-L30e interaction site [polypeptide binding]; other site 340047000998 25S rRNA binding site [nucleotide binding]; other site 340047000999 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 340047001000 translation initiation factor IF-2; Region: IF-2; TIGR00487 340047001001 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 340047001002 G1 box; other site 340047001003 putative GEF interaction site [polypeptide binding]; other site 340047001004 GTP/Mg2+ binding site [chemical binding]; other site 340047001005 Switch I region; other site 340047001006 G2 box; other site 340047001007 G3 box; other site 340047001008 Switch II region; other site 340047001009 G4 box; other site 340047001010 G5 box; other site 340047001011 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 340047001012 Translation-initiation factor 2; Region: IF-2; pfam11987 340047001013 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 340047001014 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 340047001015 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 340047001016 putative RNA binding cleft [nucleotide binding]; other site 340047001017 transcription termination factor NusA; Region: NusA; TIGR01953 340047001018 NusA N-terminal domain; Region: NusA_N; pfam08529 340047001019 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 340047001020 RNA binding site [nucleotide binding]; other site 340047001021 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 340047001022 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 340047001023 G-X-X-G motif; other site 340047001024 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 340047001025 Sm1 motif; other site 340047001026 D3 - B interaction site; other site 340047001027 D1 - D2 interaction site; other site 340047001028 Hfq - Hfq interaction site; other site 340047001029 RNA binding pocket [nucleotide binding]; other site 340047001030 Sm2 motif; other site 340047001031 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 340047001032 FMN binding site [chemical binding]; other site 340047001033 dimer interface [polypeptide binding]; other site 340047001034 DNA polymerase III PolC; Validated; Region: polC; PRK00448 340047001035 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 340047001036 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 340047001037 generic binding surface II; other site 340047001038 generic binding surface I; other site 340047001039 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 340047001040 active site 340047001041 substrate binding site [chemical binding]; other site 340047001042 catalytic site [active] 340047001043 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 340047001044 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 340047001045 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 340047001046 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 340047001047 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 340047001048 active site 340047001049 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 340047001050 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 340047001051 active site 340047001052 HIGH motif; other site 340047001053 dimer interface [polypeptide binding]; other site 340047001054 KMSKS motif; other site 340047001055 Fic/DOC family; Region: Fic; cl00960 340047001056 Mycoplasma virulence signal region (Myco_arth_vir_N); Region: Myco_arth_vir_N; cl15438 340047001057 Putative peptidase (DUF31); Region: DUF31; pfam01732 340047001058 Mycoplasma virulence signal region (Myco_arth_vir_N); Region: Myco_arth_vir_N; cl15438 340047001059 Putative peptidase (DUF31); Region: DUF31; pfam01732 340047001060 Mycoplasma virulence signal region (Myco_arth_vir_N); Region: Myco_arth_vir_N; cl15438 340047001061 Putative peptidase (DUF31); Region: DUF31; pfam01732 340047001062 Mycoplasma virulence signal region (Myco_arth_vir_N); Region: Myco_arth_vir_N; cl15438 340047001063 Putative peptidase (DUF31); Region: DUF31; pfam01732 340047001064 Protein of unknown function (DUF2714); Region: DUF2714; pfam10896 340047001065 ATP synthase; Region: ATP-synt; cl00365 340047001066 F0F1 ATP synthase subunit alpha; Validated; Region: PRK07165 340047001067 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047001068 Walker A motif; other site 340047001069 ATP binding site [chemical binding]; other site 340047001070 Walker B motif; other site 340047001071 F0F1 ATP synthase subunit beta; Provisional; Region: PRK12597 340047001072 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 340047001073 alpha subunit interaction interface [polypeptide binding]; other site 340047001074 Walker A motif; other site 340047001075 ATP binding site [chemical binding]; other site 340047001076 Walker B motif; other site 340047001077 inhibitor binding site; inhibition site 340047001078 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 340047001079 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 340047001080 active site 340047001081 dimerization interface [polypeptide binding]; other site 340047001082 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 340047001083 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 340047001084 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 340047001085 motif II; other site 340047001086 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340047001087 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 340047001088 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 340047001089 Walker A motif; other site 340047001090 ATP binding site [chemical binding]; other site 340047001091 Walker B motif; other site 340047001092 arginine finger; other site 340047001093 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 340047001094 Walker A motif; other site 340047001095 ATP binding site [chemical binding]; other site 340047001096 Walker B motif; other site 340047001097 arginine finger; other site 340047001098 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 340047001099 Helix-turn-helix domains; Region: HTH; cl00088 340047001100 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 340047001101 HrcA protein C terminal domain; Region: HrcA; pfam01628 340047001102 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 340047001103 dimer interface [polypeptide binding]; other site 340047001104 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 340047001105 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 340047001106 chaperone protein DnaJ; Provisional; Region: PRK14296 340047001107 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 340047001108 HSP70 interaction site [polypeptide binding]; other site 340047001109 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 340047001110 Zn binding sites [ion binding]; other site 340047001111 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 340047001112 dimer interface [polypeptide binding]; other site 340047001113 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 340047001114 rRNA interaction site [nucleotide binding]; other site 340047001115 S8 interaction site; other site 340047001116 putative laminin-1 binding site; other site 340047001117 elongation factor Ts; Provisional; Region: tsf; PRK09377 340047001118 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 340047001119 Elongation factor TS; Region: EF_TS; pfam00889 340047001120 Elongation factor TS; Region: EF_TS; pfam00889 340047001121 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 340047001122 putative nucleotide binding site [chemical binding]; other site 340047001123 uridine monophosphate binding site [chemical binding]; other site 340047001124 homohexameric interface [polypeptide binding]; other site 340047001125 ribosome recycling factor; Reviewed; Region: frr; PRK00083 340047001126 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 340047001127 hinge region; other site 340047001128 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 340047001129 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 340047001130 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 340047001131 active site 340047001132 HIGH motif; other site 340047001133 KMSK motif region; other site 340047001134 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 340047001135 tRNA binding surface [nucleotide binding]; other site 340047001136 anticodon binding site; other site 340047001137 FtsX-like permease family; Region: FtsX; cl15850 340047001138 FtsX-like permease family; Region: FtsX; cl15850 340047001139 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 340047001140 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 340047001141 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 340047001142 dimer interface [polypeptide binding]; other site 340047001143 motif 1; other site 340047001144 active site 340047001145 motif 2; other site 340047001146 motif 3; other site 340047001147 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 340047001148 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 340047001149 putative tRNA-binding site [nucleotide binding]; other site 340047001150 tRNA synthetase B5 domain; Region: B5; cl08394 340047001151 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 340047001152 dimer interface [polypeptide binding]; other site 340047001153 motif 1; other site 340047001154 motif 3; other site 340047001155 motif 2; other site 340047001156 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 340047001157 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 340047001158 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 340047001159 cell division protein MraZ; Reviewed; Region: PRK00326 340047001160 MraZ protein; Region: MraZ; pfam02381 340047001161 MraZ protein; Region: MraZ; pfam02381 340047001162 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 340047001163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047001164 cell division protein FtsZ; Validated; Region: PRK09330 340047001165 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 