-- dump date 20120504_151910 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1090974000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1090974000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1090974000003 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 1090974000004 Walker A motif; other site 1090974000005 ATP binding site [chemical binding]; other site 1090974000006 Walker B motif; other site 1090974000007 arginine finger; other site 1090974000008 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 1090974000009 DnaA box-binding interface [nucleotide binding]; other site 1090974000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 1090974000011 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 1090974000012 putative DNA binding surface [nucleotide binding]; other site 1090974000013 dimer interface [polypeptide binding]; other site 1090974000014 beta-clamp/clamp loader binding surface; other site 1090974000015 beta-clamp/translesion DNA polymerase binding surface; other site 1090974000016 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 1090974000017 recombination protein F; Reviewed; Region: recF; PRK00064 1090974000018 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 1090974000019 Walker A/P-loop; other site 1090974000020 ATP binding site [chemical binding]; other site 1090974000021 Q-loop/lid; other site 1090974000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974000023 ABC transporter signature motif; other site 1090974000024 Walker B; other site 1090974000025 D-loop; other site 1090974000026 H-loop/switch region; other site 1090974000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1090974000028 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 1090974000029 Mg2+ binding site [ion binding]; other site 1090974000030 G-X-G motif; other site 1090974000031 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 1090974000032 anchoring element; other site 1090974000033 dimer interface [polypeptide binding]; other site 1090974000034 ATP binding site [chemical binding]; other site 1090974000035 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 1090974000036 active site 1090974000037 putative metal-binding site [ion binding]; other site 1090974000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1090974000039 DNA gyrase subunit A; Validated; Region: PRK05560 1090974000040 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 1090974000041 CAP-like domain; other site 1090974000042 active site 1090974000043 primary dimer interface [polypeptide binding]; other site 1090974000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1090974000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1090974000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1090974000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1090974000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1090974000049 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 1090974000050 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 1090974000051 dimer interface [polypeptide binding]; other site 1090974000052 ssDNA binding site [nucleotide binding]; other site 1090974000053 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1090974000054 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1090974000055 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 1090974000056 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1090974000057 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1090974000058 DHH family; Region: DHH; pfam01368 1090974000059 DHHA1 domain; Region: DHHA1; pfam02272 1090974000060 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1090974000061 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1090974000062 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1090974000063 replicative DNA helicase; Provisional; Region: PRK05748 1090974000064 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1090974000065 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 1090974000066 Walker A motif; other site 1090974000067 ATP binding site [chemical binding]; other site 1090974000068 Walker B motif; other site 1090974000069 DNA binding loops [nucleotide binding] 1090974000070 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1090974000071 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 1090974000072 GDP-binding site [chemical binding]; other site 1090974000073 ACT binding site; other site 1090974000074 IMP binding site; other site 1090974000075 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1090974000076 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974000077 Walker A/P-loop; other site 1090974000078 ATP binding site [chemical binding]; other site 1090974000079 Q-loop/lid; other site 1090974000080 ABC transporter signature motif; other site 1090974000081 Walker B; other site 1090974000082 D-loop; other site 1090974000083 H-loop/switch region; other site 1090974000084 ABC transporter; Region: ABC_tran_2; pfam12848 1090974000085 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 1090974000086 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1090974000087 Helix-turn-helix domains; Region: HTH; cl00088 1090974000088 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 1090974000089 Walker A motif; other site 1090974000090 ATP binding site [chemical binding]; other site 1090974000091 Walker B motif; other site 1090974000092 arginine finger; other site 1090974000093 Transcriptional antiterminator [Transcription]; Region: COG3933 1090974000094 PRD domain; Region: PRD; cl15445 1090974000095 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 1090974000096 active pocket/dimerization site; other site 1090974000097 active site 1090974000098 phosphorylation site [posttranslational modification] 1090974000099 PRD domain; Region: PRD; cl15445 1090974000100 PTS_IIB, PTS system, Mannose/sorbose 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_man; cd00001 1090974000101 active site 1090974000102 phosphorylation site [posttranslational modification] 1090974000103 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1090974000104 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1090974000105 active pocket/dimerization site; other site 1090974000106 active site 1090974000107 phosphorylation site [posttranslational modification] 1090974000108 PTS_IIB, PTS system, Mannose/sorbose 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_man; cd00001 1090974000109 active site 1090974000110 phosphorylation site [posttranslational modification] 1090974000111 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 1090974000112 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1090974000113 Domain of unknown function (DUF956); Region: DUF956; cl01917 1090974000114 O-Glycosyl hydrolase [Cell envelope biogenesis, outer membrane]; Region: COG5520 1090974000115 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 1090974000116 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 1090974000117 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1090974000118 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 1090974000119 Glycosyl hydrolase family 43; Region: GH43_4; cd08983 1090974000120 active site 1090974000121 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1090974000122 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 1090974000123 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1090974000124 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 1090974000125 Cupin domain; Region: Cupin_2; cl09118 1090974000126 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1090974000127 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1090974000128 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1090974000129 Predicted membrane protein [Function unknown]; Region: COG3463 1090974000130 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1090974000131 trimer interface [polypeptide binding]; other site 1090974000132 active site 1090974000133 DNA repair protein RadA; Provisional; Region: PRK11823 1090974000134 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1090974000135 Walker A motif/ATP binding site; other site 1090974000136 ATP binding site [chemical binding]; other site 1090974000137 Walker B motif; other site 1090974000138 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 1090974000139 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 1090974000140 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 1090974000141 putative active site [active] 1090974000142 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1090974000143 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1090974000144 HIGH motif; other site 1090974000145 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1090974000146 active site 1090974000147 KMSKS motif; other site 1090974000148 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1090974000149 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1090974000150 active site 1090974000151 HIGH motif; other site 1090974000152 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1090974000153 KMSKS motif; other site 1090974000154 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1090974000155 tRNA binding surface [nucleotide binding]; other site 1090974000156 anticodon binding site; other site 1090974000157 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 1090974000158 active site 1090974000159 metal binding site [ion binding]; metal-binding site 1090974000160 dimerization interface [polypeptide binding]; other site 1090974000161 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1090974000162 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 1090974000163 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1090974000164 YacP-like NYN domain; Region: NYN_YacP; cl01491 1090974000165 RNA polymerase factor sigma-70; Validated; Region: PRK08295 1090974000166 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 1090974000167 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1090974000168 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1090974000169 intersubunit interface [polypeptide binding]; other site 1090974000170 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1090974000171 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 1090974000172 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1090974000173 ABC-ATPase subunit interface; other site 1090974000174 dimer interface [polypeptide binding]; other site 1090974000175 putative PBP binding regions; other site 1090974000176 pur operon repressor; Provisional; Region: PRK09213 1090974000177 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1090974000178 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1090974000179 active site 1090974000180 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1090974000181 Peptidase_C39 like family; Region: Peptidase_C39_2; pfam13529 1090974000182 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 1090974000183 putative active site [active] 1090974000184 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 1090974000185 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 1090974000186 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 1090974000187 elongation factor P; Validated; Region: PRK00529 1090974000188 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1090974000189 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 1090974000190 RNA binding site [nucleotide binding]; other site 1090974000191 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 1090974000192 RNA binding site [nucleotide binding]; other site 1090974000193 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1090974000194 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1090974000195 active site 1090974000196 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 1090974000197 active site 1090974000198 catalytic site [active] 1090974000199 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 1090974000200 23S rRNA interface [nucleotide binding]; other site 1090974000201 L3 interface [polypeptide binding]; other site 1090974000202 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 1090974000203 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1090974000204 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1090974000205 active site 1090974000206 phosphorylation site [posttranslational modification] 1090974000207 intermolecular recognition site; other site 1090974000208 dimerization interface [polypeptide binding]; other site 1090974000209 LytTr DNA-binding domain; Region: LytTR; cl04498 1090974000210 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1090974000211 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1090974000212 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1090974000213 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974000214 Walker A/P-loop; other site 1090974000215 ATP binding site [chemical binding]; other site 1090974000216 Q-loop/lid; other site 1090974000217 ABC transporter signature motif; other site 1090974000218 Walker B; other site 1090974000219 D-loop; other site 1090974000220 H-loop/switch region; other site 1090974000221 topology modulation protein; Reviewed; Region: PRK08118 1090974000222 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974000223 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1090974000224 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1090974000225 non-specific DNA binding site [nucleotide binding]; other site 1090974000226 salt bridge; other site 1090974000227 sequence-specific DNA binding site [nucleotide binding]; other site 1090974000228 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1090974000229 trimer interface [polypeptide binding]; other site 1090974000230 active site 1090974000231 substrate binding site [chemical binding]; other site 1090974000232 CoA binding site [chemical binding]; other site 1090974000233 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 1090974000234 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1090974000235 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1090974000236 active site 1090974000237 phosphorylation site [posttranslational modification] 1090974000238 intermolecular recognition site; other site 1090974000239 dimerization interface [polypeptide binding]; other site 1090974000240 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 1090974000241 DNA binding residues [nucleotide binding] 1090974000242 dimerization interface [polypeptide binding]; other site 1090974000243 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1090974000244 Histidine kinase; Region: HisKA_3; pfam07730 1090974000245 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1090974000246 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1090974000247 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1090974000248 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 1090974000249 Walker A/P-loop; other site 1090974000250 ATP binding site [chemical binding]; other site 1090974000251 Q-loop/lid; other site 1090974000252 ABC transporter signature motif; other site 1090974000253 Walker B; other site 1090974000254 D-loop; other site 1090974000255 H-loop/switch region; other site 1090974000256 Glycerate kinase family; Region: Gly_kinase; cl00841 1090974000257 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1090974000258 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1090974000259 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1090974000260 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1090974000261 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1090974000262 legume lectins; Region: lectin_L-type; cd01951 1090974000263 homotetramer interaction site [polypeptide binding]; other site 1090974000264 carbohydrate binding site [chemical binding]; other site 1090974000265 metal binding site [ion binding]; metal-binding site 1090974000266 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 1090974000267 WxL domain surface cell wall-binding; Region: WxL; pfam13731 1090974000268 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 1090974000269 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1090974000270 Walker A/P-loop; other site 1090974000271 ATP binding site [chemical binding]; other site 1090974000272 Q-loop/lid; other site 1090974000273 ABC transporter signature motif; other site 1090974000274 Walker B; other site 1090974000275 D-loop; other site 1090974000276 H-loop/switch region; other site 1090974000277 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 1090974000278 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 1090974000279 GI:332685628; hypothetical protein 1090974000280 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1090974000281 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 1090974000282 Walker A/P-loop; other site 1090974000283 ATP binding site [chemical binding]; other site 1090974000284 Q-loop/lid; other site 1090974000285 ABC transporter signature motif; other site 1090974000286 Walker B; other site 1090974000287 D-loop; other site 1090974000288 H-loop/switch region; other site 1090974000289 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 1090974000290 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1090974000291 NAD binding site [chemical binding]; other site 1090974000292 substrate binding site [chemical binding]; other site 1090974000293 catalytic Zn binding site [ion binding]; other site 1090974000294 tetramer interface [polypeptide binding]; other site 1090974000295 structural Zn binding site [ion binding]; other site 1090974000296 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1090974000297 dimer interface [polypeptide binding]; other site 1090974000298 phosphorylation site [posttranslational modification] 1090974000299 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 1090974000300 ATP binding site [chemical binding]; other site 1090974000301 Mg2+ binding site [ion binding]; other site 1090974000302 G-X-G motif; other site 1090974000303 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1090974000304 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1090974000305 active site 1090974000306 phosphorylation site [posttranslational modification] 1090974000307 intermolecular recognition site; other site 1090974000308 dimerization interface [polypeptide binding]; other site 1090974000309 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1090974000310 DNA binding site [nucleotide binding] 1090974000311 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 1090974000312 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1090974000313 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 1090974000314 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 1090974000315 dimer interface [polypeptide binding]; other site 1090974000316 conserved gate region; other site 1090974000317 putative PBP binding loops; other site 1090974000318 ABC-ATPase subunit interface; other site 1090974000319 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1090974000320 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 1090974000321 dimer interface [polypeptide binding]; other site 1090974000322 conserved gate region; other site 1090974000323 putative PBP binding loops; other site 1090974000324 ABC-ATPase subunit interface; other site 1090974000325 Glycosyl hydrolase family 43; Region: GH43_1; cd08980 1090974000326 active site 1090974000327 potential frameshift: common BLAST hit: gi|332685640|ref|YP_004455414.1| alpha-N-arabinofuranosidase 1090974000328 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1090974000329 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 1090974000330 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; cl01412 1090974000331 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 1090974000332 dimer interface [polypeptide binding]; other site 1090974000333 FMN binding site [chemical binding]; other site 1090974000334 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 1090974000335 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1090974000336 NAD binding site [chemical binding]; other site 1090974000337 homotetramer interface [polypeptide binding]; other site 1090974000338 homodimer interface [polypeptide binding]; other site 1090974000339 substrate binding site [chemical binding]; other site 1090974000340 active site 1090974000341 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1090974000342 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1090974000343 dimer interface [polypeptide binding]; other site 1090974000344 active site 1090974000345 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 1090974000346 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1090974000347 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1090974000348 Substrate binding site; other site 1090974000349 Mg++ binding site; other site 1090974000350 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 1090974000351 active site 1090974000352 substrate binding site [chemical binding]; other site 1090974000353 CoA binding site [chemical binding]; other site 1090974000354 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1090974000355 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1090974000356 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1090974000357 active site 1090974000358 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1090974000359 Predicted small secreted protein [Function unknown]; Region: COG5584 1090974000360 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1090974000361 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1090974000362 oligomer interface [polypeptide binding]; other site 1090974000363 active site 1090974000364 metal binding site [ion binding]; metal-binding site 1090974000365 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 1090974000366 catalytic residues [active] 1090974000367 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1090974000368 Ligand Binding Site [chemical binding]; other site 1090974000369 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 1090974000370 putative tRNA-binding site [nucleotide binding]; other site 1090974000371 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1090974000372 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 1090974000373 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1090974000374 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1090974000375 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1090974000376 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1090974000377 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1090974000378 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 1090974000379 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 1090974000380 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1090974000381 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 1090974000382 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 1090974000383 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 1090974000384 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 1090974000385 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 1090974000386 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1090974000387 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1090974000388 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1090974000389 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 1090974000390 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 1090974000391 putative translocon binding site; other site 1090974000392 protein-rRNA interface [nucleotide binding]; other site 1090974000393 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1090974000394 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 1090974000395 G-X-X-G motif; other site 1090974000396 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1090974000397 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 1090974000398 23S rRNA interface [nucleotide binding]; other site 1090974000399 5S rRNA interface [nucleotide binding]; other site 1090974000400 putative antibiotic binding site [chemical binding]; other site 1090974000401 L25 interface [polypeptide binding]; other site 1090974000402 L27 interface [polypeptide binding]; other site 1090974000403 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 1090974000404 23S rRNA interface [nucleotide binding]; other site 1090974000405 putative translocon interaction site; other site 1090974000406 signal recognition particle (SRP54) interaction site; other site 1090974000407 L23 interface [polypeptide binding]; other site 1090974000408 trigger factor interaction site; other site 1090974000409 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 1090974000410 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 1090974000411 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1090974000412 KOW motif; Region: KOW; cl00354 1090974000413 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1090974000414 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1090974000415 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1090974000416 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 1090974000417 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 1090974000418 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1090974000419 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1090974000420 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1090974000421 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 1090974000422 5S rRNA interface [nucleotide binding]; other site 1090974000423 L27 interface [polypeptide binding]; other site 1090974000424 23S rRNA interface [nucleotide binding]; other site 1090974000425 L5 interface [polypeptide binding]; other site 1090974000426 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1090974000427 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1090974000428 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1090974000429 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 1090974000430 23S rRNA