340047001166 nucleotide binding site [chemical binding]; other site 340047001167 SulA interaction site; other site 340047001168 Protein of unknown function (DUF552); Region: DUF552; cl00775 340047001169 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340047001170 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 340047001171 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340047001172 active site 340047001173 HIGH motif; other site 340047001174 nucleotide binding site [chemical binding]; other site 340047001175 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340047001176 active site 340047001177 KMSKS motif; other site 340047001178 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 340047001179 tRNA binding surface [nucleotide binding]; other site 340047001180 anticodon binding site; other site 340047001181 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 340047001182 lipoprotein signal peptidase; Provisional; Region: PRK14787 340047001183 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 340047001184 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 340047001185 RNA binding surface [nucleotide binding]; other site 340047001186 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 340047001187 active site 340047001188 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 340047001189 catalytic motif [active] 340047001190 Zn binding site [ion binding]; other site 340047001191 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 340047001192 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 340047001193 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 340047001194 putative acyl-acceptor binding pocket; other site 340047001195 Predicted methyltransferases [General function prediction only]; Region: COG0313 340047001196 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 340047001197 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 340047001198 Protein of unknown function (DUF464); Region: DUF464; cl01080 340047001199 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 340047001200 N-acetylneuraminate lyase; Region: nanA; TIGR00683 340047001201 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 340047001202 inhibitor site; inhibition site 340047001203 active site 340047001204 dimer interface [polypeptide binding]; other site 340047001205 catalytic residue [active] 340047001206 Sodium:solute symporter family; Region: SSF; cl00456 340047001207 Domain of unknown function (DUF386); Region: DUF386; cl01047 340047001208 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 340047001209 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 340047001210 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 340047001211 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 340047001212 putative active site cavity [active] 340047001213 hypothetical protein; Provisional; Region: PRK07205 340047001214 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 340047001215 active site 340047001216 metal binding site [ion binding]; metal-binding site 340047001217 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 340047001218 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 340047001219 ATP-binding site [chemical binding]; other site 340047001220 Sugar specificity; other site 340047001221 Pyrimidine base specificity; other site 340047001222 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 340047001223 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 340047001224 active site 340047001225 DNA binding site [nucleotide binding] 340047001226 ribosome biogenesis GTPase YqeH; Region: GTPase_YqeH; TIGR03597 340047001227 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 340047001228 GTP/Mg2+ binding site [chemical binding]; other site 340047001229 G4 box; other site 340047001230 G5 box; other site 340047001231 G1 box; other site 340047001232 Switch I region; other site 340047001233 G2 box; other site 340047001234 G3 box; other site 340047001235 Switch II region; other site 340047001236 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 340047001237 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340047001238 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340047001239 Holliday junction DNA helicase, RuvA subunit; Region: ruvA; TIGR00084 340047001240 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 340047001241 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 340047001242 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 340047001243 active site 340047001244 dimer interface [polypeptide binding]; other site 340047001245 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 340047001246 tetramer (dimer of dimers) interface [polypeptide binding]; other site 340047001247 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 340047001248 NAD binding site [chemical binding]; other site 340047001249 dimer interface [polypeptide binding]; other site 340047001250 substrate binding site [chemical binding]; other site 340047001251 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047001252 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047001253 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340047001254 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 340047001255 nucleophilic elbow; other site 340047001256 catalytic triad; other site 340047001257 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340047001258 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 340047001259 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 340047001260 lipoyl attachment site [posttranslational modification]; other site 340047001261 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 340047001262 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 340047001263 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 340047001264 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 340047001265 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 340047001266 putative active site [active] 340047001267 putative FMN binding site [chemical binding]; other site 340047001268 putative substrate binding site [chemical binding]; other site 340047001269 putative catalytic residue [active] 340047001270 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 340047001271 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 340047001272 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047001273 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047001274 Walker A/P-loop; other site 340047001275 Walker A/P-loop; other site 340047001276 ATP binding site [chemical binding]; other site 340047001277 ATP binding site [chemical binding]; other site 340047001278 Q-loop/lid; other site 340047001279 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047001280 ABC transporter signature motif; other site 340047001281 Walker B; other site 340047001282 D-loop; other site 340047001283 H-loop/switch region; other site 340047001284 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 340047001285 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047001286 Family description; Region: UvrD_C_2; cl15862 340047001287 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 340047001288 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 340047001289 CAP-like domain; other site 340047001290 active site 340047001291 primary dimer interface [polypeptide binding]; other site 340047001292 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340047001293 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 340047001294 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 340047001295 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 340047001296 Mg2+ binding site [ion binding]; other site 340047001297 G-X-G motif; other site 340047001298 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 340047001299 anchoring element; other site 340047001300 dimer interface [polypeptide binding]; other site 340047001301 ATP binding site [chemical binding]; other site 340047001302 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 340047001303 active site 340047001304 putative metal-binding site [ion binding]; other site 340047001305 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 340047001306 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 340047001307 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 340047001308 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 340047001309 active site 340047001310 P-loop; other site 340047001311 phosphorylation site [posttranslational modification] 340047001312 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 340047001313 active site 340047001314 phosphorylation site [posttranslational modification] 340047001315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047001316 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 340047001317 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 340047001318 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 340047001319 tetrameric interface [polypeptide binding]; other site 340047001320 activator binding site; other site 340047001321 NADP binding site [chemical binding]; other site 340047001322 substrate binding site [chemical binding]; other site 340047001323 catalytic residues [active] 340047001324 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 340047001325 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 340047001326 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 340047001327 dUTPase; Region: dUTPase_2; pfam08761 340047001328 Dimeric dUTPase [Carbohydrate transport and metabolism]; Region: COG4508 340047001329 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 340047001330 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 340047001331 active site 340047001332 dimer interface [polypeptide binding]; other site 340047001333 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 340047001334 dimer interface [polypeptide binding]; other site 340047001335 active site 340047001336 