binding site [nucleotide binding]; other site 1090974000431 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 1090974000432 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1090974000433 SecY translocase; Region: SecY; pfam00344 1090974000434 adenylate kinase; Reviewed; Region: adk; PRK00279 1090974000435 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 1090974000436 AMP-binding site [chemical binding]; other site 1090974000437 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1090974000438 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 1090974000439 rRNA binding site [nucleotide binding]; other site 1090974000440 predicted 30S ribosome binding site; other site 1090974000441 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 1090974000442 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1090974000443 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 1090974000444 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 1090974000445 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1090974000446 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1090974000447 alphaNTD homodimer interface [polypeptide binding]; other site 1090974000448 alphaNTD - beta interaction site [polypeptide binding]; other site 1090974000449 alphaNTD - beta' interaction site [polypeptide binding]; other site 1090974000450 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 1090974000451 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 1090974000452 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974000453 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 1090974000454 Q-loop/lid; other site 1090974000455 ABC transporter signature motif; other site 1090974000456 Walker B; other site 1090974000457 D-loop; other site 1090974000458 H-loop/switch region; other site 1090974000459 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13634 1090974000460 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 1090974000461 Walker A/P-loop; other site 1090974000462 ATP binding site [chemical binding]; other site 1090974000463 Q-loop/lid; other site 1090974000464 ABC transporter signature motif; other site 1090974000465 Walker B; other site 1090974000466 D-loop; other site 1090974000467 H-loop/switch region; other site 1090974000468 Cobalt transport protein; Region: CbiQ; cl00463 1090974000469 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1090974000470 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1090974000471 dimerization interface 3.5A [polypeptide binding]; other site 1090974000472 active site 1090974000473 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1090974000474 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1090974000475 GI:332685700; branched-chain amino acid transport system carrier protein 1090974000476 sensory histidine kinase DcuS; Provisional; Region: PRK11086 1090974000477 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 1090974000478 ATP binding site [chemical binding]; other site 1090974000479 Mg2+ binding site [ion binding]; other site 1090974000480 G-X-G motif; other site 1090974000481 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 1090974000482 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1090974000483 active site 1090974000484 phosphorylation site [posttranslational modification] 1090974000485 intermolecular recognition site; other site 1090974000486 dimerization interface [polypeptide binding]; other site 1090974000487 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1090974000488 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974000489 Membrane transport protein; Region: Mem_trans; cl09117 1090974000490 glucose-1-dehydrogenase; Provisional; Region: PRK08936 1090974000491 glucose 1 dehydrogenase (GlcDH), classical (c) SDRs; Region: GlcDH_SDR_c; cd05358 1090974000492 NAD binding site [chemical binding]; other site 1090974000493 homodimer interface [polypeptide binding]; other site 1090974000494 active site 1090974000495 Septation ring formation regulator, EzrA; Region: EzrA; pfam06160 1090974000496 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1090974000497 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 1090974000498 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1090974000499 catalytic residue [active] 1090974000500 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1090974000501 THUMP domain; Region: THUMP; cl12076 1090974000502 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 1090974000503 Ligand Binding Site [chemical binding]; other site 1090974000504 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1090974000505 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1090974000506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974000507 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1090974000508 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1090974000509 active site 1090974000510 HIGH motif; other site 1090974000511 nucleotide binding site [chemical binding]; other site 1090974000512 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1090974000513 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1090974000514 active site 1090974000515 KMSKS motif; other site 1090974000516 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1090974000517 tRNA binding surface [nucleotide binding]; other site 1090974000518 anticodon binding site; other site 1090974000519 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1090974000520 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1090974000521 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1090974000522 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1090974000523 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1090974000524 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1090974000525 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1090974000526 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 1090974000527 motif II; other site 1090974000528 hypothetical protein; Reviewed; Region: PRK00024 1090974000529 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1090974000530 MPN+ (JAMM) motif; other site 1090974000531 Zinc-binding site [ion binding]; other site 1090974000532 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 1090974000533 DNA-binding site [nucleotide binding]; DNA binding site 1090974000534 RNA-binding motif; other site 1090974000535 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1090974000536 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1090974000537 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1090974000538 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 1090974000539 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1090974000540 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1090974000541 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974000542 Walker A/P-loop; other site 1090974000543 ATP binding site [chemical binding]; other site 1090974000544 Q-loop/lid; other site 1090974000545 ABC transporter signature motif; other site 1090974000546 Walker B; other site 1090974000547 D-loop; other site 1090974000548 H-loop/switch region; other site 1090974000549 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1090974000550 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1090974000551 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 1090974000552 Walker A/P-loop; other site 1090974000553 ATP binding site [chemical binding]; other site 1090974000554 Q-loop/lid; other site 1090974000555 ABC transporter signature motif; other site 1090974000556 Walker B; other site 1090974000557 D-loop; other site 1090974000558 H-loop/switch region; other site 1090974000559 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 1090974000560 trimer interface [polypeptide binding]; other site 1090974000561 putative metal binding site [ion binding]; other site 1090974000562 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 1090974000563 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1090974000564 active site 1090974000565 homodimer interface [polypeptide binding]; other site 1090974000566 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4918 1090974000567 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1090974000568 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1090974000569 catalytic residues [active] 1090974000570 catalytic nucleophile [active] 1090974000571 Presynaptic Site I dimer interface [polypeptide binding]; other site 1090974000572 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1090974000573 Synaptic Flat tetramer interface [polypeptide binding]; other site 1090974000574 Synaptic Site I dimer interface [polypeptide binding]; other site 1090974000575 DNA binding site [nucleotide binding] 1090974000576 potential frameshift: common BLAST hit: gi|125718905|ref|YP_001036038.1| cell wall surface anchor family protein 1090974000577 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 1090974000578 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 1090974000579 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 1090974000580 domain interaction interfaces; other site 1090974000581 putative Ca2+ binding sites [ion binding]; other site 1090974000582 putative ligand binding motif; other site 1090974000583 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 1090974000584 putative Ca2+ binding sites [ion binding]; other site 1090974000585 domain interaction interfaces; other site 1090974000586 putative ligand binding motif; other site 1090974000587 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 1090974000588 putative Ca2+ binding sites [ion binding]; other site 1090974000589 domain interaction interfaces; other site 1090974000590 putative ligand binding motif; other site 1090974000591 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 1090974000592 domain interaction interfaces; other site 1090974000593 putative Ca2+ binding sites [ion binding]; other site 1090974000594 putative ligand binding motif; other site 1090974000595 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 1090974000596 domain interaction interfaces; other site 1090974000597 putative Ca2+ binding sites [ion binding]; other site 1090974000598 putative ligand binding motif; other site 1090974000599 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 1090974000600 domain interaction interfaces; other site 1090974000601 putative Ca2+ binding sites [ion binding]; other site 1090974000602 putative ligand binding motif; other site 1090974000603 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 1090974000604 domain interaction interfaces; other site 1090974000605 putative Ca2+ binding sites [ion binding]; other site 1090974000606 putative ligand binding motif; other site 1090974000607 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 1090974000608 domain interaction interfaces; other site 1090974000609 putative Ca2+ binding sites [ion binding]; other site 1090974000610 putative ligand binding motif; other site 1090974000611 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B repeat...; Region: CollagenBindB; cd00222 1090974000612 domain interaction interfaces; other site 1090974000613 putative Ca2+ binding sites [ion binding]; other site 1090974000614 putative ligand binding motif; other site 1090974000615 Gram positive anchor; Region: Gram_pos_anchor; cl15427 1090974000616 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1090974000617 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1090974000618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 1090974000619 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 1090974000620 Glycosyl hydrolase family 20 (GH20) catalytic domain of dispersin B (DspB), lacto-N-biosidase (LnbB) and related proteins. Dispersin B is a soluble beta-N-acetylglucosamidase found in bacteria that hydrolyzes the beta-1,6-linkages of PGA (poly-beta-(1,6)...; Region: GH20_DspB_LnbB-like; cd06564 1090974000621 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 1090974000622 active site 1090974000623 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 1090974000624 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1090974000625 FeS/SAM binding site; other site 1090974000626 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1090974000627 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1090974000628 DNA-binding site [nucleotide binding]; DNA binding site 1090974000629 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 1090974000630 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 1090974000631 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 1090974000632 dimer interface [polypeptide binding]; other site 1090974000633 active site 1090974000634 glycine loop; other site 1090974000635 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1090974000636 active site 1090974000637 intersubunit interactions; other site 1090974000638 catalytic residue [active] 1090974000639 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 1090974000640 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 1090974000641 Endo-alpha-N-acetylgalactosaminidase; Region: Glyco_hydro_101; pfam12905 1090974000642 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 1090974000643 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1090974000644 active site 1090974000645 phosphorylation site [posttranslational modification] 1090974000646 intermolecular recognition site; other site 1090974000647 dimerization interface [polypeptide binding]; other site 1090974000648 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1090974000649 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1090974000650 Histidine kinase; Region: His_kinase; pfam06580 1090974000651 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 1090974000652 ATP binding site [chemical binding]; other site 1090974000653 Mg2+ binding site [ion binding]; other site 1090974000654 G-X-G motif; other site 1090974000655 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1090974000656 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 1090974000657 putative ligand binding site [chemical binding]; other site 1090974000658 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1090974000659 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 1090974000660 Walker A/P-loop; other site 1090974000661 ATP binding site [chemical binding]; other site 1090974000662 Q-loop/lid; other site 1090974000663 ABC transporter signature motif; other site 1090974000664 Walker B; other site 1090974000665 D-loop; other site 1090974000666 H-loop/switch region; other site 1090974000667 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 1090974000668 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1090974000669 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 1090974000670 TM-ABC transporter signature motif; other site 1090974000671 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 1090974000672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974000673 Walker A/P-loop; other site 1090974000674 ATP binding site [chemical binding]; other site 1090974000675 Q-loop/lid; other site 1090974000676 ABC transporter signature motif; other site 1090974000677 Walker B; other site 1090974000678 D-loop; other site 1090974000679 H-loop/switch region; other site 1090974000680 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1090974000681 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1090974000682 GMP synthase; Reviewed; Region: guaA; PRK00074 1090974000683 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1090974000684 AMP/PPi binding site [chemical binding]; other site 1090974000685 candidate oxyanion hole; other site 1090974000686 catalytic triad [active] 1090974000687 potential glutamine specificity residues [chemical binding]; other site 1090974000688 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 1090974000689 ATP Binding subdomain [chemical binding]; other site 1090974000690 Dimerization subdomain; other site 1090974000691 pantothenate kinase; Provisional; Region: PRK05439 1090974000692 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 1090974000693 ATP-binding site [chemical binding]; other site 1090974000694 CoA-binding site [chemical binding]; other site 1090974000695 Mg2+-binding site [ion binding]; other site 1090974000696 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1090974000697 active site 1090974000698 catalytic triad [active] 1090974000699 oxyanion hole [active] 1090974000700 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 1090974000701 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1090974000702 S-adenosylmethionine binding site [chemical binding]; other site 1090974000703 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 1090974000704 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 1090974000705 active site 1090974000706 catalytic motif [active] 1090974000707 Zn binding site [ion binding]; other site 1090974000708 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1090974000709 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 1090974000710 ligand binding site [chemical binding]; other site 1090974000711 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1090974000712 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 1090974000713 Walker A/P-loop; other site 1090974000714 ATP binding site [chemical binding]; other site 1090974000715 Q-loop/lid; other site 1090974000716 ABC transporter signature motif; other site 1090974000717 Walker B; other site 1090974000718 D-loop; other site 1090974000719 H-loop/switch region; other site 1090974000720 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 1090974000721 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 1090974000722 TM-ABC transporter signature motif; other site 1090974000723 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 1090974000724 TM-ABC transporter signature motif; other site 1090974000725 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1090974000726 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1090974000727 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 1090974000728 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1090974000729 catalytic core [active] 1090974000730 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1090974000731 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 1090974000732 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1090974000733 active site 1090974000734 dimer interface [polypeptide binding]; other site 1090974000735 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 1090974000736 S17 interaction site [polypeptide binding]; other site 1090974000737 S8 interaction site; other site 1090974000738 16S rRNA interaction site [nucleotide binding]; other site 1090974000739 streptomycin interaction site [chemical binding]; other site 1090974000740 23S rRNA interaction site [nucleotide binding]; other site 1090974000741 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1090974000742 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 1090974000743 elongation factor G; Reviewed; Region: PRK00007 1090974000744 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1090974000745 G1 box; other site 1090974000746 putative GEF interaction site [polypeptide binding]; other site 1090974000747 GTP/Mg2+ binding site [chemical binding]; other site 1090974000748 Switch I region; other site 1090974000749 G2 box; other site 1090974000750 G3 box; other site 1090974000751 Switch II region; other site 1090974000752 G4 box; other site 1090974000753 G5 box; other site 1090974000754 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 1090974000755 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 1090974000756 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 1090974000757 elongation factor Tu; Reviewed; Region: PRK00049 1090974000758 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1090974000759 G1 box; other site 1090974000760 GEF interaction site [polypeptide binding]; other site 1090974000761 GTP/Mg2+ binding site [chemical binding]; other site 1090974000762 Switch I region; other site 1090974000763 G2 box; other site 1090974000764 G3 box; other site 1090974000765 Switch II region; other site 1090974000766 G4 box; other site 1090974000767 G5 box; other site 1090974000768 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 1090974000769 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 1090974000770 Antibiotic Binding Site [chemical binding]; other site 1090974000771 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1090974000772 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 1090974000773 catalytic site [active] 1090974000774 G-X2-G-X-G-K; other site 1090974000775 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 1090974000776 proline racemase; Provisional; Region: PRK13969 1090974000777 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1090974000778 primosome assembly protein PriA; Validated; Region: PRK05580 1090974000779 primosome assembly protein PriA; Validated; Region: PRK05580 1090974000780 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 1090974000781 ATP binding site [chemical binding]; other site 1090974000782 putative Mg++ binding site [ion binding]; other site 1090974000783 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 1090974000784 nucleotide binding region [chemical binding]; other site 1090974000785 ATP-binding site [chemical binding]; other site 1090974000786 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1090974000787 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1090974000788 putative active site [active] 1090974000789 substrate binding site [chemical binding]; other site 1090974000790 putative cosubstrate binding site; other site 1090974000791 catalytic site [active] 1090974000792 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1090974000793 substrate binding site [chemical binding]; other site 1090974000794 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1090974000795 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 1090974000796 putative RNA binding site [nucleotide binding]; other site 1090974000797 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 1090974000798 S-adenosylmethionine binding site [chemical binding]; other site 1090974000799 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; cd00143 1090974000800 active site 1090974000801 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1090974000802 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1090974000803 active site 1090974000804 ATP binding site [chemical binding]; other site 1090974000805 substrate binding site [chemical binding]; other site 1090974000806 activation loop (A-loop); other site 1090974000807 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1090974000808 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 1090974000809 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 1090974000810 ribosome small subunit-dependent GTPase A; Region: TIGR00157 1090974000811 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 1090974000812 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1090974000813 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1090974000814 GTP/Mg2+ binding site [chemical binding]; other site 1090974000815 G4 box; other site 1090974000816 G5 box; other site 1090974000817 G1 box; other site 1090974000818 Switch I region; other site 1090974000819 G2 box; other site 1090974000820 G3 box; other site 1090974000821 Switch II region; other site 1090974000822 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 1090974000823 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1090974000824 substrate binding site [chemical binding]; other site 1090974000825 hexamer interface [polypeptide binding]; other site 1090974000826 metal binding site [ion binding]; metal-binding site 1090974000827 Thiamine pyrophosphokinase; Region: TPK; cd07995 1090974000828 active site 1090974000829 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 1090974000830 dimerization interface [polypeptide binding]; other site 1090974000831 thiamine binding site [chemical binding]; other site 1090974000832 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 1090974000833 Asp23 family; Region: Asp23; cl00574 1090974000834 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1090974000835 DAK2 domain; Region: Dak2; cl03685 1090974000836 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 1090974000837 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1090974000838 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 1090974000839 generic binding surface II; other site 1090974000840 ssDNA binding site; other site 1090974000841 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 1090974000842 ATP binding site [chemical binding]; other site 1090974000843 putative Mg++ binding site [ion binding]; other site 1090974000844 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 1090974000845 nucleotide binding region [chemical binding]; other site 1090974000846 ATP-binding site [chemical binding]; other site 1090974000847 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 1090974000848 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1090974000849 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1090974000850 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1090974000851 substrate binding pocket [chemical binding]; other site 1090974000852 membrane-bound complex binding site; other site 1090974000853 hinge residues; other site 1090974000854 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 1090974000855 dimer interface [polypeptide binding]; other site 1090974000856 conserved gate region; other site 1090974000857 putative PBP binding loops; other site 1090974000858 ABC-ATPase subunit interface; other site 1090974000859 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1090974000860 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 1090974000861 Walker A/P-loop; other site 1090974000862 ATP binding site [chemical binding]; other site 1090974000863 Q-loop/lid; other site 1090974000864 ABC transporter signature motif; other site 1090974000865 Walker B; other site 1090974000866 D-loop; other site 1090974000867 H-loop/switch region; other site 1090974000868 maltose O-acetyltransferase; Provisional; Region: PRK10092 1090974000869 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1090974000870 active site 1090974000871 substrate binding site [chemical binding]; other site 1090974000872 trimer interface [polypeptide binding]; other site 1090974000873 CoA binding site [chemical binding]; other site 1090974000874 Chorismate mutase type II; Region: CM_2; cl00693 1090974000875 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1090974000876 Helix-turn-helix domains; Region: HTH; cl00088 1090974000877 3H domain; Region: 3H; pfam02829 1090974000878 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1090974000879 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1090974000880 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1090974000881 NAD binding site [chemical binding]; other site 1090974000882 dimer interface [polypeptide binding]; other site 1090974000883 substrate binding site [chemical binding]; other site 1090974000884 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 1090974000885 putative active site [active] 1090974000886 catalytic residue [active] 1090974000887 GI:332685798; transcription-repair coupling factor 1090974000888 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 1090974000889 Septum formation initiator; Region: DivIC; cl11433 1090974000890 hypothetical protein; Provisional; Region: PRK08582 1090974000891 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 1090974000892 RNA binding site [nucleotide binding]; other site 1090974000893 GI:332685802; tRNA(Ile)-lysidine synthetase 1090974000894 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1090974000895 active site 1090974000896 FtsH Extracellular; Region: FtsH_ext; pfam06480 1090974000897 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1090974000898 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 1090974000899 Walker A motif; other site 1090974000900 ATP binding site [chemical binding]; other site 1090974000901 Walker B motif; other site 1090974000902 arginine finger; other site 1090974000903 Peptidase family M41; Region: Peptidase_M41; pfam01434 1090974000904 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1090974000905 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 1090974000906 dimerization interface [polypeptide binding]; other site 1090974000907 domain crossover interface; other site 1090974000908 redox-dependent activation switch; other site 1090974000909 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1090974000910 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 1090974000911 FMN binding site [chemical binding]; other site 1090974000912 active site 1090974000913 catalytic residues [active] 1090974000914 substrate binding site [chemical binding]; other site 1090974000915 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1090974000916 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 1090974000917 dimer interface [polypeptide binding]; other site 1090974000918 putative anticodon binding site; other site 1090974000919 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 1090974000920 motif 1; other site 1090974000921 active site 1090974000922 motif 2; other site 1090974000923 motif 3; other site 1090974000924 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1090974000925 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1090974000926 catalytic core [active] 1090974000927 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1090974000928 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 1090974000929 nucleoside/Zn binding site; other site 1090974000930 dimer interface [polypeptide binding]; other site 1090974000931 catalytic motif [active] 1090974000932 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1090974000933 metal-binding site [ion binding] 1090974000934 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1090974000935 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1090974000936 metal-binding site [ion binding] 1090974000937 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1090974000938 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974000939 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1090974000940 metal-binding site [ion binding] 1090974000941 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH is...; Region: Peptidase_C1B; cd00585 1090974000942 trimer interface [polypeptide binding]; other site 1090974000943 active site 1090974000944 G bulge; other site 1090974000945 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 1090974000946 active site 1090974000947 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1090974000948 active site 2 [active] 1090974000949 active site 1 [active] 1090974000950 Protein of unknown function DUF72; Region: DUF72; cl00777 1090974000951 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 1090974000952 metal binding site [ion binding]; metal-binding site 1090974000953 trigger factor; Provisional; Region: tig; PRK01490 1090974000954 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 1090974000955 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1090974000956 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1090974000957 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 1090974000958 oligomer interface [polypeptide binding]; other site 1090974000959 active site 1090974000960 metal binding site [ion binding]; metal-binding site 1090974000961 Protein of unknown function (DUF975); Region: DUF975; cl10504 1090974000962 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1090974000963 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1090974000964 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1090974000965 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1090974000966 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1090974000967 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 1090974000968 S-adenosylmethionine binding site [chemical binding]; other site 1090974000969 peroxiredoxin; Region: AhpC; TIGR03137 1090974000970 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1090974000971 dimer interface [polypeptide binding]; other site 1090974000972 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1090974000973 catalytic triad [active] 1090974000974 peroxidatic and resolving cysteines [active] 1090974000975 putative alkyl hydroperoxide reductase F subunit; Region: AhpF_homolog; TIGR03143 1090974000976 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1090974000977 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1090974000978 catalytic residue [active] 1090974000979 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1090974000980 catalytic residues [active] 1090974000981 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 1090974000982 active site 1090974000983 catalytic site [active] 1090974000984 substrate binding site [chemical binding]; other site 1090974000985 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1090974000986 active site 1090974000987 putative catalytic site [active] 1090974000988 DNA binding site [nucleotide binding] 1090974000989 putative phosphate binding site [ion binding]; other site 1090974000990 metal binding site A [ion binding]; metal-binding site 1090974000991 AP binding site [nucleotide binding]; other site 1090974000992 metal binding site B [ion binding]; metal-binding site 1090974000993 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1090974000994 FAD binding domain; Region: FAD_binding_4; pfam01565 1090974000995 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1090974000996 FOG: CBS domain [General function prediction only]; Region: COG0517 1090974000997 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 1090974000998 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 1090974000999 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 1090974001000 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1090974001001 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1090974001002 putative homodimer interface [polypeptide binding]; other site 1090974001003 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1090974001004 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 1090974001005 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1090974001006 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 1090974001007 23S rRNA interface [nucleotide binding]; other site 1090974001008 L7/L12 interface [polypeptide binding]; other site 1090974001009 putative thiostrepton binding site; other site 1090974001010 L25 interface [polypeptide binding]; other site 1090974001011 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 1090974001012 mRNA/rRNA interface [nucleotide binding]; other site 1090974001013 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 1090974001014 23S rRNA interface [nucleotide binding]; other site 1090974001015 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1090974001016 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 1090974001017 core dimer interface [polypeptide binding]; other site 1090974001018 peripheral dimer interface [polypeptide binding]; other site 1090974001019 L10 interface [polypeptide binding]; other site 1090974001020 L11 interface [polypeptide binding]; other site 1090974001021 putative EF-Tu interaction site [polypeptide binding]; other site 1090974001022 putative EF-G interaction site [polypeptide binding]; other site 1090974001023 N-terminal catalytic domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_N; cd10320 1090974001024 active site 1090974001025 catalytic site [active] 1090974001026 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 1090974001027 C-terminal domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_C; cd10317 1090974001028 Ca binding site [ion binding]; other site 1090974001029 substrate binding site [chemical binding]; other site 1090974001030 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 1090974001031 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1090974001032 NAD binding site [chemical binding]; other site 1090974001033 substrate binding site [chemical binding]; other site 1090974001034 putative active site [active] 1090974001035 Helix-turn-helix domains; Region: HTH; cl00088 1090974001036 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1090974001037 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1090974001038 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 1090974001039 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1090974001040 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1090974001041 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 1090974001042 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 1090974001043 RPB1 interaction site [polypeptide binding]; other site 1090974001044 RPB11 interaction site [polypeptide binding]; other site 1090974001045 RPB12 interaction site [polypeptide binding]; other site 1090974001046 RPB10 interaction site [polypeptide binding]; other site 1090974001047 RPB11 interaction site [polypeptide binding]; other site 1090974001048 RPB3 interaction site [polypeptide binding]; other site 1090974001049 RPB12 interaction site [polypeptide binding]; other site 1090974001050 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1090974001051 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1090974001052 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 1090974001053 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1090974001054 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1090974001055 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1090974001056 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1090974001057 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1090974001058 DNA binding site [nucleotide binding] 1090974001059 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1090974001060 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 1090974001061 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1090974001062 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1090974001063 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1090974001064 dimerization interface [polypeptide binding]; other site 1090974001065 DPS ferroxidase diiron center [ion binding]; other site 1090974001066 ion pore; other site 1090974001067 TRAM domain; Region: TRAM; cl01282 1090974001068 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1090974001069 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; cl16911 1090974001070 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 1090974001071 S-adenosylmethionine binding site [chemical binding]; other site 1090974001072 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; cl16911 1090974001073 RecX family; Region: RecX; cl00936 1090974001074 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1090974001075 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1090974001076 minor groove reading motif; other site 1090974001077 helix-hairpin-helix signature motif; other site 1090974001078 substrate binding pocket [chemical binding]; other site 1090974001079 active site 1090974001080 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1090974001081 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 1090974001082 DNA binding and oxoG recognition site [nucleotide binding] 1090974001083 Protein of unknown function (DUF402); Region: DUF402; cl00979 1090974001084 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1090974001085 Coenzyme A binding pocket [chemical binding]; other site 1090974001086 GI:332687198; hypothetical protein 1090974001087 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1090974001088 Domain of unknown function DUF21; Region: DUF21; pfam01595 1090974001089 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1090974001090 Transporter associated domain; Region: CorC_HlyC; cl08393 1090974001091 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1090974001092 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1090974001093 G1 box; other site 1090974001094 putative GEF interaction site [polypeptide binding]; other site 1090974001095 GTP/Mg2+ binding site [chemical binding]; other site 1090974001096 Switch I region; other site 1090974001097 G2 box; other site 1090974001098 G3 box; other site 1090974001099 Switch II region; other site 1090974001100 G4 box; other site 1090974001101 G5 box; other site 1090974001102 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1090974001103 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 1090974001104 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1090974001105 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1090974001106 active site 1090974001107 metal binding site [ion binding]; metal-binding site 1090974001108 DNA binding site [nucleotide binding] 1090974001109 Uncharacterized conserved protein [Function unknown]; Region: COG4717 1090974001110 Uncharacterized conserved protein [Function unknown]; Region: COG4717 1090974001111 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 1090974001112 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 1090974001113 generic binding surface II; other site 1090974001114 generic binding surface I; other site 1090974001115 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 1090974001116 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1090974001117 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 1090974001118 PPIC-type PPIASE domain; Region: Rotamase; cl08278 1090974001119 YtxH-like protein; Region: YtxH; cl02079 1090974001120 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 1090974001121 HIT family signature motif; other site 1090974001122 catalytic residue [active] 1090974001123 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1090974001124 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 1090974001125 Walker A/P-loop; other site 1090974001126 ATP binding site [chemical binding]; other site 1090974001127 Q-loop/lid; other site 1090974001128 ABC transporter signature motif; other site 1090974001129 Walker B; other site 1090974001130 D-loop; other site 1090974001131 H-loop/switch region; other site 1090974001132 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 1090974001133 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1090974001134 Phosphotransferase enzyme family; Region: APH; pfam01636 1090974001135 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 1090974001136 S-adenosylmethionine binding site [chemical binding]; other site 1090974001137 oxidoreductase; Provisional; Region: PRK07985 1090974001138 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974001139 NAD(P) binding site [chemical binding]; other site 1090974001140 active site 1090974001141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 1090974001142 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; cl12126 1090974001143 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1090974001144 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 1090974001145 active site 1090974001146 Zn binding site [ion binding]; other site 1090974001147 GI:332687180; pectate lyase 1090974001148 VanZ like family; Region: VanZ; cl01971 1090974001149 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1090974001150 Transcriptional regulator; Region: Transcrip_reg; cl00361 1090974001151 GI:332687176; oligopeptide ABC transporter periplasmic oligopeptide-binding protein OppA 1090974001152 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 1090974001153 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1090974001154 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1090974001155 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1090974001156 MatE; Region: MatE; cl10513 1090974001157 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1090974001158 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1090974001159 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 1090974001160 RNA binding surface [nucleotide binding]; other site 1090974001161 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 1090974001162 active site 1090974001163 uracil binding [chemical binding]; other site 1090974001164 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 1090974001165 putative substrate binding site [chemical binding]; other site 1090974001166 putative ATP binding site [chemical binding]; other site 1090974001167 dipeptidase PepV; Reviewed; Region: PRK07318 1090974001168 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1090974001169 active site 1090974001170 metal binding site [ion binding]; metal-binding site 1090974001171 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 1090974001172 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1090974001173 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1090974001174 Cupin domain; Region: Cupin_2; cl09118 1090974001175 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1090974001176 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1090974001177 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1090974001178 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1090974001179 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 1090974001180 Metal-binding active site; metal-binding site 1090974001181 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1090974001182 Helix-turn-helix domains; Region: HTH; cl00088 1090974001183 Bacterial transcriptional regulator; Region: IclR; pfam01614 1090974001184 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 1090974001185 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1090974001186 active site 1090974001187 intersubunit interface [polypeptide binding]; other site 1090974001188 catalytic residue [active] 1090974001189 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 1090974001190 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1090974001191 substrate binding site [chemical binding]; other site 1090974001192 ATP binding site [chemical binding]; other site 1090974001193 KduI/IolB family; Region: KduI; cl01508 1090974001194 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 1090974001195 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 1090974001196 NADP binding site [chemical binding]; other site 1090974001197 homodimer interface [polypeptide binding]; other site 1090974001198 active site 1090974001199 Cupin domain; Region: Cupin_2; cl09118 1090974001200 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1090974001201 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1090974001202 L-rhamnulose kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RhuK; cd07771 1090974001203 N- and C-terminal domain interface [polypeptide binding]; other site 1090974001204 rhamnulokinase; Region: rhamnulo_kin; TIGR02627 1090974001205 active site 1090974001206 catalytic site [active] 1090974001207 metal binding site [ion binding]; metal-binding site 1090974001208 ATP binding site [chemical binding]; other site 1090974001209 carbohydrate binding site [chemical binding]; other site 1090974001210 L-rhamnose isomerase; Provisional; Region: PRK01076 1090974001211 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 1090974001212 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 1090974001213 intersubunit interface [polypeptide binding]; other site 1090974001214 active site 1090974001215 Zn2+ binding site [ion binding]; other site 1090974001216 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 1090974001217 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1090974001218 putative substrate translocation pore; other site 1090974001219 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 1090974001220 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1090974001221 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974001222 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 1090974001223 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 1090974001224 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974001225 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1090974001226 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 1090974001227 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1090974001228 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 1090974001229 CRISPR-associated protein Cas8c/Csd1, subtype I-C/DVULG; Region: cas_Csd1; TIGR01863 1090974001230 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 1090974001231 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1090974001232 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 1090974001233 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 1090974001234 NMT1-like family; Region: NMT1_2; cl15260 1090974001235 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 1090974001236 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 1090974001237 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 1090974001238 Walker A/P-loop; other site 1090974001239 ATP binding site [chemical binding]; other site 1090974001240 Q-loop/lid; other site 1090974001241 ABC transporter signature motif; other site 1090974001242 Walker B; other site 1090974001243 D-loop; other site 1090974001244 H-loop/switch region; other site 1090974001245 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1090974001246 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 1090974001247 dimer interface [polypeptide binding]; other site 1090974001248 conserved gate region; other site 1090974001249 putative PBP binding loops; other site 1090974001250 ABC-ATPase subunit interface; other site 1090974001251 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 1090974001252 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 1090974001253 dimer interface [polypeptide binding]; other site 1090974001254 conserved gate region; other site 1090974001255 putative PBP binding loops; other site 1090974001256 ABC-ATPase subunit interface; other site 1090974001257 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1090974001258 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1090974001259 active site 1090974001260 metal binding site [ion binding]; metal-binding site 1090974001261 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 1090974001262 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1090974001263 active site 1090974001264 metal binding site [ion binding]; metal-binding site 1090974001265 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1090974001266 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1090974001267 S-adenosylmethionine synthetase 1090974001268 GI:332687129; hypothetical protein 1090974001269 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; cl16911 1090974001270 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1090974001271 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; cl16911 1090974001272 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1090974001273 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 1090974001274 active site 1090974001275 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1090974001276 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1090974001277 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1090974001278 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1090974001279 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1090974001280 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1090974001281 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1090974001282 HIGH motif; other site 1090974001283 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1090974001284 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1090974001285 active site 1090974001286 KMSKS motif; other site 1090974001287 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1090974001288 tRNA binding surface [nucleotide binding]; other site 1090974001289 GI:332687122; amino acid ABC transporter amino acid-binding protein 1090974001290 