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 340047001337 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 340047001338 active site 340047001339 Zn binding site [ion binding]; other site 340047001340 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 340047001341 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 340047001342 trimerization site [polypeptide binding]; other site 340047001343 active site 340047001344 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 340047001345 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 340047001346 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 340047001347 catalytic residue [active] 340047001348 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 340047001349 HIT family signature motif; other site 340047001350 catalytic residue [active] 340047001351 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 340047001352 YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in...; Region: YhaM_OBF_like; cd04492 340047001353 generic binding surface II; other site 340047001354 generic binding surface I; other site 340047001355 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 340047001356 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 340047001357 ligand binding site [chemical binding]; other site 340047001358 active site 340047001359 UGI interface [polypeptide binding]; other site 340047001360 catalytic site [active] 340047001361 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 340047001362 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 340047001363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047001364 CutC family; Region: CutC; cl01218 340047001365 S-adenosylmethionine synthetase; Validated; Region: PRK05250 340047001366 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 340047001367 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 340047001368 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 340047001369 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 340047001370 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 340047001371 putative active site [active] 340047001372 metal binding site [ion binding]; metal-binding site 340047001373 homodimer binding site [polypeptide binding]; other site 340047001374 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 340047001375 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 340047001376 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 340047001377 P loop; other site 340047001378 GTP binding site [chemical binding]; other site 340047001379 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 340047001380 PhoU domain; Region: PhoU; pfam01895 340047001381 PhoU domain; Region: PhoU; pfam01895 340047001382 phosphate ABC transporter, ATP-binding protein; Region: 3a0107s01c2; TIGR00972 340047001383 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 340047001384 Walker A/P-loop; other site 340047001385 ATP binding site [chemical binding]; other site 340047001386 Q-loop/lid; other site 340047001387 ABC transporter signature motif; other site 340047001388 Walker B; other site 340047001389 D-loop; other site 340047001390 H-loop/switch region; other site 340047001391 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 340047001392 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 340047001393 dimer interface [polypeptide binding]; other site 340047001394 conserved gate region; other site 340047001395 putative PBP binding loops; other site 340047001396 ABC-ATPase subunit interface; other site 340047001397 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 340047001398 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 340047001399 dimer interface [polypeptide binding]; other site 340047001400 conserved gate region; other site 340047001401 putative PBP binding loops; other site 340047001402 ABC-ATPase subunit interface; other site 340047001403 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 340047001404 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 340047001405 Asp23 family; Region: Asp23; cl00574 340047001406 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 340047001407 DAK2 domain; Region: Dak2; cl03685 340047001408 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 340047001409 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 340047001410 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 340047001411 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 340047001412 dimerization interface [polypeptide binding]; other site 340047001413 active site 340047001414 metal binding site [ion binding]; metal-binding site 340047001415 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 340047001416 dsRNA binding site [nucleotide binding]; other site 340047001417 Protein of unknown function (DUF4065); Region: DUF4065; cl01445 340047001418 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 340047001419 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 340047001420 Walker A/P-loop; other site 340047001421 ATP binding site [chemical binding]; other site 340047001422 Q-loop/lid; other site 340047001423 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 340047001424 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 340047001425 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 340047001426 ABC transporter signature motif; other site 340047001427 Walker B; other site 340047001428 D-loop; other site 340047001429 H-loop/switch region; other site 340047001430 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 340047001431 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 340047001432 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 340047001433 synthetase active site [active] 340047001434 NTP binding site [chemical binding]; other site 340047001435 metal binding site [ion binding]; metal-binding site 340047001436 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 340047001437 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 340047001438 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 340047001439 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340047001440 active site 340047001441 Protein export membrane protein; Region: SecD_SecF; cl14618 340047001442 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 340047001443 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047001444 DEAD-like helicases superfamily; Region: DEXDc; smart00487 340047001445 ATP binding site [chemical binding]; other site 340047001446 putative Mg++ binding site [ion binding]; other site 340047001447 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 340047001448 nucleotide binding region [chemical binding]; other site 340047001449 ATP-binding site [chemical binding]; other site 340047001450 Uncharacterized conserved protein [Function unknown]; Region: COG0327 340047001451 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 340047001452 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047001453 RNA polymerase sigma factor; Provisional; Region: PRK05901 340047001454 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 340047001455 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 340047001456 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 340047001457 DNA primase, catalytic core; Region: dnaG; TIGR01391 340047001458 CHC2 zinc finger; Region: zf-CHC2; cl15369 340047001459 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 340047001460 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 340047001461 active site 340047001462 metal binding site [ion binding]; metal-binding site 340047001463 interdomain interaction site; other site 340047001464 glycyl-tRNA synthetase; Provisional; Region: PRK04173 340047001465 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 340047001466 dimer interface [polypeptide binding]; other site 340047001467 motif 1; other site 340047001468 active site 340047001469 motif 2; other site 340047001470 motif 3; other site 340047001471 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 340047001472 anticodon binding site; other site 340047001473 Recombination protein O N terminal; Region: RecO_N; cl15812 340047001474 DNA repair protein RecO; Region: reco; TIGR00613 340047001475 Recombination protein O C terminal; Region: RecO_C; pfam02565 340047001476 GTPase Era; Reviewed; Region: era; PRK00089 340047001477 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 340047001478 G1 box; other site 340047001479 GTP/Mg2+ binding site [chemical binding]; other site 340047001480 Switch I region; other site 340047001481 G2 box; other site 340047001482 Switch II region; other site 340047001483 G3 box; other site 340047001484 G4 box; other site 340047001485 G5 box; other site 340047001486 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 340047001487 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the 'double-glycine' leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic). The cleavage...; Region: Peptidase_C39_like; cl00296 340047001488 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 340047001489 putative active site [active] 340047001490 DJ-1 family protein; Region: not_thiJ; TIGR01383 340047001491 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 340047001492 conserved cys residue [active] 340047001493 FtsX-like permease family; Region: FtsX; cl15850 340047001494 FtsX-like permease family; Region: FtsX; cl15850 340047001495 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 340047001496 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 340047001497 recombination factor protein RarA; Reviewed; Region: PRK13342 340047001498 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 340047001499 Walker A motif; other site 340047001500 ATP binding site [chemical binding]; other site 340047001501 Walker B motif; other site 340047001502 arginine finger; other site 340047001503 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 340047001504 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 340047001505 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 