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1090974001291 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974001292 Walker A/P-loop; other site 1090974001293 ATP binding site [chemical binding]; other site 1090974001294 Q-loop/lid; other site 1090974001295 ABC transporter signature motif; other site 1090974001296 Walker B; other site 1090974001297 D-loop; other site 1090974001298 H-loop/switch region; other site 1090974001299 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 1090974001300 dimer interface [polypeptide binding]; other site 1090974001301 conserved gate region; other site 1090974001302 putative PBP binding loops; other site 1090974001303 ABC-ATPase subunit interface; other site 1090974001304 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 1090974001305 Asp23 family; Region: Asp23; cl00574 1090974001306 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 1090974001307 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1090974001308 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1090974001309 5S rRNA interface [nucleotide binding]; other site 1090974001310 CTC domain interface [polypeptide binding]; other site 1090974001311 L16 interface [polypeptide binding]; other site 1090974001312 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 1090974001313 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974001314 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1090974001315 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1090974001316 Coenzyme A binding pocket [chemical binding]; other site 1090974001317 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1090974001318 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 1090974001319 Sugar specificity; other site 1090974001320 Pyrimidine base specificity; other site 1090974001321 ATP-binding site [chemical binding]; other site 1090974001322 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 1090974001323 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 1090974001324 ATP binding site [chemical binding]; other site 1090974001325 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 1090974001326 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1090974001327 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1090974001328 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1090974001329 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1090974001330 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1090974001331 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1090974001332 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1090974001333 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 1090974001334 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1090974001335 ATP binding site [chemical binding]; other site 1090974001336 Mg++ binding site [ion binding]; other site 1090974001337 motif III; other site 1090974001338 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 1090974001339 nucleotide binding region [chemical binding]; other site 1090974001340 ATP-binding site [chemical binding]; other site 1090974001341 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 1090974001342 GI:332687104; alanine racemase 1090974001343 PemK-like protein; Region: PemK; cl00995 1090974001344 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 1090974001345 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 1090974001346 substrate binding pocket [chemical binding]; other site 1090974001347 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 1090974001348 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 1090974001349 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 1090974001350 potential frameshift: common BLAST hit: gi|15673652|ref|NP_267826.1| phage infection protein 1090974001351 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1090974001352 potential frameshift: common BLAST hit: gi|332687097|ref|YP_004456871.1| phage infection protein 1090974001353 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 1090974001354 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 1090974001355 Predicted membrane protein [Function unknown]; Region: COG1511 1090974001356 Cation efflux family; Region: Cation_efflux; cl00316 1090974001357 Amino acid permease; Region: AA_permease_2; pfam13520 1090974001358 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1090974001359 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 1090974001360 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1090974001361 salt bridge; other site 1090974001362 non-specific DNA binding site [nucleotide binding]; other site 1090974001363 sequence-specific DNA binding site [nucleotide binding]; other site 1090974001364 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1090974001365 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1090974001366 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1090974001367 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1090974001368 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974001369 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1090974001370 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1090974001371 Domain of unknown function DUF21; Region: DUF21; pfam01595 1090974001372 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 1090974001373 Transporter associated domain; Region: CorC_HlyC; cl08393 1090974001374 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 1090974001375 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1090974001376 non-specific DNA binding site [nucleotide binding]; other site 1090974001377 salt bridge; other site 1090974001378 sequence-specific DNA binding site [nucleotide binding]; other site 1090974001379 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1090974001380 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1090974001381 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974001382 Helix-turn-helix domains; Region: HTH; cl00088 1090974001383 DNA polymerase I; Provisional; Region: PRK05755 1090974001384 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1090974001385 active site 1090974001386 metal binding site 1 [ion binding]; metal-binding site 1090974001387 putative 5' ssDNA interaction site; other site 1090974001388 metal binding site 3; metal-binding site 1090974001389 metal binding site 2 [ion binding]; metal-binding site 1090974001390 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1090974001391 putative DNA binding site [nucleotide binding]; other site 1090974001392 putative metal binding site [ion binding]; other site 1090974001393 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 1090974001394 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1090974001395 active site 1090974001396 DNA binding site [nucleotide binding] 1090974001397 catalytic site [active] 1090974001398 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1090974001399 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1090974001400 DNA binding site [nucleotide binding] 1090974001401 catalytic residue [active] 1090974001402 H2TH interface [polypeptide binding]; other site 1090974001403 putative catalytic residues [active] 1090974001404 turnover-facilitating residue; other site 1090974001405 intercalation triad [nucleotide binding]; other site 1090974001406 8OG recognition residue [nucleotide binding]; other site 1090974001407 putative reading head residues; other site 1090974001408 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1090974001409 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1090974001410 GI:332687080; dephospho-CoA kinase 1090974001411 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1090974001412 ATP cone domain; Region: ATP-cone; pfam03477 1090974001413 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1090974001414 primosomal protein DnaI; Reviewed; Region: PRK08939 1090974001415 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1090974001416 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 1090974001417 Walker A motif; other site 1090974001418 ATP binding site [chemical binding]; other site 1090974001419 Walker B motif; other site 1090974001420 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 1090974001421 N-glycosyltransferase; Provisional; Region: PRK11204 1090974001422 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1090974001423 DXD motif; other site 1090974001424 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 1090974001425 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 1090974001426 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1090974001427 catalytic core [active] 1090974001428 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1090974001429 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974001430 Family description; Region: UvrD_C_2; cl15862 1090974001431 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3972 1090974001432 ECF transporter substrate-specific protein QueT; GI:332687067 1090974001433 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 1090974001434 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 1090974001435 dimer interface [polypeptide binding]; other site 1090974001436 PYR/PP interface [polypeptide binding]; other site 1090974001437 TPP binding site [chemical binding]; other site 1090974001438 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 1090974001439 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 1090974001440 TPP-binding site [chemical binding]; other site 1090974001441 dimer interface [polypeptide binding]; other site 1090974001442 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1090974001443 Predicted membrane protein [Function unknown]; Region: COG4684 1090974001444 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 1090974001445 Flavoprotein; Region: Flavoprotein; cl08021 1090974001446 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 1090974001447 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 1090974001448 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 1090974001449 NADP binding site [chemical binding]; other site 1090974001450 dimer interface [polypeptide binding]; other site 1090974001451 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1090974001452 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1090974001453 non-specific DNA binding site [nucleotide binding]; other site 1090974001454 salt bridge; other site 1090974001455 sequence-specific DNA binding site [nucleotide binding]; other site 1090974001456 Cupin domain; Region: Cupin_2; cl09118 1090974001457 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1090974001458 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974001459 Walker A/P-loop; other site 1090974001460 ATP binding site [chemical binding]; other site 1090974001461 Q-loop/lid; other site 1090974001462 ABC transporter signature motif; other site 1090974001463 Walker B; other site 1090974001464 D-loop; other site 1090974001465 H-loop/switch region; other site 1090974001466 TOBE domain; Region: TOBE_2; cl01440 1090974001467 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 1090974001468 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 1090974001469 dimer interface [polypeptide binding]; other site 1090974001470 conserved gate region; other site 1090974001471 putative PBP binding loops; other site 1090974001472 ABC-ATPase subunit interface; other site 1090974001473 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 1090974001474 putative PBP binding loops; other site 1090974001475 dimer interface [polypeptide binding]; other site 1090974001476 ABC-ATPase subunit interface; other site 1090974001477 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1090974001478 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 1090974001479 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1090974001480 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 1090974001481 dimer interface [polypeptide binding]; other site 1090974001482 conserved gate region; other site 1090974001483 putative PBP binding loops; other site 1090974001484 ABC-ATPase subunit interface; other site 1090974001485 NMT1-like family; Region: NMT1_2; cl15260 1090974001486 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1090974001487 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1090974001488 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 1090974001489 Walker A/P-loop; other site 1090974001490 ATP binding site [chemical binding]; other site 1090974001491 Q-loop/lid; other site 1090974001492 ABC transporter signature motif; other site 1090974001493 Walker B; other site 1090974001494 D-loop; other site 1090974001495 H-loop/switch region; other site 1090974001496 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1090974001497 Predicted transcriptional regulators [Transcription]; Region: COG1725 1090974001498 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1090974001499 DNA-binding site [nucleotide binding]; DNA binding site 1090974001500 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 1090974001501 ABC transporter ATP-binding protein Uup; GI:332687050 1090974001502 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1090974001503 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1090974001504 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974001505 GI:332687048; abortive infection protein 1090974001506 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 1090974001507 oligomerisation interface [polypeptide binding]; other site 1090974001508 mobile loop; other site 1090974001509 roof hairpin; other site 1090974001510 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1090974001511 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 1090974001512 ring oligomerisation interface [polypeptide binding]; other site 1090974001513 ATP/Mg binding site [chemical binding]; other site 1090974001514 stacking interactions; other site 1090974001515 hinge regions; other site 1090974001516 GtrA-like protein; Region: GtrA; cl00971 1090974001517 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1090974001518 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. 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_A; cd01570 1090974001519 active site 1090974001520 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1090974001521 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 1090974001522 homodimer interface [polypeptide binding]; other site 1090974001523 NAD binding pocket [chemical binding]; other site 1090974001524 ATP binding pocket [chemical binding]; other site 1090974001525 Mg binding site [ion binding]; other site 1090974001526 active-site loop [active] 1090974001527 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1090974001528 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1090974001529 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974001530 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 1090974001531 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1090974001532 Preprotein translocase SecG subunit; Region: SecG; cl09123 1090974001533 Esterase/lipase [General function prediction only]; Region: COG1647 1090974001534 ribonuclease R; Region: RNase_R; TIGR02063 1090974001535 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 1090974001536 RNB domain; Region: RNB; pfam00773 1090974001537 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 1090974001538 RNA binding site [nucleotide binding]; other site 1090974001539 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 1090974001540 SmpB-tmRNA interface; other site 1090974001541 ATP synthase A chain; Region: ATP-synt_A; cl00413 1090974001542 ATP synthase subunit C; Region: ATP-synt_C; cl00466 1090974001543 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1090974001544 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 1090974001545 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 1090974001546 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1090974001547 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1090974001548 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 1090974001549 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 1090974001550 beta subunit interaction interface [polypeptide binding]; other site 1090974001551 Walker A motif; other site 1090974001552 ATP binding site [chemical binding]; other site 1090974001553 Walker B motif; other site 1090974001554 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1090974001555 ATP synthase; Region: ATP-synt; cl00365 1090974001556 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 1090974001557 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1090974001558 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 1090974001559 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 1090974001560 alpha subunit interaction interface [polypeptide binding]; other site 1090974001561 Walker A motif; other site 1090974001562 ATP binding site [chemical binding]; other site 1090974001563 Walker B motif; other site 1090974001564 inhibitor binding site; inhibition site 1090974001565 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1090974001566 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1090974001567 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 1090974001568 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 1090974001569 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 1090974001570 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1090974001571 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 1090974001572 hinge; other site 1090974001573 active site 1090974001574 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 1090974001575 PTS system glucitol/sorbitol-specific IIA component; Region: PTSIIA_gutA; cl01516 1090974001576 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1090974001577 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1090974001578 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 1090974001579 active site turn [active] 1090974001580 phosphorylation site [posttranslational modification] 1090974001581 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1090974001582 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 1090974001583 HPr interaction site; other site 1090974001584 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1090974001585 active site 1090974001586 phosphorylation site [posttranslational modification] 1090974001587 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 1090974001588 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 1090974001589 catalytic site [active] 1090974001590 G-X2-G-X-G-K; other site 1090974001591 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974001592 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1090974001593 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1090974001594 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974001595 Walker A/P-loop; other site 1090974001596 ATP binding site [chemical binding]; other site 1090974001597 Q-loop/lid; other site 1090974001598 ABC transporter signature motif; other site 1090974001599 Walker B; other site 1090974001600 D-loop; other site 1090974001601 H-loop/switch region; other site 1090974001602 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1090974001603 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1090974001604 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 1090974001605 Walker A/P-loop; other site 1090974001606 ATP binding site [chemical binding]; other site 1090974001607 Q-loop/lid; other site 1090974001608 ABC transporter signature motif; other site 1090974001609 Walker B; other site 1090974001610 D-loop; other site 1090974001611 H-loop/switch region; other site 1090974001612 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 1090974001613 active site 1090974001614 metal binding site [ion binding]; metal-binding site 1090974001615 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1090974001616 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1090974001617 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1090974001618 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 1090974001619 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1090974001620 catalytic triad [active] 1090974001621 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1090974001622 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1090974001623 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1090974001624 thymidine kinase; Provisional; Region: PRK04296 1090974001625 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1090974001626 RF-1 domain; Region: RF-1; cl02875 1090974001627 RF-1 domain; Region: RF-1; cl02875 1090974001628 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1090974001629 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 1090974001630 S-adenosylmethionine binding site [chemical binding]; other site 1090974001631 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1090974001632 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1090974001633 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1090974001634 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 1090974001635 dimer interface [polypeptide binding]; other site 1090974001636 active site 1090974001637 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1090974001638 folate binding site [chemical binding]; other site 1090974001639 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1090974001640 active site 1090974001641 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 1090974001642 ArsC family; Region: ArsC; pfam03960 1090974001643 putative ArsC-like catalytic residues; other site 1090974001644 putative TRX-like catalytic residues [active] 1090974001645 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 1090974001646 lipoyl attachment site [posttranslational modification]; other site 1090974001647 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1090974001648 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 1090974001649 Walker A/P-loop; other site 1090974001650 ATP binding site [chemical binding]; other site 1090974001651 Q-loop/lid; other site 1090974001652 ABC transporter signature motif; other site 1090974001653 Walker B; other site 1090974001654 D-loop; other site 1090974001655 H-loop/switch region; other site 1090974001656 NIL domain; Region: NIL; cl09633 1090974001657 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 1090974001658 dimer interface [polypeptide binding]; other site 1090974001659 conserved gate region; other site 1090974001660 ABC-ATPase subunit interface; other site 1090974001661 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 1090974001662 NMT1-like family; Region: NMT1_2; cl15260 1090974001663 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1090974001664 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 1090974001665 Walker A/P-loop; other site 1090974001666 ATP binding site [chemical binding]; other site 1090974001667 Q-loop/lid; other site 1090974001668 ABC transporter signature motif; other site 1090974001669 Walker B; other site 1090974001670 D-loop; other site 1090974001671 H-loop/switch region; other site 1090974001672 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1090974001673 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 1090974001674 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1090974001675 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 1090974001676 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1090974001677 catalytic residue [active] 1090974001678 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1090974001679 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1090974001680 trimerization site [polypeptide binding]; other site 1090974001681 active site 1090974001682 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 1090974001683 FeS assembly protein SufB; Region: sufB; TIGR01980 1090974001684 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 1090974001685 Man1-Src1p-C-terminal domain; Region: MSC; pfam09402 1090974001686 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 1090974001687 nudix motif; other site 1090974001688 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1090974001689 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 1090974001690 motif II; other site 1090974001691 Predicted acetyltransferase [General function prediction only]; Region: COG3981 1090974001692 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1090974001693 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 1090974001694 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1090974001695 active site 1090974001696 motif I; other site 1090974001697 motif II; other site 1090974001698 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974001699 motif II; other site 1090974001700 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974001701 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 1090974001702 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1090974001703 siderophore binding site; other site 1090974001704 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1090974001705 dimer interface [polypeptide binding]; other site 1090974001706 ABC-ATPase subunit interface; other site 1090974001707 putative PBP binding regions; other site 1090974001708 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1090974001709 ABC-ATPase subunit interface; other site 1090974001710 dimer interface [polypeptide binding]; other site 1090974001711 putative PBP binding regions; other site 1090974001712 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 1090974001713 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1090974001714 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1090974001715 Walker A/P-loop; other site 1090974001716 ATP binding site [chemical binding]; other site 1090974001717 Q-loop/lid; other site 1090974001718 ABC transporter signature motif; other site 1090974001719 Walker B; other site 1090974001720 D-loop; other site 1090974001721 H-loop/switch region; other site 1090974001722 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 1090974001723 homotrimer interaction site [polypeptide binding]; other site 1090974001724 putative active site [active] 1090974001725 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1090974001726 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1090974001727 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1090974001728 non-specific DNA binding site [nucleotide binding]; other site 1090974001729 salt bridge; other site 1090974001730 sequence-specific DNA binding site [nucleotide binding]; other site 1090974001731 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1090974001732 Catalytic site [active] 1090974001733 BetR domain; Region: BetR; pfam08667 1090974001734 Helix-turn-helix domains; Region: HTH; cl00088 1090974001735 DNA-binding interface [nucleotide binding]; DNA binding site 1090974001736 Protein of unknown function (DUF1403); Region: DUF1403; pfam07183 1090974001737 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 1090974001738 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 1090974001739 Right handed beta helix region; Region: Beta_helix; pfam13229 1090974001740 Phage major tail protein 2; Region: Phage_tail_2; cl11463 1090974001741 Phage protein; Region: DUF3647; cl10335 1090974001742 Phage-related protein [Function unknown]; Region: COG5412 1090974001743 Phage-related protein [Function unknown]; Region: COG4722; cl15832 1090974001744 Phage tail protein; Region: Sipho_tail; pfam05709 1090974001745 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 1090974001746 Phage-related protein [Function unknown]; Region: PblB; COG4926 1090974001747 Protein of unknown function (DUF2762); Region: DUF2762; pfam10960 1090974001748 NlpC/P60 family; Region: NLPC_P60; cl11438 1090974001749 NlpC/P60 family; Region: NLPC_P60; cl11438 1090974001750 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1090974001751 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1090974001752 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1090974001753 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 1090974001754 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 1090974001755 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1090974001756 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1090974001757 mannonate dehydratase; Provisional; Region: PRK03906 1090974001758 mannonate dehydratase; Region: uxuA; TIGR00695 1090974001759 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1090974001760 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1090974001761 putative substrate translocation pore; other site 1090974001762 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1090974001763 Sterol carrier protein domain; Region: SCP2_2; pfam13530 1090974001764 GTP-binding protein LepA; Provisional; Region: PRK05433 1090974001765 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1090974001766 G1 box; other site 1090974001767 putative GEF interaction site [polypeptide binding]; other site 1090974001768 GTP/Mg2+ binding site [chemical binding]; other site 1090974001769 Switch I region; other site 1090974001770 G2 box; other site 1090974001771 G3 box; other site 1090974001772 Switch II region; other site 1090974001773 G4 box; other site 1090974001774 G5 box; other site 1090974001775 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 1090974001776 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 1090974001777 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1090974001778 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1090974001779 GI:332686922; manganese ABC transporter ATP-binding protein SitB 1090974001780 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1090974001781 ABC-ATPase subunit interface; other site 1090974001782 dimer interface [polypeptide binding]; other site 1090974001783 putative PBP binding regions; other site 1090974001784 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 1090974001785 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1090974001786 metal binding site [ion binding]; metal-binding site 1090974001787 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974001788 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1090974001789 Walker A motif; other site 1090974001790 ATP binding site [chemical binding]; other site 1090974001791 Walker B motif; other site 1090974001792 GI:332686917; late competence protein ComGB, access of DNA to ComEA 1090974001793 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 1090974001794 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 1090974001795 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1090974001796 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; cl16911 1090974001797 acetate kinase; Region: ackA; TIGR00016 1090974001798 Acetokinase family; Region: Acetate_kinase; cl01029 1090974001799 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 1090974001800 Ligand Binding Site [chemical binding]; other site 1090974001801 recombination factor protein RarA; Reviewed; Region: PRK13342 1090974001802 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974001803 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 1090974001804 Walker A motif; other site 1090974001805 ATP binding site [chemical binding]; other site 1090974001806 Walker B motif; other site 1090974001807 arginine finger; other site 1090974001808 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1090974001809 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 1090974001810 active site 1090974001811 DNA binding site [nucleotide binding] 1090974001812 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 1090974001813 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1090974001814 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 1090974001815 S-adenosylmethionine binding site [chemical binding]; other site 1090974001816 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 1090974001817 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 1090974001818 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1090974001819 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1090974001820 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1090974001821 synthetase active site [active] 1090974001822 NTP binding site [chemical binding]; other site 1090974001823 metal binding site [ion binding]; metal-binding site 1090974001824 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 1090974001825 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1090974001826 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 1090974001827 putative active site [active] 1090974001828 dimerization interface [polypeptide binding]; other site 1090974001829 putative tRNAtyr binding site [nucleotide binding]; other site 1090974001830 potential frameshift: common BLAST hit: gi|332686840|ref|YP_004456614.1| aldo/keto reductase 1090974001831 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1090974001832 active site 1090974001833 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cl00470 1090974001834 catalytic tetrad [active] 1090974001835 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1090974001836 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 1090974001837 Walker A/P-loop; other site 1090974001838 ATP binding site [chemical binding]; other site 1090974001839 Q-loop/lid; other site 1090974001840 ABC transporter signature motif; other site 1090974001841 Walker B; other site 1090974001842 D-loop; other site 1090974001843 H-loop/switch region; other site 1090974001844 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1090974001845 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 1090974001846 FtsX-like permease family; Region: FtsX; cl15850 1090974001847 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1090974001848 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 1090974001849 dimer interface [polypeptide binding]; other site 1090974001850 motif 1; other site 1090974001851 active site 1090974001852 motif 2; other site 1090974001853 motif 3; other site 1090974001854 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 1090974001855 anticodon binding site; other site 1090974001856 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1090974001857 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 1090974001858 dimer interface [polypeptide binding]; other site 1090974001859 anticodon binding site; other site 1090974001860 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 1090974001861 homodimer interface [polypeptide binding]; other site 1090974001862 motif 1; other site 1090974001863 active site 1090974001864 motif 2; other site 1090974001865 GAD domain; Region: GAD; pfam02938 1090974001866 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 1090974001867 motif 3; other site 1090974001868 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 1090974001869 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1090974001870 ligand binding site; other site 1090974001871 oligomer interface; other site 1090974001872 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1090974001873 dimer interface [polypeptide binding]; other site 1090974001874 N-terminal domain interface [polypeptide binding]; other site 1090974001875 sulfate 1 binding site; other site 1090974001876 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 1090974001877 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1090974001878 oligomer interface; other site 1090974001879 ligand binding site; other site 1090974001880 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1090974001881 dimer interface [polypeptide binding]; other site 1090974001882 N-terminal domain interface [polypeptide binding]; other site 1090974001883 sulfate 1 binding site; other site 1090974001884 glycogen synthase; Provisional; Region: glgA; PRK00654 1090974001885 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1090974001886 ADP-binding pocket [chemical binding]; other site 1090974001887 homodimer interface [polypeptide binding]; other site 1090974001888 Predicted membrane protein [Function unknown]; Region: COG4129 1090974001889 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 1090974001890 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974001891 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 1090974001892 GI:332686831; hypothetical protein 1090974001893 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1090974001894 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1090974001895 active site 1090974001896 xanthine permease; Region: pbuX; TIGR03173 1090974001897 AIR carboxylase; Region: AIRC; cl00310 1090974001898 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1090974001899 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1090974001900 adenylosuccinate lyase; Provisional; Region: PRK07492 1090974001901 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1090974001902 tetramer interface [polypeptide binding]; other site 1090974001903 active site 1090974001904 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1090974001905 ATP binding site [chemical binding]; other site 1090974001906 active site 1090974001907 substrate binding site [chemical binding]; other site 1090974001908 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 1090974001909 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1090974001910 putative active site [active] 1090974001911 catalytic triad [active] 1090974001912 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1090974001913 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 1090974001914 dimerization interface [polypeptide binding]; other site 1090974001915 ATP binding site [chemical binding]; other site 1090974001916 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 1090974001917 dimerization interface [polypeptide binding]; other site 1090974001918 ATP binding site [chemical binding]; other site 1090974001919 amidophosphoribosyltransferase; Provisional; Region: PRK07272 1090974001920 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 1090974001921 active site 1090974001922 tetramer interface [polypeptide binding]; other site 1090974001923 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1090974001924 active site 1090974001925 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1090974001926 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 1090974001927 dimerization interface [polypeptide binding]; other site 1090974001928 putative ATP binding site [chemical binding]; other site 1090974001929 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1090974001930 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1090974001931 active site 1090974001932 substrate binding site [chemical binding]; other site 1090974001933 cosubstrate binding site; other site 1090974001934 catalytic site [active] 1090974001935 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 1090974001936 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1090974001937 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1090974001938 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1090974001939 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1090974001940 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1090974001941 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1090974001942 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1090974001943 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1090974001944 putative substrate translocation pore; other site 1090974001945 drug efflux system protein MdtG; Provisional; Region: PRK09874 1090974001946 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 1090974001947 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 1090974001948 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1090974001949 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 1090974001950 generic binding surface I; other site 1090974001951 generic binding surface II; other site 1090974001952 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 1090974001953 active site 1090974001954 ADP/pyrophosphate binding site [chemical binding]; other site 1090974001955 dimerization interface [polypeptide binding]; other site 1090974001956 allosteric effector site; other site 1090974001957 fructose-1,6-bisphosphate binding site; other site 1090974001958 GI:332686805; pyruvate kinase 1090974001959 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1090974001960 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 1090974001961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974001962 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 1090974001963 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1090974001964 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1090974001965 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1090974001966 active site 1090974001967 phosphorylation site [posttranslational modification] 1090974001968 intermolecular recognition site; other site 1090974001969 dimerization interface [polypeptide binding]; other site 1090974001970 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1090974001971 DNA binding site [nucleotide binding] 1090974001972 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1090974001973 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1090974001974 dimer interface [polypeptide binding]; other site 1090974001975 phosphorylation site [posttranslational modification] 1090974001976 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 1090974001977 ATP binding site [chemical binding]; other site 1090974001978 Mg2+ binding site [ion binding]; other site 1090974001979 G-X-G motif; other site 1090974001980 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1090974001981 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 1090974001982 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 1090974001983 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1090974001984 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974001985 Walker A/P-loop; other site 1090974001986 ATP binding site [chemical binding]; other site 1090974001987 Q-loop/lid; other site 1090974001988 ABC transporter signature motif; other site 1090974001989 Walker B; other site 1090974001990 D-loop; other site 1090974001991 H-loop/switch region; other site 1090974001992 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1090974001993 non-specific DNA binding site [nucleotide binding]; other site 1090974001994 salt bridge; other site 1090974001995 sequence-specific DNA binding site [nucleotide binding]; other site 1090974001996 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 1090974001997 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1090974001998 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1090974001999 active site 1090974002000 phosphorylation site [posttranslational modification] 1090974002001 intermolecular recognition site; other site 1090974002002 dimerization interface [polypeptide binding]; other site 1090974002003 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1090974002004 DNA binding site [nucleotide binding] 1090974002005 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1090974002006 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1090974002007 dimerization interface [polypeptide binding]; other site 1090974002008 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 1090974002009 putative active site [active] 1090974002010 heme pocket [chemical binding]; other site 1090974002011 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1090974002012 dimer interface [polypeptide binding]; other site 1090974002013 phosphorylation site [posttranslational modification] 1090974002014 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 1090974002015 ATP binding site [chemical binding]; other site 1090974002016 Mg2+ binding site [ion binding]; other site 1090974002017 G-X-G motif; other site 1090974002018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 1090974002019 YycH protein; Region: YycH; pfam07435 1090974002020 YycH protein; Region: YycI; cl02015 1090974002021 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1090974002022 Predicted permeases [General function prediction only]; Region: COG0701 1090974002023 Predicted permease; Region: DUF318; pfam03773 1090974002024 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 1090974002025 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 1090974002026 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1090974002027 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 1090974002028 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 1090974002029 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 1090974002030 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 1090974002031 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1090974002032 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1090974002033 DNA binding site [nucleotide binding] 1090974002034 domain linker motif; other site 1090974002035 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1090974002036 ligand binding site [chemical binding]; other site 1090974002037 dimerization interface [polypeptide binding]; other site 1090974002038 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1090974002039 active site 1090974002040 P-loop; other site 1090974002041 phosphorylation site [posttranslational modification] 1090974002042 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1090974002043 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1090974002044 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 1090974002045 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1090974002046 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1090974002047 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1090974002048 methionine cluster; other site 1090974002049 active site 1090974002050 phosphorylation site [posttranslational modification] 1090974002051 metal binding site [ion binding]; metal-binding site 1090974002052 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1090974002053 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1090974002054 non-specific DNA binding site [nucleotide binding]; other site 1090974002055 salt bridge; other site 1090974002056 sequence-specific DNA binding site [nucleotide binding]; other site 1090974002057 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 1090974002058 binding surface 1090974002059 TPR motif; other site 1090974002060 ribonuclease HIII; Provisional; Region: PRK00996 1090974002061 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1090974002062 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1090974002063 RNA/DNA hybrid binding site [nucleotide binding]; other site 1090974002064 active site 1090974002065 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1090974002066 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 1090974002067 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 1090974002068 Sm1 motif; other site 1090974002069 predicted subunit interaction site [polypeptide binding]; other site 1090974002070 RNA binding pocket [nucleotide binding]; other site 1090974002071 Sm2 motif; other site 1090974002072 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1090974002073 NusA N-terminal domain; Region: NusA_N; pfam08529 1090974002074 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 1090974002075 RNA binding site [nucleotide binding]; other site 1090974002076 homodimer interface [polypeptide binding]; other site 1090974002077 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 1090974002078 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 1090974002079 G-X-X-G motif; other site 1090974002080 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 1090974002081 putative RNA binding cleft [nucleotide binding]; other site 1090974002082 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1090974002083 GI:332686765; translation initiation factor 2 1090974002084 Ribosome-binding factor A; Region: RBFA; cl00542 1090974002085 Tic20-like protein; Region: Tic20; pfam09685 1090974002086 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01550 1090974002087 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1090974002088 RNA binding site [nucleotide binding]; other site 1090974002089 active site 1090974002090 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1090974002091 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1090974002092 active site 1090974002093 Riboflavin kinase; Region: Flavokinase; cl03312 1090974002094 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1090974002095 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1090974002096 FeS/SAM binding site; other site 1090974002097 HemN C-terminal domain; Region: HemN_C; pfam06969 1090974002098 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1090974002099 Helix-turn-helix domains; Region: HTH; cl00088 1090974002100 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 1090974002101 dimer interface [polypeptide binding]; other site 1090974002102 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1090974002103 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1090974002104 chaperone protein DnaJ; Provisional; Region: PRK14276 1090974002105 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 1090974002106 HSP70 interaction site [polypeptide binding]; other site 1090974002107 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1090974002108 substrate binding site [polypeptide binding]; other site 1090974002109 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1090974002110 Zn binding sites [ion binding]; other site 1090974002111 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1090974002112 substrate binding site [polypeptide binding]; other site 1090974002113 dimer interface [polypeptide binding]; other site 1090974002114 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1090974002115 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1090974002116 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 1090974002117 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1090974002118 RNA binding site [nucleotide binding]; other site 1090974002119 hypothetical protein; Provisional; Region: PRK04351 1090974002120 SprT homologues; Region: SprT; cl01182 1090974002121 GI:332686688; LysM domain-containing protein 1090974002122 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 1090974002123 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1090974002124 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1090974002125 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1090974002126 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 1090974002127 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1090974002128 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1090974002129 Coenzyme A binding pocket [chemical binding]; other site 1090974002130 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1090974002131 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1090974002132 UGMP family protein; Validated; Region: PRK09604 1090974002133 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 1090974002134 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1090974002135 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1090974002136 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 1090974002137 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1090974002138 active site 1090974002139 HIGH motif; other site 1090974002140 KMSK motif region; other site 1090974002141 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1090974002142 tRNA binding surface [nucleotide binding]; other site 1090974002143 anticodon binding site; other site 1090974002144 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1090974002145 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 1090974002146 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 1090974002147 active site 1090974002148 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1090974002149 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 1090974002150 G1 box; other site 