340047001506 Walker A motif; other site 340047001507 ATP binding site [chemical binding]; other site 340047001508 Walker B motif; other site 340047001509 arginine finger; other site 340047001510 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 340047001511 trigger factor; Region: tig; TIGR00115 340047001512 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 340047001513 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 340047001514 translation elongation factor P; Region: efp; TIGR00038 340047001515 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 340047001516 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 340047001517 RNA binding site [nucleotide binding]; other site 340047001518 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 340047001519 RNA binding site [nucleotide binding]; other site 340047001520 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 340047001521 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 340047001522 putative active site [active] 340047001523 substrate binding site [chemical binding]; other site 340047001524 putative cosubstrate binding site; other site 340047001525 catalytic site [active] 340047001526 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 340047001527 substrate binding site [chemical binding]; other site 340047001528 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 340047001529 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 340047001530 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 340047001531 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 340047001532 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 340047001533 Substrate-binding site [chemical binding]; other site 340047001534 Substrate specificity [chemical binding]; other site 340047001535 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 340047001536 putative nicotinate-nucleotide adenylyltransferase; Validated; Region: nadD; PRK07152 340047001537 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 340047001538 active site 340047001539 (T/H)XGH motif; other site 340047001540 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 340047001541 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 340047001542 NAD synthase; Region: NAD_synthase; pfam02540 340047001543 homodimer interface [polypeptide binding]; other site 340047001544 NAD binding pocket [chemical binding]; other site 340047001545 ATP binding pocket [chemical binding]; other site 340047001546 Mg binding site [ion binding]; other site 340047001547 active-site loop [active] 340047001548 GTPase CgtA; Reviewed; Region: obgE; PRK12297 340047001549 GTP1/OBG; Region: GTP1_OBG; pfam01018 340047001550 Obg GTPase; Region: Obg; cd01898 340047001551 G1 box; other site 340047001552 GTP/Mg2+ binding site [chemical binding]; other site 340047001553 Switch I region; other site 340047001554 G2 box; other site 340047001555 G3 box; other site 340047001556 Switch II region; other site 340047001557 G4 box; other site 340047001558 G5 box; other site 340047001559 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 340047001560 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340047001561 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340047001562 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 340047001563 Walker A/P-loop; other site 340047001564 ATP binding site [chemical binding]; other site 340047001565 Q-loop/lid; other site 340047001566 ABC transporter signature motif; other site 340047001567 Walker B; other site 340047001568 D-loop; other site 340047001569 H-loop/switch region; other site 340047001570 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 340047001571 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 340047001572 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 340047001573 Walker A/P-loop; other site 340047001574 ATP binding site [chemical binding]; other site 340047001575 Q-loop/lid; other site 340047001576 ABC transporter signature motif; other site 340047001577 Walker B; other site 340047001578 D-loop; other site 340047001579 H-loop/switch region; other site 340047001580 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 340047001581 putative inner membrane protein; Provisional; Region: PRK11099 340047001582 putative inner membrane protein; Provisional; Region: PRK11099 340047001583 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 340047001584 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 340047001585 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 340047001586 active site residue [active] 340047001587 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 340047001588 RNA/DNA hybrid binding site [nucleotide binding]; other site 340047001589 active site 340047001590 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 340047001591 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 340047001592 GTP/Mg2+ binding site [chemical binding]; other site 340047001593 G4 box; other site 340047001594 G5 box; other site 340047001595 G1 box; other site 340047001596 Switch I region; other site 340047001597 G2 box; other site 340047001598 G3 box; other site 340047001599 Switch II region; other site 340047001600 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 340047001601 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 340047001602 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 340047001603 RimM N-terminal domain; Region: RimM; pfam01782 340047001604 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 340047001605 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 340047001606 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 340047001607 signal recognition particle protein; Region: ffh; TIGR00959 340047001608 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 340047001609 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 340047001610 P loop; other site 340047001611 GTP binding site [chemical binding]; other site 340047001612 Signal peptide binding domain; Region: SRP_SPB; pfam02978 340047001613 phosphodiesterase; Provisional; Region: PRK12704 340047001614 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 340047001615 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 340047001616 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 340047001617 protein RecA; Region: tigrfam_recA; TIGR02012 340047001618 hexamer interface [polypeptide binding]; other site 340047001619 Walker A motif; other site 340047001620 ATP binding site [chemical binding]; other site 340047001621 Walker B motif; other site 340047001622 Competence-damaged protein; Region: CinA; cl00666 340047001623 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047001624 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047001625 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047001626 Walker A motif; other site 340047001627 ATP binding site [chemical binding]; other site 340047001628 Walker B motif; other site 340047001629 Domain of unknown function (DUF955); Region: DUF955; cl01076 340047001630 proline-specific peptidases, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 340047001631 AAA-like domain; Region: AAA_10; pfam12846 340047001632 Domain of unknown function DUF87; Region: DUF87; pfam01935 340047001633 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 340047001634 DTAP/Switch II; other site 340047001635 Switch I; other site 340047001636 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047001637 Uncharacterized protein family (UPF0236); Region: UPF0236; pfam06782 340047001638 cell division protein GpsB; Provisional; Region: PRK14127 340047001639 DivIVA domain; Region: DivI1A_domain; TIGR03544 340047001640 Recombination protein U; Region: RecU; cl01314 340047001641 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 340047001642 IHF dimer interface [polypeptide binding]; other site 340047001643 IHF - DNA interface [nucleotide binding]; other site 340047001644 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 340047001645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047001646 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 340047001647 GTP-binding protein Der; Reviewed; Region: PRK00093 340047001648 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 340047001649 G1 box; other site 340047001650 GTP/Mg2+ binding site [chemical binding]; other site 340047001651 Switch I region; other site 340047001652 G2 box; other site 340047001653 Switch II region; other site 340047001654 G3 box; other site 340047001655 G4 box; other site 340047001656 G5 box; other site 340047001657 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 340047001658 G1 box; other site 340047001659 GTP/Mg2+ binding site [chemical binding]; other site 340047001660 Switch I region; other site 340047001661 G2 box; other site 340047001662 G3 box; other site 340047001663 Switch II region; other site 340047001664 G4 box; other site 340047001665 G5 box; other site 340047001666 cytidylate kinase; Provisional; Region: cmk; PRK00023 340047001667 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 340047001668 CMP-binding site; other site 340047001669 The sites determining sugar specificity; other site 340047001670 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 340047001671 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 340047001672 dimer interface [polypeptide binding]; other site 340047001673 substrate binding site [chemical binding]; other site 340047001674 metal binding sites [ion binding]; metal-binding site 340047001675 Protein of unknown function (DUF1202); Region: DUF1202; pfam06717 340047001676 transcription termination factor Rho; Provisional; Region: PRK12678 340047001677 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 340047001678 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047001679 Walker A/P-loop; other site 340047001680 ATP binding site [chemical binding]; other site 340047001681 Q-loop/lid; other site 340047001682 ABC transporter signature motif; other