1090974002151 putative GEF interaction site [polypeptide binding]; other site 1090974002152 GTP/Mg2+ binding site [chemical binding]; other site 1090974002153 Switch I region; other site 1090974002154 G2 box; other site 1090974002155 G3 box; other site 1090974002156 Switch II region; other site 1090974002157 G4 box; other site 1090974002158 G5 box; other site 1090974002159 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 1090974002160 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 1090974002161 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 1090974002162 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 1090974002163 ATP binding site [chemical binding]; other site 1090974002164 putative Mg++ binding site [ion binding]; other site 1090974002165 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 1090974002166 nucleotide binding region [chemical binding]; other site 1090974002167 ATP-binding site [chemical binding]; other site 1090974002168 RQC domain; Region: RQC; cl09632 1090974002169 HRDC domain; Region: HRDC; cl02578 1090974002170 Protein of unknown function (DUF1507); Region: DUF1507; cl11487 1090974002171 Protein of unknown function (DUF964); Region: DUF964; cl01483 1090974002172 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 1090974002173 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 1090974002174 S-adenosylmethionine binding site [chemical binding]; other site 1090974002175 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1090974002176 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1090974002177 active site 1090974002178 (T/H)XGH motif; other site 1090974002179 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1090974002180 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 1090974002181 protein binding site [polypeptide binding]; other site 1090974002182 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 1090974002183 SLBB domain; Region: SLBB; pfam10531 1090974002184 comEA protein; Region: comE; TIGR01259 1090974002185 dCMP deaminase, late competence protein ComEB 1090974002186 Competence protein; Region: Competence; cl00471 1090974002187 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1090974002188 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1090974002189 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1090974002190 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 1090974002191 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1090974002192 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1090974002193 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974002194 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1090974002195 catalytic core [active] 1090974002196 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 1090974002197 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 1090974002198 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1090974002199 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 1090974002200 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 1090974002201 active site 1090974002202 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1090974002203 dimer interface [polypeptide binding]; other site 1090974002204 substrate binding site [chemical binding]; other site 1090974002205 ATP binding site [chemical binding]; other site 1090974002206 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1090974002207 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1090974002208 DNA-binding site [nucleotide binding]; DNA binding site 1090974002209 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 1090974002210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1090974002211 homodimer interface [polypeptide binding]; other site 1090974002212 catalytic residue [active] 1090974002213 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1090974002214 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 1090974002215 active site 1090974002216 substrate binding site [chemical binding]; other site 1090974002217 metal binding site [ion binding]; metal-binding site 1090974002218 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1090974002219 dimerization interface [polypeptide binding]; other site 1090974002220 putative DNA binding site [nucleotide binding]; other site 1090974002221 putative Zn2+ binding site [ion binding]; other site 1090974002222 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 1090974002223 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1090974002224 metal binding site 2 [ion binding]; metal-binding site 1090974002225 putative DNA binding helix; other site 1090974002226 metal binding site 1 [ion binding]; metal-binding site 1090974002227 dimer interface [polypeptide binding]; other site 1090974002228 structural Zn2+ binding site [ion binding]; other site 1090974002229 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 1090974002230 GatB domain; Region: GatB_Yqey; cl11497 1090974002231 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974002232 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 1090974002233 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 1090974002234 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1090974002235 Zn2+ binding site [ion binding]; other site 1090974002236 Mg2+ binding site [ion binding]; other site 1090974002237 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 1090974002238 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 1090974002239 GTPase Era; Reviewed; Region: era; PRK00089 1090974002240 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1090974002241 Switch I region; other site 1090974002242 GTP/Mg2+ binding site [chemical binding]; other site 1090974002243 G2 box; other site 1090974002244 Switch II region; other site 1090974002245 G3 box; other site 1090974002246 G4 box; other site 1090974002247 G5 box; other site 1090974002248 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 1090974002249 Recombination protein O N terminal; Region: RecO_N; cl15812 1090974002250 DNA repair protein RecO; Region: reco; TIGR00613 1090974002251 Recombination protein O C terminal; Region: RecO_C; pfam02565 1090974002252 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1090974002253 dimer interface [polypeptide binding]; other site 1090974002254 motif 1; other site 1090974002255 active site 1090974002256 motif 2; other site 1090974002257 motif 3; other site 1090974002258 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1090974002259 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1090974002260 OxaA-like protein precursor; Provisional; Region: PRK02463 1090974002261 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1090974002262 Acylphosphatase; Region: Acylphosphatase; cl00551 1090974002263 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1090974002264 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 1090974002265 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1090974002266 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 1090974002267 rRNA interaction site [nucleotide binding]; other site 1090974002268 S8 interaction site; other site 1090974002269 putative laminin-1 binding site; other site 1090974002270 elongation factor Ts; Provisional; Region: tsf; PRK09377 1090974002271 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 1090974002272 Elongation factor TS; Region: EF_TS; pfam00889 1090974002273 Elongation factor TS; Region: EF_TS; pfam00889 1090974002274 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 1090974002275 putative nucleotide binding site [chemical binding]; other site 1090974002276 uridine monophosphate binding site [chemical binding]; other site 1090974002277 homohexameric interface [polypeptide binding]; other site 1090974002278 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1090974002279 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 1090974002280 hinge region; other site 1090974002281 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 1090974002282 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1090974002283 catalytic residue [active] 1090974002284 putative FPP diphosphate binding site; other site 1090974002285 putative FPP binding hydrophobic cleft; other site 1090974002286 dimer interface [polypeptide binding]; other site 1090974002287 putative IPP diphosphate binding site; other site 1090974002288 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 1090974002289 RIP metalloprotease RseP; Region: TIGR00054 1090974002290 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1090974002291 active site 1090974002292 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 1090974002293 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 1090974002294 protein binding site [polypeptide binding]; other site 1090974002295 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1090974002296 putative substrate binding region [chemical binding]; other site 1090974002297 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1090974002298 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 1090974002299 dimer interface [polypeptide binding]; other site 1090974002300 motif 1; other site 1090974002301 active site 1090974002302 motif 2; other site 1090974002303 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 1090974002304 putative deacylase active site [active] 1090974002305 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 1090974002306 active site 1090974002307 motif 3; other site 1090974002308 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 1090974002309 anticodon binding site; other site 1090974002310 DNA polymerase III alpha subunit; GI:332686699 1090974002311 GI:332686698; putative transport protein 1090974002312 DinG family ATP-dependent helicase YoaA; GI:332686697 1090974002313 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 1090974002314 lipoxygenase; Region: PLN02264 1090974002315 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1090974002316 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1090974002317 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1090974002318 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1090974002319 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1090974002320 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 1090974002321 hypothetical protein; Provisional; Region: PRK08185 1090974002322 intersubunit interface [polypeptide binding]; other site 1090974002323 active site 1090974002324 zinc binding site [ion binding]; other site 1090974002325 Na+ binding site [ion binding]; other site 1090974002326 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1090974002327 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 1090974002328 hinge; other site 1090974002329 active site 1090974002330 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1090974002331 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 1090974002332 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1090974002333 RNA binding site [nucleotide binding]; other site 1090974002334 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 1090974002335 multimer interface [polypeptide binding]; other site 1090974002336 Walker A motif; other site 1090974002337 ATP binding site [chemical binding]; other site 1090974002338 Walker B motif; other site 1090974002339 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 1090974002340 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 1090974002341 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1090974002342 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 1090974002343 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1090974002344 active site 1090974002345 catalytic residues [active] 1090974002346 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 1090974002347 substrate binding site [chemical binding]; other site 1090974002348 active site 1090974002349 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1090974002350 DNA-binding site [nucleotide binding]; DNA binding site 1090974002351 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1090974002352 Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AraR; cd01541 1090974002353 putative dimerization interface [polypeptide binding]; other site 1090974002354 putative ligand binding site [chemical binding]; other site 1090974002355 L-ribulokinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_L-RBK_like; cd07778 1090974002356 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1090974002357 putative N- and C-terminal domain interface [polypeptide binding]; other site 1090974002358 putative active site [active] 1090974002359 putative MgATP binding site [chemical binding]; other site 1090974002360 catalytic site [active] 1090974002361 metal binding site [ion binding]; metal-binding site 1090974002362 putative carbohydrate binding site [chemical binding]; other site 1090974002363 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 1090974002364 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cd00398 1090974002365 intersubunit interface [polypeptide binding]; other site 1090974002366 active site 1090974002367 Zn2+ binding site [ion binding]; other site 1090974002368 Predicted esterase [General function prediction only]; Region: COG0400 1090974002369 CsbD-like; Region: CsbD; cl15799 1090974002370 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 1090974002371 pyruvate oxidase; Region: pyruv_oxi_spxB; TIGR02720 1090974002372 PYR/PP interface [polypeptide binding]; other site 1090974002373 dimer interface [polypeptide binding]; other site 1090974002374 tetramer interface [polypeptide binding]; other site 1090974002375 TPP binding site [chemical binding]; other site 1090974002376 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 1090974002377 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 1090974002378 TPP-binding site [chemical binding]; other site 1090974002379 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 1090974002380 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1090974002381 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1090974002382 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1090974002383 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 1090974002384 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1090974002385 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1090974002386 DNA binding site [nucleotide binding] 1090974002387 active site 1090974002388 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 1090974002389 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1090974002390 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 1090974002391 active site 1090974002392 motif I; other site 1090974002393 motif II; other site 1090974002394 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 1090974002395 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 1090974002396 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1090974002397 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1090974002398 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1090974002399 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1090974002400 active site 1090974002401 phosphorylation site [posttranslational modification] 1090974002402 intermolecular recognition site; other site 1090974002403 dimerization interface [polypeptide binding]; other site 1090974002404 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1090974002405 DNA binding site [nucleotide binding] 1090974002406 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1090974002407 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1090974002408 dimerization interface [polypeptide binding]; other site 1090974002409 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1090974002410 dimer interface [polypeptide binding]; other site 1090974002411 phosphorylation site [posttranslational modification] 1090974002412 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 1090974002413 ATP binding site [chemical binding]; other site 1090974002414 G-X-G motif; other site 1090974002415 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1090974002416 Sulfatase; Region: Sulfatase; cl10460 1090974002417 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1090974002418 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 1090974002419 putative RNA binding site [nucleotide binding]; other site 1090974002420 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; cl16911 1090974002421 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 1090974002422 putative deacylase active site [active] 1090974002423 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1090974002424 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 1090974002425 Potassium binding sites [ion binding]; other site 1090974002426 Cesium cation binding sites [ion binding]; other site 1090974002427 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1090974002428 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1090974002429 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1090974002430 active site 1090974002431 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1090974002432 active site 1090974002433 GI:332686649; uracil permease 1090974002434 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1090974002435 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1090974002436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974002437 dihydroorotase; Validated; Region: pyrC; PRK09357 1090974002438 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 1090974002439 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 1090974002440 active site 1090974002441 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1090974002442 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 1090974002443 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1090974002444 catalytic site [active] 1090974002445 subunit interface [polypeptide binding]; other site 1090974002446 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1090974002447 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1090974002448 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1090974002449 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1090974002450 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1090974002451 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1090974002452 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1090974002453 IMP binding site; other site 1090974002454 dimer interface [polypeptide binding]; other site 1090974002455 interdomain contacts; other site 1090974002456 partial ornithine binding site; other site 1090974002457 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1090974002458 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 1090974002459 FAD binding pocket [chemical binding]; other site 1090974002460 FAD binding motif [chemical binding]; other site 1090974002461 phosphate binding motif [ion binding]; other site 1090974002462 beta-alpha-beta structure motif; other site 1090974002463 NAD binding pocket [chemical binding]; other site 1090974002464 Iron coordination center [ion binding]; other site 1090974002465 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1090974002466 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine...; Region: DHOD_1B_like; cd04740 1090974002467 heterodimer interface [polypeptide binding]; other site 1090974002468 active site 1090974002469 FMN binding site [chemical binding]; other site 1090974002470 homodimer interface [polypeptide binding]; other site 1090974002471 substrate binding site [chemical binding]; other site 1090974002472 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase contains two...; Region: OMP_decarboxylase_like; cd04725 1090974002473 active site 1090974002474 dimer interface [polypeptide binding]; other site 1090974002475 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1090974002476 active site 1090974002477 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1090974002478 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1090974002479 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 1090974002480 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 1090974002481 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1090974002482 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 1090974002483 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1090974002484 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1090974002485 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974002486 DNA primase, catalytic core; Region: dnaG; TIGR01391 1090974002487 CHC2 zinc finger; Region: zf-CHC2; cl15369 1090974002488 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1090974002489 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 1090974002490 active site 1090974002491 metal binding site [ion binding]; metal-binding site 1090974002492 interdomain interaction site; other site 1090974002493 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1090974002494 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1090974002495 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1090974002496 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1090974002497 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 1090974002498 DNA binding residues [nucleotide binding] 1090974002499 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 1090974002500 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1090974002501 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 1090974002502 ferric uptake regulator; Provisional; Region: fur; PRK09462 1090974002503 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1090974002504 metal binding site 2 [ion binding]; metal-binding site 1090974002505 putative DNA binding helix; other site 1090974002506 metal binding site 1 [ion binding]; metal-binding site 1090974002507 dimer interface [polypeptide binding]; other site 1090974002508 structural Zn2+ binding site [ion binding]; other site 1090974002509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974002510 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1090974002511 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 1090974002512 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1090974002513 GTP1/OBG; Region: GTP1_OBG; pfam01018 1090974002514 Obg GTPase; Region: Obg; cd01898 1090974002515 G1 box; other site 1090974002516 GTP/Mg2+ binding site [chemical binding]; other site 1090974002517 Switch I region; other site 1090974002518 G2 box; other site 1090974002519 G3 box; other site 1090974002520 Switch II region; other site 1090974002521 G4 box; other site 1090974002522 G5 box; other site 1090974002523 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 1090974002524 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1090974002525 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1090974002526 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974002527 NAD(P) binding site [chemical binding]; other site 1090974002528 active site 1090974002529 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1090974002530 DHH family; Region: DHH; pfam01368 1090974002531 DHHA1 domain; Region: DHHA1; pfam02272 1090974002532 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 1090974002533 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1090974002534 active site 1090974002535 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 1090974002536 Glycerol dehydrogenases-like; Region: GlyDH-like1; cd08172 1090974002537 putative active site [active] 1090974002538 metal binding site [ion binding]; metal-binding site 1090974002539 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 1090974002540 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_YpmR_like; cd04506 1090974002541 active site 1090974002542 catalytic triad [active] 1090974002543 oxyanion hole [active] 1090974002544 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 1090974002545 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 1090974002546 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1090974002547 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 1090974002548 protein binding site [polypeptide binding]; other site 1090974002549 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1090974002550 Catalytic dyad [active] 1090974002551 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 1090974002552 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1090974002553 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 1090974002554 Catalytic site [active] 1090974002555 NH_3: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_3; cd02653 1090974002556 active site 1090974002557 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1090974002558 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1090974002559 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1090974002560 GTP/Mg2+ binding site [chemical binding]; other site 1090974002561 G4 box; other site 1090974002562 G5 box; other site 1090974002563 G1 box; other site 1090974002564 Switch I region; other site 1090974002565 G2 box; other site 1090974002566 G3 box; other site 1090974002567 Switch II region; other site 1090974002568 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1090974002569 RNA/DNA hybrid binding site [nucleotide binding]; other site 1090974002570 active site 1090974002571 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1090974002572 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1090974002573 DNA topoisomerase I; Validated; Region: PRK05582 1090974002574 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 1090974002575 active site 1090974002576 interdomain interaction site; other site 1090974002577 putative metal-binding site [ion binding]; other site 1090974002578 nucleotide binding site [chemical binding]; other site 1090974002579 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 1090974002580 domain I; other site 1090974002581 DNA binding groove [nucleotide binding] 1090974002582 phosphate binding site [ion binding]; other site 1090974002583 domain II; other site 1090974002584 domain III; other site 1090974002585 nucleotide binding site [chemical binding]; other site 1090974002586 catalytic site [active] 1090974002587 domain IV; other site 1090974002588 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1090974002589 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1090974002590 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1090974002591 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974002592 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 1090974002593 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 1090974002594 active site 1090974002595 Int/Topo IB signature motif; other site 1090974002596 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1090974002597 active site 1090974002598 HslU subunit interaction site [polypeptide binding]; other site 1090974002599 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1090974002600 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974002601 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 1090974002602 Walker A motif; other site 1090974002603 ATP binding site [chemical binding]; other site 1090974002604 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974002605 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1090974002606 transcriptional repressor CodY; Validated; Region: PRK04158 1090974002607 CodY GAF-like domain; Region: CodY; pfam06018 1090974002608 Helix-turn-helix domains; Region: HTH; cl00088 1090974002609 Aldose 1-epimerase, similar to Lactococcus lactis lacX; Region: Aldose_epim_lacX; cd09024 1090974002610 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 1090974002611 active site 1090974002612 catalytic residues [active] 1090974002613 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 1090974002614 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1090974002615 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 1090974002616 ATP binding site [chemical binding]; other site 1090974002617 Mg2+ binding site [ion binding]; other site 1090974002618 G-X-G motif; other site 1090974002619 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 1090974002620 anchoring element; other site 1090974002621 dimer interface [polypeptide binding]; other site 1090974002622 ATP binding site [chemical binding]; other site 1090974002623 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 1090974002624 active site 1090974002625 putative metal-binding site [ion binding]; other site 1090974002626 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1090974002627 GI:332686600; topoisomerase IV subunit A 1090974002628 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1090974002629 Pyruvate formate lyase 1; Region: PFL1; cd01678 1090974002630 coenzyme A binding site [chemical binding]; other site 1090974002631 active site 1090974002632 catalytic residues [active] 1090974002633 glycine loop; other site 1090974002634 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 1090974002635 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1090974002636 FeS/SAM binding site; other site 1090974002637 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1090974002638 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 1090974002639 DHHA2 domain; Region: DHHA2; pfam02833 1090974002640 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1090974002641 Helix-turn-helix domains; Region: HTH; cl00088 1090974002642 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 1090974002643 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 1090974002644 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1090974002645 Walker A/P-loop; other site 1090974002646 ATP binding site [chemical binding]; other site 1090974002647 Q-loop/lid; other site 1090974002648 ABC transporter signature motif; other site 1090974002649 Walker B; other site 1090974002650 D-loop; other site 1090974002651 H-loop/switch region; other site 1090974002652 Domain of unknown function DUF59; Region: DUF59; cl00941 1090974002653 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1090974002654 CAT RNA binding domain; Region: CAT_RBD; cl03904 1090974002655 PRD domain; Region: PRD; cl15445 1090974002656 PRD domain; Region: PRD; cl15445 1090974002657 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 1090974002658 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1090974002659 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 1090974002660 active site turn [active] 1090974002661 phosphorylation site [posttranslational modification] 1090974002662 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; cl00162 1090974002663 HPr interaction site; other site 1090974002664 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1090974002665 active site 1090974002666 phosphorylation site [posttranslational modification] 1090974002667 Amidinotransferase; Region: Amidinotransf; cl12043 1090974002668 ornithine carbamoyltransferase; Validated; Region: PRK02102 1090974002669 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1090974002670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974002671 carbamate kinase; Reviewed; Region: PRK12686 1090974002672 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 1090974002673 putative substrate binding site [chemical binding]; other site 1090974002674 nucleotide binding site [chemical binding]; other site 1090974002675 nucleotide binding site [chemical binding]; other site 1090974002676 homodimer interface [polypeptide binding]; other site 1090974002677 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 1090974002678 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 1090974002679 potential frameshift: common BLAST hit: gi|332687365|ref|YP_004457138.1| peptidoglycan-binding protein 1090974002680 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1090974002681 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1090974002682 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1090974002683 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1090974002684 Predicted membrane protein [Function unknown]; Region: COG2364 1090974002685 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1090974002686 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1090974002687 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1090974002688 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1090974002689 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1090974002690 metal binding site 2 [ion binding]; metal-binding site 1090974002691 putative DNA binding helix; other site 1090974002692 metal binding site 1 [ion binding]; metal-binding site 1090974002693 dimer interface [polypeptide binding]; other site 1090974002694 structural Zn2+ binding site [ion binding]; other site 1090974002695 GI:332686573; transketolase 1090974002696 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 1090974002697 LexA repressor; Validated; Region: PRK00215 1090974002698 Helix-turn-helix domains; Region: HTH; cl00088 1090974002699 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 1090974002700 Catalytic site [active] 1090974002701 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 1090974002702 folate binding site [chemical binding]; other site 1090974002703 NADP+ binding site [chemical binding]; other site 1090974002704 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 1090974002705 dimerization interface [polypeptide binding]; other site 1090974002706 active site 1090974002707 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1090974002708 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974002709 Walker A/P-loop; other site 1090974002710 ATP binding site [chemical binding]; other site 1090974002711 Q-loop/lid; other site 1090974002712 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 1090974002713 ABC transporter signature motif; other site 1090974002714 Walker B; other site 1090974002715 D-loop; other site 1090974002716 ABC transporter; Region: ABC_tran_2; pfam12848 1090974002717 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 1090974002718 GI:332686567; Na+/H+ antiporter 1090974002719 shikimate kinase; Reviewed; Region: aroK; PRK00131 1090974002720 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 1090974002721 ADP binding site [chemical binding]; other site 1090974002722 magnesium binding site [ion binding]; other site 1090974002723 putative shikimate binding site; other site 1090974002724 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 1090974002725 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 1090974002726 hinge; other site 1090974002727 active site 1090974002728 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1090974002729 Tetramer interface [polypeptide binding]; other site 1090974002730 active site 1090974002731 FMN-binding site [chemical binding]; other site 1090974002732 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1090974002733 active site 1090974002734 dimer interface [polypeptide binding]; other site 1090974002735 metal binding site [ion binding]; metal-binding site 1090974002736 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 1090974002737 NeuB family; Region: NeuB; cl00496 1090974002738 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 1090974002739 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1090974002740 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1090974002741 shikimate binding site; other site 1090974002742 NAD(P) binding site [chemical binding]; other site 1090974002743 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1090974002744 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1090974002745 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1090974002746 active site 1090974002747 NTP binding site [chemical binding]; other site 1090974002748 metal binding triad [ion binding]; metal-binding site 1090974002749 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1090974002750 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1090974002751 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 1090974002752 homodimer interface [polypeptide binding]; other site 1090974002753 metal binding site [ion binding]; metal-binding site 1090974002754 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1090974002755 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1090974002756 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1090974002757 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 1090974002758 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1090974002759 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1090974002760 binding surface 1090974002761 TPR motif; other site 1090974002762 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 1090974002763 TPR motif; other site 1090974002764 binding surface 1090974002765 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 1090974002766 IHF dimer interface [polypeptide binding]; other site 1090974002767 IHF - DNA interface [nucleotide binding]; other site 1090974002768 GTP-binding protein Der; Reviewed; Region: PRK00093 1090974002769 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1090974002770 G1 box; other site 1090974002771 GTP/Mg2+ binding site [chemical binding]; other site 1090974002772 Switch I region; other site 1090974002773 G2 box; other site 1090974002774 Switch II region; other site 1090974002775 G3 box; other site 1090974002776 G4 box; other site 1090974002777 G5 box; other site 1090974002778 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1090974002779 G1 box; other site 1090974002780 GTP/Mg2+ binding site [chemical binding]; other site 1090974002781 Switch I region; other site 1090974002782 G2 box; other site 1090974002783 G3 box; other site 1090974002784 Switch II region; other site 1090974002785 G4 box; other site 1090974002786 G5 box; other site 1090974002787 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1090974002788 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 1090974002789 RNA binding site [nucleotide binding]; other site 1090974002790 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 1090974002791 RNA binding site [nucleotide binding]; other site 1090974002792 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 1090974002793 RNA binding site [nucleotide binding]; other site 1090974002794 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 1090974002795 RNA binding site [nucleotide binding]; other site 1090974002796 cytidylate kinase; Provisional; Region: cmk; PRK00023 1090974002797 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 1090974002798 CMP-binding site; other site 1090974002799 The sites determining sugar specificity; other site 1090974002800 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1090974002801 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 1090974002802 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1090974002803 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1090974002804 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1090974002805 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 1090974002806 RNA binding surface [nucleotide binding]; other site 1090974002807 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 1090974002808 active site 1090974002809 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 1090974002810 GI:332686544; segregation and condensation protein A 1090974002811 tyrosine recombinase XerD 1090974002812 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 1090974002813 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1090974002814 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 1090974002815 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 1090974002816 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 1090974002817 active site 1090974002818 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1090974002819 Domain of unknown function (DUF378); Region: DUF378; cl00943 1090974002820 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1090974002821 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 1090974002822 catalytic triad [active] 1090974002823 conserved cis-peptide bond; other site 1090974002824 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1090974002825 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 1090974002826 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 1090974002827 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1090974002828 signal recognition particle protein; Provisional; Region: PRK10867 1090974002829 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 1090974002830 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 1090974002831 P loop; other site 1090974002832 GTP binding site [chemical binding]; other site 1090974002833 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1090974002834 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 1090974002835 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 1090974002836 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1090974002837 RimM N-terminal domain; Region: RimM; pfam01782 1090974002838 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 1090974002839 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 1090974002840 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 1090974002841 ABC transporter ATP-binding protein; GI:332686526 1090974002842 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 1090974002843 LytTr DNA-binding domain; Region: LytTR; cl04498 1090974002844 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 1090974002845 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1090974002846 GI:332686523; glycerophosphoryl diester phosphodiesterase 1090974002847 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1090974002848 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1090974002849 minor groove reading motif; other site 1090974002850 helix-hairpin-helix signature motif; other site 1090974002851 substrate binding pocket [chemical binding]; other site 1090974002852 active site 1090974002853 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1090974002854 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1090974002855 Helix-turn-helix domains; Region: HTH; cl00088 1090974002856 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 1090974002857 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1090974002858 THUMP domain; Region: THUMP; cl12076 1090974002859 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; cl16911 1090974002860 cell division protein GpsB; Provisional; Region: PRK14127 1090974002861 DivIVA domain; Region: DivI1A_domain; TIGR03544 1090974002862 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 1090974002863 Recombination protein U; Region: RecU; cl01314 1090974002864 Transglycosylase; Region: Transgly; cl07896 1090974002865 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1090974002866 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1090974002867 CTP synthetase; Validated; Region: pyrG; PRK05380 1090974002868 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 1090974002869 Catalytic site [active] 1090974002870 active site 1090974002871 UTP binding site [chemical binding]; other site 1090974002872 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1090974002873 active site 1090974002874 putative oxyanion hole; other site 1090974002875 catalytic triad [active] 1090974002876 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1090974002877 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 1090974002878 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 1090974002879 putative phosphoketolase; Provisional; Region: PRK05261 1090974002880 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 1090974002881 TPP-binding site; other site 1090974002882 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 1090974002883 XFP C-terminal domain; Region: XFP_C; pfam09363 1090974002884 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 1090974002885 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 1090974002886 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1090974002887 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1090974002888 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 1090974002889 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1090974002890 Zn2+ binding site [ion binding]; other site 1090974002891 Mg2+ binding site [ion binding]; other site 1090974002892 sugar phosphate phosphatase; Provisional; Region: PRK10513 1090974002893 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 1090974002894 active site 1090974002895 motif I; other site 1090974002896 motif II; other site 1090974002897 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974002898 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1090974002899 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1090974002900 dimer interface [polypeptide binding]; other site 1090974002901 active site 1090974002902 metal binding site [ion binding]; metal-binding site 1090974002903 glutathione binding site [chemical binding]; other site 1090974002904 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1090974002905 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1090974002906 active site 1090974002907 catalytic tetrad [active] 1090974002908 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1090974002909 FOG: CBS domain [General function prediction only]; Region: COG0517 1090974002910 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_30; cd04643 1090974002911 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1090974002912 active site 1090974002913 metal binding site [ion binding]; metal-binding site 1090974002914 homotetramer interface [polypeptide binding]; other site 1090974002915 ribonuclease PH; Reviewed; Region: rph; PRK00173 1090974002916 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1090974002917 hexamer interface [polypeptide binding]; other site 1090974002918 active site 1090974002919 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 1090974002920 active site 1090974002921 dimerization interface [polypeptide binding]; other site 1090974002922 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1090974002923 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1090974002924 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 1090974002925 putative tRNA-binding site [nucleotide binding]; other site 1090974002926 B3/4 domain; Region: B3_4; cl11458 1090974002927 tRNA synthetase B5 domain; Region: B5; cl08394 1090974002928 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 1090974002929 dimer interface [polypeptide binding]; other site 1090974002930 motif 1; other site 1090974002931 motif 3; other site 1090974002932 motif 2; other site 1090974002933 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 1090974002934 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1090974002935 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1090974002936 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 1090974002937 dimer interface [polypeptide binding]; other site 1090974002938 motif 1; other site 1090974002939 active site 1090974002940 motif 2; other site 1090974002941 motif 3; other site 1090974002942 ATP-dependent nuclease subunit A; GI:332686494 1090974002943 ATP-dependent nuclease subunit B; GI:332686493 1090974002944 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1090974002945 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 1090974002946 Catalytic site [active] 1090974002947 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1090974002948 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 1090974002949 active site 1090974002950 dimer interface [polypeptide binding]; other site 1090974002951 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 1090974002952 dimer interface [polypeptide binding]; other site 1090974002953 active site 1090974002954 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 1090974002955 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 1090974002956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1090974002957 homodimer interface [polypeptide binding]; other site 1090974002958 catalytic residue [active] 1090974002959 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1090974002960 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1090974002961 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974002962 Walker A/P-loop; other site 1090974002963 ATP binding site [chemical binding]; other site 1090974002964 Q-loop/lid; other site 1090974002965 ABC transporter signature motif; other site 1090974002966 Walker B; other site 1090974002967 D-loop; other site 1090974002968 H-loop/switch region; other site 1090974002969 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1090974002970 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 1090974002971 dimer interface [polypeptide binding]; other site 1090974002972 conserved gate region; other site 1090974002973 putative PBP binding loops; other site 1090974002974 ABC-ATPase subunit interface; other site 1090974002975 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 1090974002976 dimer interface [polypeptide binding]; other site 1090974002977 conserved gate region; other site 1090974002978 putative PBP binding loops; other site 1090974002979 ABC-ATPase subunit interface; other site 1090974002980 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1090974002981 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 1090974002982 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1090974002983 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1090974002984 GIY-YIG motif/motif A; other site 1090974002985 active site 1090974002986 catalytic site [active] 1090974002987 putative DNA binding site [nucleotide binding]; other site 1090974002988 metal binding site [ion binding]; metal-binding site 1090974002989 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1090974002990 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 1090974002991 catalytic residues [active] 1090974002992 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1090974002993 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 1090974002994 Walker A/P-loop; other site 1090974002995 ATP binding site [chemical binding]; other site 1090974002996 Q-loop/lid; other site 1090974002997 ABC transporter signature motif; other site 1090974002998 Walker B; other site 1090974002999 D-loop; other site 1090974003000 H-loop/switch region; other site 1090974003001 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 1090974003002 Smr domain; Region: Smr; cl02619 1090974003003 Colicin V production protein; Region: Colicin_V; cl00567 1090974003004 Cell division protein ZapA; Region: ZapA; cl01146 1090974003005 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1090974003006 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 1090974003007 metal-binding site [ion binding] 1090974003008 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1090974003009 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974003010 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 1090974003011 thiamine phosphate binding site [chemical binding]; other site 1090974003012 active site 1090974003013 pyrophosphate binding site [ion binding]; other site 1090974003014 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 1090974003015 dimer interface [polypeptide binding]; other site 1090974003016 substrate binding site [chemical binding]; other site 1090974003017 ATP binding site [chemical binding]; other site 1090974003018 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 1090974003019 substrate binding site [chemical binding]; other site 1090974003020 multimerization interface [polypeptide binding]; other site 1090974003021 ATP binding site [chemical binding]; other site 1090974003022 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 1090974003023 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1090974003024 peptidase T; Region: peptidase-T; TIGR01882 1090974003025 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1090974003026 metal binding site [ion binding]; metal-binding site 1090974003027 dimer interface [polypeptide binding]; other