site 340047001683 Walker B; other site 340047001684 D-loop; other site 340047001685 H-loop/switch region; other site 340047001686 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 340047001687 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 340047001688 substrate binding site [chemical binding]; other site 340047001689 hexamer interface [polypeptide binding]; other site 340047001690 metal binding site [ion binding]; metal-binding site 340047001691 PTS system ascorbate-specific transporter subunits IICB; Provisional; Region: PRK09548 340047001692 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 340047001693 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 340047001694 P-loop; other site 340047001695 active site 340047001696 phosphorylation site [posttranslational modification] 340047001697 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 340047001698 active site 340047001699 phosphorylation site [posttranslational modification] 340047001700 Transcriptional regulator; Region: Transcrip_reg; cl00361 340047001701 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 340047001702 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 340047001703 Substrate-binding site [chemical binding]; other site 340047001704 Substrate specificity [chemical binding]; other site 340047001705 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 340047001706 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 340047001707 RNA binding surface [nucleotide binding]; other site 340047001708 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 340047001709 active site 340047001710 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 340047001711 ScpA/B protein; Region: ScpA_ScpB; cl00598 340047001712 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340047001713 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 340047001714 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 340047001715 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 340047001716 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 340047001717 transketolase; Reviewed; Region: PRK05899 340047001718 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 340047001719 TPP-binding site [chemical binding]; other site 340047001720 dimer interface [polypeptide binding]; other site 340047001721 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 340047001722 PYR/PP interface [polypeptide binding]; other site 340047001723 dimer interface [polypeptide binding]; other site 340047001724 TPP binding site [chemical binding]; other site 340047001725 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 340047001726 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047001727 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 340047001728 RmuC family; Region: RmuC; pfam02646 340047001729 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 340047001730 hypothetical protein; Provisional; Region: PRK08185 340047001731 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 340047001732 intersubunit interface [polypeptide binding]; other site 340047001733 active site 340047001734 zinc binding site [ion binding]; other site 340047001735 Na+ binding site [ion binding]; other site 340047001736 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 340047001737 Helix-turn-helix domains; Region: HTH; cl00088 340047001738 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 340047001739 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 340047001740 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 340047001741 active site turn [active] 340047001742 phosphorylation site [posttranslational modification] 340047001743 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 340047001744 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 340047001745 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 340047001746 putative substrate binding site [chemical binding]; other site 340047001747 putative ATP binding site [chemical binding]; other site 340047001748 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047001749 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047001750 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047001751 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 340047001752 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340047001753 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 340047001754 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047001755 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047001756 LemA family; Region: LemA; cl00742 340047001757 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 340047001758 Phosphoglycerate kinase; Region: PGK; pfam00162 340047001759 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 340047001760 substrate binding site [chemical binding]; other site 340047001761 hinge regions; other site 340047001762 ADP binding site [chemical binding]; other site 340047001763 catalytic site [active] 340047001764 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 340047001765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047001766 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 340047001767 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 340047001768 Walker A motif; other site 340047001769 ATP binding site [chemical binding]; other site 340047001770 Walker B motif; other site 340047001771 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 340047001772 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 340047001773 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 340047001774 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 340047001775 DNA binding site [nucleotide binding] 340047001776 catalytic residue [active] 340047001777 H2TH interface [polypeptide binding]; other site 340047001778 putative catalytic residues [active] 340047001779 turnover-facilitating residue; other site 340047001780 intercalation triad [nucleotide binding]; other site 340047001781 8OG recognition residue [nucleotide binding]; other site 340047001782 putative reading head residues; other site 340047001783 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 340047001784 DNA polymerase I; Provisional; Region: PRK05755 340047001785 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 340047001786 active site 340047001787 metal binding site 1 [ion binding]; metal-binding site 340047001788 putative 5' ssDNA interaction site; other site 340047001789 metal binding site 3; metal-binding site 340047001790 metal binding site 2 [ion binding]; metal-binding site 340047001791 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 340047001792 putative DNA binding site [nucleotide binding]; other site 340047001793 putative metal binding site [ion binding]; other site 340047001794 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 340047001795 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 340047001796 active site 340047001797 DNA binding site [nucleotide binding] 340047001798 catalytic site [active] 340047001799 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 340047001800 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 340047001801 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 340047001802 generic binding surface I; other site 340047001803 generic binding surface II; other site 340047001804 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 340047001805 active site 340047001806 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 340047001807 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 340047001808 active site 340047001809 HIGH motif; other site 340047001810 dimer interface [polypeptide binding]; other site 340047001811 KMSKS motif; other site 340047001812 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 340047001813 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 340047001814 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup B. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_B; cd01571 340047001815 active site 340047001816 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 340047001817 putative tRNA-binding site [nucleotide binding]; other site 340047001818 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 340047001819 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 340047001820 Helix-turn-helix domains; Region: HTH; cl00088 340047001821 putative DNA binding helix; other site 340047001822 metal binding site 2 [ion binding]; metal-binding site 340047001823 metal binding site 1 [ion binding]; metal-binding site 340047001824 dimer interface [polypeptide binding]; other site 340047001825 structural Zn2+ binding site [ion binding]; other site 340047001826 carbamate kinase; Reviewed; Region: PRK12686 340047001827 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 340047001828 putative substrate binding site [chemical binding]; other site 340047001829 nucleotide binding site [chemical binding]; other site 340047001830 nucleotide binding site [chemical binding]; other site 340047001831 homodimer interface [polypeptide binding]; other site 340047001832 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 340047001833 agmatine deiminase; Region: agmatine_aguA; TIGR03380 340047001834 Amino acid permease; Region: AA_permease_2; pfam13520 340047001835 putrescine carbamoyltransferase; Provisional; Region: PRK02255 340047001836 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 340047001837 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047001838 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 340047001839 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 340047001840 Walker A/P-loop; other site 340047001841 ATP binding site [chemical binding]; other site 340047001842 Q-loop/lid; other site 340047001843 ABC transporter signature motif; other site 340047001844 Walker B; other site 340047001845 D-loop; other site 340047001846 H-loop/switch region; other site 340047001847 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 340047001848 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 340047001849 HIGH motif; other site 340047001850 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 340047001851 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 340047001852 active site 340047001853 KMSKS motif; other site 340047001854 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 340047001855 tRNA binding surface [nucleotide binding]; other site 340047001856 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 340047001857 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 340047001858 23S rRNA interface [nucleotide binding]; other site 340047001859 L3 interface [polypeptide binding]; other site 340047001860 FtsX-like permease family; Region: FtsX; cl15850 340047001861 FtsX-like permease family; Region: FtsX; cl15850 340047001862 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 340047001863 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 340047001864 dimerization interface 3.5A [polypeptide binding]; other site 340047001865 active site 340047001866 Cobalt transport protein; Region: CbiQ; cl00463 340047001867 Cobalt transport protein; Region: CbiQ; cl00463 340047001868 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13645 340047001869 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 340047001870 Walker A/P-loop; other site 340047001871 ATP binding site [chemical binding]; other site 340047001872 Q-loop/lid; other site 340047001873 ABC transporter signature motif; other site 340047001874 Walker B; other site 340047001875 D-loop; other site 340047001876 H-loop/switch region; other site 340047001877 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13632 340047001878 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 340047001879 Walker A/P-loop; other site 340047001880 ATP binding site [chemical binding]; other site 340047001881 Q-loop/lid; other site 340047001882 ABC transporter signature motif; other site 340047001883 Walker B; other site 340047001884 D-loop; other site 340047001885 H-loop/switch region; other site 340047001886 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 340047001887 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 340047001888 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 340047001889 alphaNTD homodimer interface [polypeptide binding]; other site 340047001890 alphaNTD - beta interaction site [polypeptide binding]; other site 340047001891 alphaNTD - beta' interaction site [polypeptide binding]; other site 340047001892 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 340047001893 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 340047001894 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 340047001895 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 340047001896 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 340047001897 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 340047001898 rRNA binding site [nucleotide binding]; other site 340047001899 predicted 30S ribosome binding site; other site 340047001900 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 340047001901 active site 340047001902 adenylate kinases; Region: adk; TIGR01351 340047001903 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 340047001904 AMP-binding site [chemical binding]; other site 340047001905 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 340047001906 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 340047001907 SecY translocase; Region: SecY; pfam00344 340047001908 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 340047001909 ribosomal protein S5; Validated; Region: rps5; CHL00138 340047001910 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 340047001911 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 340047001912 5S rRNA interface [nucleotide binding]; other site 340047001913 23S rRNA interface [nucleotide binding]; other site 340047001914 L5 interface [polypeptide binding]; other site 340047001915 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 340047001916 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 340047001917 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 340047001918 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 340047001919 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 340047001920 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 340047001921 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 340047001922 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 340047001923 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 340047001924 KOW motif; Region: KOW; cl00354 340047001925 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 340047001926 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 340047001927 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cl09943 340047001928 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 340047001929 23S rRNA interface [nucleotide binding]; other site 340047001930 5S rRNA interface [nucleotide binding]; other site 340047001931 putative antibiotic binding site [chemical binding]; other site 340047001932 L25 interface [polypeptide binding]; other site 340047001933 L27 interface [polypeptide binding]; other site 340047001934 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 340047001935 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 340047001936 G-X-X-G motif; other site 340047001937 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 340047001938 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 340047001939 putative translocon binding site; other site 340047001940 protein-rRNA interface [nucleotide binding]; other site 340047001941 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 340047001942 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 340047001943 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 340047001944 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 340047001945 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 340047001946 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 340047001947 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 340047001948 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 340047001949 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 340047001950 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 340047001951 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047001952 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 340047001953 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 340047001954 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 340047001955 homodimer interface [polypeptide binding]; other site 340047001956 NADP binding site [chemical binding]; other site 340047001957 substrate binding site [chemical binding]; other site 340047001958 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 340047001959 Cation transport protein; Region: TrkH; cl10514 340047001960 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 340047001961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047001962 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 340047001963 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 340047001964 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 340047001965 GatB domain; Region: GatB_Yqey; cl11497 340047001966 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 340047001967 Amidase; Region: Amidase; cl11426 340047001968 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 340047001969 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 340047001970 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 340047001971 nucleotide binding pocket [chemical binding]; other site 340047001972 K-X-D-G motif; other site 340047001973 catalytic site [active] 340047001974 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 340047001975 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 340047001976 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 340047001977 Dimer interface [polypeptide binding]; other site 340047001978 BRCT sequence motif; other site 340047001979 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 340047001980 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 340047001981 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 340047001982 active site 340047001983 CAAX protease self-immunity; Region: Abi; cl00558 340047001984 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 340047001985 dimerization domain swap beta strand [polypeptide binding]; other site 340047001986 regulatory protein interface [polypeptide binding]; other site 340047001987 active site 340047001988 regulatory phosphorylation site [posttranslational modification]; other site 340047001989 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 340047001990 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047001991 Family description; Region: UvrD_C_2; cl15862 340047001992 RDD family; Region: RDD; cl00746 340047001993 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 340047001994 active site 340047001995 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047001996 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047001997 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 340047001998 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 340047001999 SelR domain; Region: SelR; pfam01641 340047002000 hypothetical protein; Provisional; Region: PRK06148 340047002001 Protein of unknown function DUF262; Region: DUF262; cl14890 340047002002 Protein of unknown function DUF262; Region: DUF262; cl14890 340047002003 Protein of unknown function DUF262; Region: DUF262; cl14890 340047002004 hypothetical protein; Provisional; Region: PRK06148 340047002005 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 340047002006 dimer interface [polypeptide binding]; other site 340047002007 conserved gate region; other site 340047002008 putative PBP binding loops; other site 340047002009 ABC-ATPase subunit interface; other site 340047002010 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 340047002011 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 340047002012 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047002013 Walker A/P-loop; other site 340047002014 ATP binding site [chemical binding]; other site 340047002015 Q-loop/lid; other site 340047002016 ABC transporter signature motif; other site 340047002017 Walker B; other site 340047002018 D-loop; other site 340047002019 H-loop/switch region; other site 340047002020 High affinity transport system protein p37; Region: Mycoplasma_p37; pfam06646 340047002021 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 340047002022 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 340047002023 active site 340047002024 motif I; other site 340047002025 motif II; other site 340047002026 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 340047002027 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 340047002028 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 340047002029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 340047002030 homodimer interface [polypeptide binding]; other site 340047002031 catalytic residue [active] 340047002032 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 340047002033 homotrimer interaction site [polypeptide binding]; other site 340047002034 putative active site [active] 340047002035 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047002036 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047002037 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047002038 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047002039 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047002040 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047002041 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047002042 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 340047002043 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 340047002044 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 340047002045 active site 340047002046 trimer interface [polypeptide binding]; other site 340047002047 allosteric site; other site 340047002048 active site lid [active] 340047002049 hexamer (dimer of trimers) interface [polypeptide binding]; other site 340047002050 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 340047002051 substrate binding site [chemical binding]; other site 340047002052 dimer interface [polypeptide binding]; other site 340047002053 catalytic triad [active] 340047002054 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 340047002055 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 340047002056 active site 340047002057 motif I; other site 340047002058 motif II; other site 340047002059 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340047002060 Sulfatase; Region: Sulfatase; cl10460 340047002061 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 340047002062 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 340047002063 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 340047002064 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 340047002065 intersubunit interface [polypeptide binding]; other site 340047002066 active site 340047002067 catalytic residue [active] 340047002068 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 340047002069 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 340047002070 active site 340047002071 substrate binding site [chemical binding]; other site 340047002072 metal binding site [ion binding]; metal-binding site 340047002073 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 340047002074 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 340047002075 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 340047002076 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 340047002077 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 340047002078 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 340047002079 MgtE intracellular N domain; Region: MgtE_N; cl15244 340047002080 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 340047002081 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 340047002082 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047002083 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047002084 bacterial surface protein 26-residue repeat; Region: Liste_lipo_26; TIGR02167 340047002085 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 340047002086 active site 340047002087 adenylosuccinate lyase; Provisional; Region: PRK07492 340047002088 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 340047002089 tetramer interface [polypeptide binding]; other site 340047002090 active site 340047002091 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 340047002092 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 340047002093 GDP-binding site [chemical binding]; other site 340047002094 ACT binding site; other site 340047002095 IMP binding site; other site 340047002096 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 340047002097 active site 340047002098 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047002099 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047002100 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 340047002101 excinuclease ABC subunit B; Provisional; Region: PRK05298 340047002102 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 340047002103 ATP binding site [chemical binding]; other site 340047002104 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 340047002105 nucleotide binding region [chemical binding]; other site 340047002106 ATP-binding site [chemical binding]; other site 340047002107 Ultra-violet resistance protein B; Region: UvrB; pfam12344 340047002108 UvrB/uvrC motif; Region: UVR; pfam02151 340047002109 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 340047002110 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 340047002111 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 340047002112 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 340047002113 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 340047002114 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 340047002115 HPr kinase/phosphorylase; Provisional; Region: PRK05428 340047002116 DRTGG domain; Region: DRTGG; cl12147 340047002117 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 340047002118 Hpr binding site; other site 340047002119 active site 340047002120 homohexamer subunit interaction site [polypeptide binding]; other site 340047002121 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 340047002122 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 340047002123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047002124 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340047002125 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 340047002126 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 340047002127 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 340047002128 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 340047002129 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047002130 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 340047002131 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 340047002132 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 340047002133 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 340047002134 active site turn [active] 340047002135 phosphorylation site [posttranslational modification] 340047002136 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 340047002137 active site 340047002138 catalytic residues [active] 340047002139 PTS system, maltose and glucose-specific IIBC component; Region: PTS-IIBC-malX; TIGR02004 340047002140 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 340047002141 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 340047002142 active site turn [active] 340047002143 phosphorylation site [posttranslational modification] 340047002144 Helix-turn-helix domains; Region: HTH; cl00088 340047002145 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 340047002146 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 340047002147 DNA topoisomerase I; Validated; Region: PRK05582 340047002148 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 340047002149 active site 340047002150 interdomain interaction site; other site 340047002151 putative metal-binding site [ion binding]; other site 340047002152 nucleotide binding site [chemical binding]; other site 340047002153 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 340047002154 domain I; other site 340047002155 DNA binding groove [nucleotide binding] 340047002156 phosphate binding site [ion binding]; other site 340047002157 domain II; other site 340047002158 domain III; other site 340047002159 nucleotide binding site [chemical binding]; other site 340047002160 catalytic site [active] 340047002161 domain IV; other site 340047002162 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 340047002163 DNA polymerase III PolC; Validated; Region: polC; PRK00448 340047002164 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 340047002165 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 340047002166 Walker A/P-loop; other site 340047002167 ATP binding site [chemical binding]; other site 340047002168 Q-loop/lid; other site 340047002169 ABC transporter signature motif; other site 340047002170 Walker B; other site 340047002171 D-loop; other site 340047002172 H-loop/switch region; other site 340047002173 ABC-2 type transporter; Region: ABC2_membrane; cl11417 340047002174 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 340047002175 Protein of unknown function DUF45; Region: DUF45; cl00636 340047002176 GTP-binding protein YchF; Reviewed; Region: PRK09601 340047002177 YchF GTPase; Region: YchF; cd01900 340047002178 G1 box; other site 340047002179 GTP/Mg2+ binding site [chemical binding]; other site 340047002180 Switch I region; other site 340047002181 G2 box; other site 340047002182 Switch II region; other site 340047002183 G3 box; other site 340047002184 G4 box; other site 340047002185 G5 box; other site 340047002186 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 340047002187 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 340047002188 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 340047002189 S-adenosylmethionine binding site [chemical binding]; other site 340047002190 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 340047002191 Amino acid permease; Region: AA_permease_2; pfam13520 340047002192 magnesium-translocating P-type ATPase; Region: ATPase-IIIB_Mg; TIGR01524 340047002193 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 340047002194 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340047002195 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 340047002196 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14960 340047002197 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 340047002198 IHF dimer interface [polypeptide binding]; other site 340047002199 IHF - DNA interface [nucleotide binding]; other site 340047002200 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 340047002201 Mycoplasma MFS transporter; Region: MFS_Mycoplasma; pfam07672 340047002202 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 340047002203 motif 1; other site 340047002204 dimer interface [polypeptide binding]; other site 340047002205 active site 340047002206 motif 2; other site 340047002207 motif 3; other site 340047002208 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 340047002209 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 340047002210 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 340047002211 trmE is a tRNA modification GTPase; Region: trmE; cd04164 340047002212 G1 box; other site 340047002213 GTP/Mg2+ binding site [chemical binding]; other site 340047002214 Switch I region; other site 340047002215 G2 box; other site 340047002216 Switch II region; other site 340047002217 G3 box; other site 340047002218 G4 box; other site 340047002219 G5 box; other site 340047002220 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 340047002221 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 340047002222 UGMP family protein; Validated; Region: PRK09604 340047002223 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 340047002224 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 340047002225 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 340047002226 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 340047002227 active site 340047002228 motif I; other site 340047002229 motif II; other site 340047002230 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340047002231 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 340047002232 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 340047002233 putative dimer interface [polypeptide binding]; other site 340047002234 putative anticodon binding site; other site 340047002235 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 340047002236 homodimer interface [polypeptide binding]; other site 340047002237 motif 1; other site 340047002238 motif 2; other site 340047002239 active site 340047002240 motif 3; other site 340047002241 phosphate/phosphite/phosphonate ABC transporters, periplasmic binding protein; Region: 3A0109s03R; TIGR01098 340047002242 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 340047002243 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 340047002244 Walker A/P-loop; other site 340047002245 ATP binding site [chemical binding]; other site 340047002246 Q-loop/lid; other site 340047002247 ABC transporter signature motif; other site 340047002248 Walker B; other site 340047002249 D-loop; other site 340047002250 H-loop/switch region; other site 340047002251 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 340047002252 dimer interface [polypeptide binding]; other site 340047002253 conserved gate region; other site 340047002254 putative PBP binding loops; other site 340047002255 ABC-ATPase subunit interface; other site 340047002256 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 340047002257 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 340047002258 dimer interface [polypeptide binding]; other site 340047002259 conserved gate region; other site 340047002260 putative PBP binding loops; other site 340047002261 ABC-ATPase subunit interface; other site 340047002262 phosphodiesterase; Provisional; Region: PRK12704 340047002263 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 340047002264 Competence protein; Region: Competence; cl00471 340047002265 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 340047002266 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 340047002267 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 340047002268 active site 340047002269 motif I; other site 340047002270 motif II; other site 340047002271 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 340047002272 catalytic residues [active] 340047002273 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 340047002274 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 340047002275 dimer interface [polypeptide binding]; other site 340047002276 putative anticodon binding site; other site 340047002277 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 340047002278 motif 1; other site 340047002279 active site 340047002280 motif 2; other site 340047002281 motif 3; other site 340047002282 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 340047002283 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 340047002284 FMN binding site [chemical binding]; other site 340047002285 active site 340047002286 catalytic residues [active] 340047002287 substrate binding site [chemical binding]; other site 340047002288 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 340047002289 seryl-tRNA synthetase; Provisional; Region: PRK05431 340047002290 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 340047002291 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 340047002292 dimer interface [polypeptide binding]; other site 340047002293 active site 340047002294 motif 1; other site 340047002295 motif 2; other site 340047002296 motif 3; other site 340047002297 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 340047002298 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 340047002299 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 340047002300 PTS_IIB, PTS system, glucose/sucrose specific IIB 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_IIB_glc; cd00212 340047002301 active site turn [active] 340047002302 phosphorylation site [posttranslational modification] 340047002303 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 340047002304 catalytic triad [active] 340047002305 Putative peptidase (DUF31); Region: DUF31; pfam01732 340047002306 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 340047002307 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 340047002308 Helix-turn-helix domains; Region: HTH; cl00088 340047002309 Helix-turn-helix domains; Region: HTH; cl00088 340047002310 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 340047002311 Helix-turn-helix domains; Region: HTH; cl00088 340047002312 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 340047002313 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 340047002314 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 340047002315 putative substrate binding site [chemical binding]; other site 340047002316 putative ATP binding site [chemical binding]; other site 340047002317 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 340047002318 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 340047002319 active site 340047002320 phosphorylation site [posttranslational modification] 340047002321 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 340047002322 P-loop; other site 340047002323 active site 340047002324 phosphorylation site [posttranslational modification] 340047002325 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 340047002326 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 340047002327 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 340047002328 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 340047002329 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 340047002330 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 340047002331 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 340047002332 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 340047002333 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 340047002334 catalytic triad [active] 340047002335 conserved cis-peptide bond; other site 340047002336 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 340047002337 V-type ATP synthase subunit I; Validated; Region: PRK05771 340047002338 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 340047002339 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 340047002340 hypothetical protein; Provisional; Region: PRK11281 340047002341 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 340047002342 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cl00148 340047002343 primary dimer interface [polypeptide binding]; other site 340047002344 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 340047002345 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 340047002346 active site 340047002347 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 340047002348 active site 340047002349 ATP binding site [chemical binding]; other site 340047002350 substrate binding site [chemical binding]; other site 340047002351 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 340047002352 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 340047002353 active site 340047002354 motif I; other site 340047002355 motif II; other site 340047002356 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 340047002357 Ribonuclease P; Region: Ribonuclease_P; cl00457 340047002358 Ribosomal protein L34; Region: Ribosomal_L34; cl00370