site 1090974003028 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1090974003029 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 1090974003030 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1090974003031 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; cl16911 1090974003032 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1090974003033 FtsX-like permease family; Region: FtsX; cl15850 1090974003034 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1090974003035 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1090974003036 FtsX-like permease family; Region: FtsX; cl15850 1090974003037 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1090974003038 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 1090974003039 Walker A/P-loop; other site 1090974003040 ATP binding site [chemical binding]; other site 1090974003041 Q-loop/lid; other site 1090974003042 ABC transporter signature motif; other site 1090974003043 Walker B; other site 1090974003044 D-loop; other site 1090974003045 H-loop/switch region; other site 1090974003046 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1090974003047 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 1090974003048 active site 1090974003049 dimer interface [polypeptide binding]; other site 1090974003050 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 1090974003051 non-specific DNA binding site [nucleotide binding]; other site 1090974003052 salt bridge; other site 1090974003053 sequence-specific DNA binding site [nucleotide binding]; other site 1090974003054 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1090974003055 alanine aminotransferase; Validated; Region: PRK08363 1090974003056 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 1090974003057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1090974003058 homodimer interface [polypeptide binding]; other site 1090974003059 catalytic residue [active] 1090974003060 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1090974003061 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 1090974003062 Ca binding site [ion binding]; other site 1090974003063 active site 1090974003064 catalytic site [active] 1090974003065 Chitin binding domain; Region: Chitin_bind_3; cl03871 1090974003066 GI:332686456; tRNA-specific adenosine-34 deaminase 1090974003067 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 1090974003068 Helix-turn-helix domains; Region: HTH; cl00088 1090974003069 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 1090974003070 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 1090974003071 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1090974003072 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 1090974003073 motif 1; other site 1090974003074 active site 1090974003075 motif 2; other site 1090974003076 motif 3; other site 1090974003077 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 1090974003078 DHHA1 domain; Region: DHHA1; pfam02272 1090974003079 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 1090974003080 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1090974003081 ATP binding site [chemical binding]; other site 1090974003082 Mg++ binding site [ion binding]; other site 1090974003083 motif III; other site 1090974003084 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 1090974003085 nucleotide binding region [chemical binding]; other site 1090974003086 ATP-binding site [chemical binding]; other site 1090974003087 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1090974003088 DHH family; Region: DHH; pfam01368 1090974003089 DHHA1 domain; Region: DHHA1; pfam02272 1090974003090 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1090974003091 Helix-turn-helix domains; Region: HTH; cl00088 1090974003092 DNA-binding site [nucleotide binding]; DNA binding site 1090974003093 DRTGG domain; Region: DRTGG; cl12147 1090974003094 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 1090974003095 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cd03440 1090974003096 active site 2 [active] 1090974003097 active site 1 [active] 1090974003098 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 1090974003099 DNA-binding site [nucleotide binding]; DNA binding site 1090974003100 RNA-binding motif; other site 1090974003101 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1090974003102 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1090974003103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974003104 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1090974003105 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1090974003106 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1090974003107 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 1090974003108 E3 interaction surface; other site 1090974003109 lipoyl attachment site [posttranslational modification]; other site 1090974003110 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 1090974003111 E3 interaction surface; other site 1090974003112 lipoyl attachment site [posttranslational modification]; other site 1090974003113 e3 binding domain; Region: E3_binding; pfam02817 1090974003114 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 1090974003115 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1090974003116 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 1090974003117 alpha subunit interface [polypeptide binding]; other site 1090974003118 TPP binding site [chemical binding]; other site 1090974003119 heterodimer interface [polypeptide binding]; other site 1090974003120 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1090974003121 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 1090974003122 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 1090974003123 TPP-binding site [chemical binding]; other site 1090974003124 tetramer interface [polypeptide binding]; other site 1090974003125 heterodimer interface [polypeptide binding]; other site 1090974003126 phosphorylation loop region [posttranslational modification] 1090974003127 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1090974003128 magnesium-transporting ATPase; Provisional; Region: PRK15122 1090974003129 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1090974003130 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1090974003131 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974003132 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1090974003133 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1090974003134 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974003135 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1090974003136 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 1090974003137 endonuclease IV; Provisional; Region: PRK01060 1090974003138 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 1090974003139 AP (apurinic/apyrimidinic) site pocket; other site 1090974003140 DNA interaction; other site 1090974003141 Metal-binding active site; metal-binding site 1090974003142 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1090974003143 Transglycosylase; Region: Transgly; cl07896 1090974003144 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1090974003145 catabolite control protein A; Region: ccpA; TIGR01481 1090974003146 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1090974003147 DNA binding site [nucleotide binding] 1090974003148 domain linker motif; other site 1090974003149 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 1090974003150 dimerization interface [polypeptide binding]; other site 1090974003151 effector binding site; other site 1090974003152 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1090974003153 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1090974003154 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 1090974003155 active site 1090974003156 YtxH-like protein; Region: YtxH; cl02079 1090974003157 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 1090974003158 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1090974003159 active site 1090974003160 tetramer interface; other site 1090974003161 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1090974003162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974003163 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1090974003164 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1090974003165 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1090974003166 DRTGG domain; Region: DRTGG; cl12147 1090974003167 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 1090974003168 Hpr binding site; other site 1090974003169 active site 1090974003170 homohexamer subunit interaction site [polypeptide binding]; other site 1090974003171 Membrane protein of unknown function; Region: DUF360; cl00850 1090974003172 PspC domain; Region: PspC; cl00864 1090974003173 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1090974003174 PhoU domain; Region: PhoU; pfam01895 1090974003175 PhoU domain; Region: PhoU; pfam01895 1090974003176 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 1090974003177 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 1090974003178 Walker A/P-loop; other site 1090974003179 ATP binding site [chemical binding]; other site 1090974003180 Q-loop/lid; other site 1090974003181 ABC transporter signature motif; other site 1090974003182 Walker B; other site 1090974003183 D-loop; other site 1090974003184 H-loop/switch region; other site 1090974003185 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 1090974003186 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 1090974003187 Walker A/P-loop; other site 1090974003188 ATP binding site [chemical binding]; other site 1090974003189 Q-loop/lid; other site 1090974003190 ABC transporter signature motif; other site 1090974003191 Walker B; other site 1090974003192 D-loop; other site 1090974003193 H-loop/switch region; other site 1090974003194 GI:332686418; phosphate transport system permease PstA 1090974003195 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1090974003196 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 1090974003197 dimer interface [polypeptide binding]; other site 1090974003198 conserved gate region; other site 1090974003199 putative PBP binding loops; other site 1090974003200 ABC-ATPase subunit interface; other site 1090974003201 periplasmic phosphate-binding protein PstS; phosphate ABC transporter 1090974003202 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1090974003203 cardiolipin synthase; Region: bac_cardiolipin; TIGR04265 1090974003204 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 1090974003205 putative active site [active] 1090974003206 catalytic site [active] 1090974003207 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 1090974003208 putative active site [active] 1090974003209 catalytic site [active] 1090974003210 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1090974003211 FtsX-like permease family; Region: FtsX; cl15850 1090974003212 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1090974003213 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974003214 Walker A/P-loop; other site 1090974003215 ATP binding site [chemical binding]; other site 1090974003216 Q-loop/lid; other site 1090974003217 ABC transporter signature motif; other site 1090974003218 Walker B; other site 1090974003219 D-loop; other site 1090974003220 H-loop/switch region; other site 1090974003221 peptide chain release factor 2; Provisional; Region: PRK06746 1090974003222 RF-1 domain; Region: RF-1; cl02875 1090974003223 RF-1 domain; Region: RF-1; cl02875 1090974003224 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1090974003225 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974003226 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 1090974003227 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974003228 SEC-C motif; Region: SEC-C; pfam02810 1090974003229 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 1090974003230 30S subunit binding site; other site 1090974003231 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1090974003232 active site 1090974003233 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1090974003234 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 1090974003235 ATP binding site [chemical binding]; other site 1090974003236 putative Mg++ binding site [ion binding]; other site 1090974003237 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 1090974003238 nucleotide binding region [chemical binding]; other site 1090974003239 ATP-binding site [chemical binding]; other site 1090974003240 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1090974003241 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1090974003242 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1090974003243 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 1090974003244 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1090974003245 classical (c) SDRs; Region: SDR_c; cd05233 1090974003246 NAD(P) binding site [chemical binding]; other site 1090974003247 active site 1090974003248 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1090974003249 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1090974003250 DNA-binding site [nucleotide binding]; DNA binding site 1090974003251 UTRA domain; Region: UTRA; cl01230 1090974003252 GI:332686403; activator of (R)-2-hydroxyglutaryl-CoA dehydratase 1090974003253 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1090974003254 Helix-turn-helix domains; Region: HTH; cl00088 1090974003255 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1090974003256 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 1090974003257 Quinolinate synthetase A protein; Region: NadA; cl00420 1090974003258 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK08072 1090974003259 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 1090974003260 dimerization interface [polypeptide binding]; other site 1090974003261 active site 1090974003262 L-aspartate oxidase; Region: nadB; TIGR00551 1090974003263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974003264 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1090974003265 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1090974003266 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 1090974003267 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1090974003268 catalytic residue [active] 1090974003269 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1090974003270 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1090974003271 Haemolytic domain; Region: Haemolytic; cl00506 1090974003272 Predicted GTPase [General function prediction only]; Region: COG0218 1090974003273 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1090974003274 G1 box; other site 1090974003275 GTP/Mg2+ binding site [chemical binding]; other site 1090974003276 Switch I region; other site 1090974003277 G2 box; other site 1090974003278 G3 box; other site 1090974003279 Switch II region; other site 1090974003280 G4 box; other site 1090974003281 G5 box; other site 1090974003282 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1090974003283 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 1090974003284 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 1090974003285 Walker A motif; other site 1090974003286 ATP binding site [chemical binding]; other site 1090974003287 Walker B motif; other site 1090974003288 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1090974003289 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 1090974003290 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1090974003291 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1090974003292 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1090974003293 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1090974003294 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974003295 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1090974003296 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 1090974003297 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 1090974003298 N- and C-terminal domain interface [polypeptide binding]; other site 1090974003299 putative active site [active] 1090974003300 catalytic site [active] 1090974003301 metal binding site [ion binding]; metal-binding site 1090974003302 carbohydrate binding site [chemical binding]; other site 1090974003303 ATP binding site [chemical binding]; other site 1090974003304 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1090974003305 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1090974003306 putative substrate translocation pore; other site 1090974003307 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1090974003308 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 1090974003309 enolase; Provisional; Region: eno; PRK00077 1090974003310 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 1090974003311 dimer interface [polypeptide binding]; other site 1090974003312 metal binding site [ion binding]; metal-binding site 1090974003313 substrate binding pocket [chemical binding]; other site 1090974003314 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 1090974003315 substrate binding site [chemical binding]; other site 1090974003316 dimer interface [polypeptide binding]; other site 1090974003317 catalytic triad [active] 1090974003318 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 1090974003319 Phosphoglycerate kinase; Region: PGK; pfam00162 1090974003320 substrate binding site [chemical binding]; other site 1090974003321 hinge regions; other site 1090974003322 ADP binding site [chemical binding]; other site 1090974003323 catalytic site [active] 1090974003324 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974003325 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1090974003326 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 1090974003327 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1090974003328 Predicted transcriptional regulator [Transcription]; Region: COG3388 1090974003329 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1090974003330 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1090974003331 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1090974003332 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1090974003333 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 1090974003334 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1090974003335 Clp amino terminal domain; Region: Clp_N; pfam02861 1090974003336 Clp amino terminal domain; Region: Clp_N; pfam02861 1090974003337 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 1090974003338 Walker A motif; other site 1090974003339 ATP binding site [chemical binding]; other site 1090974003340 Walker B motif; other site 1090974003341 arginine finger; other site 1090974003342 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 1090974003343 Walker A motif; other site 1090974003344 ATP binding site [chemical binding]; other site 1090974003345 Walker B motif; other site 1090974003346 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1090974003347 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1090974003348 magnesium-transporting ATPase; Provisional; Region: PRK15122 1090974003349 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1090974003350 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1090974003351 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974003352 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1090974003353 Phosphotransferase enzyme family; Region: APH; pfam01636 1090974003354 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 1090974003355 active site 1090974003356 ATP binding site [chemical binding]; other site 1090974003357 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1090974003358 substrate binding site [chemical binding]; other site 1090974003359 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 1090974003360 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 1090974003361 FeS/SAM binding site; other site 1090974003362 GI:332686367; cell division protein FtsK 1090974003363 DNA topoisomerase III; Provisional; Region: PRK07726 1090974003364 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 1090974003365 active site 1090974003366 putative interdomain interaction site [polypeptide binding]; other site 1090974003367 putative metal-binding site [ion binding]; other site 1090974003368 putative nucleotide binding site [chemical binding]; other site 1090974003369 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 1090974003370 domain I; other site 1090974003371 DNA binding groove [nucleotide binding] 1090974003372 phosphate binding site [ion binding]; other site 1090974003373 domain II; other site 1090974003374 domain III; other site 1090974003375 nucleotide binding site [chemical binding]; other site 1090974003376 catalytic site [active] 1090974003377 domain IV; other site 1090974003378 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1090974003379 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 1090974003380 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1090974003381 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 1090974003382 Putative amino acid metabolism; Region: DUF1831; pfam08866 1090974003383 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1090974003384 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 1090974003385 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1090974003386 catalytic residue [active] 1090974003387 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 1090974003388 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1090974003389 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1090974003390 active site 1090974003391 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1090974003392 SWIM zinc finger; Region: SWIM; cl15408 1090974003393 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1090974003394 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 1090974003395 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 1090974003396 ATP binding site [chemical binding]; other site 1090974003397 putative Mg++ binding site [ion binding]; other site 1090974003398 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 1090974003399 nucleotide binding region [chemical binding]; other site 1090974003400 ATP-binding site [chemical binding]; other site 1090974003401 exonuclease SbcC; Region: sbcc; TIGR00618 1090974003402 exonuclease SbcC; Region: sbcc; TIGR00618 1090974003403 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974003404 ABC transporter signature motif; other site 1090974003405 Walker B; other site 1090974003406 D-loop; other site 1090974003407 H-loop/switch region; other site 1090974003408 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974003409 Walker A/P-loop; other site 1090974003410 ATP binding site [chemical binding]; other site 1090974003411 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1090974003412 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1090974003413 active site 1090974003414 metal binding site [ion binding]; metal-binding site 1090974003415 DNA binding site [nucleotide binding] 1090974003416 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1090974003417 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1090974003418 putative acyl-acceptor binding pocket; other site 1090974003419 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1090974003420 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; cl16911 1090974003421 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1090974003422 GIY-YIG motif/motif A; other site 1090974003423 putative active site [active] 1090974003424 putative metal binding site [ion binding]; other site 1090974003425 Isochorismatase family; Region: Isochorismatase; pfam00857 1090974003426 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 1090974003427 catalytic triad [active] 1090974003428 conserved cis-peptide bond; other site 1090974003429 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1090974003430 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 1090974003431 dimer interface [polypeptide binding]; other site 1090974003432 ADP-ribose binding site [chemical binding]; other site 1090974003433 active site 1090974003434 nudix motif; other site 1090974003435 metal binding site [ion binding]; metal-binding site 1090974003436 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1090974003437 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1090974003438 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; cl16911 1090974003439 CutC family; Region: CutC; cl01218 1090974003440 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 1090974003441 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974003442 Walker A/P-loop; other site 1090974003443 ATP binding site [chemical binding]; other site 1090974003444 Q-loop/lid; other site 1090974003445 ABC transporter signature motif; other site 1090974003446 Walker B; other site 1090974003447 D-loop; other site 1090974003448 H-loop/switch region; other site 1090974003449 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 1090974003450 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1090974003451 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 1090974003452 glutaminase active site [active] 1090974003453 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1090974003454 dimer interface [polypeptide binding]; other site 1090974003455 active site 1090974003456 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1090974003457 dimer interface [polypeptide binding]; other site 1090974003458 active site 1090974003459 Cobalt transport protein; Region: CbiQ; cl00463 1090974003460 potential frameshift: common BLAST hit: gi|332686338|ref|YP_004456112.1| ECF transporter ATPase 1090974003461 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974003462 ABC transporter signature motif; other site 1090974003463 Walker B; other site 1090974003464 D-loop; other site 1090974003465 H-loop/switch region; other site 1090974003466 potential frameshift: common BLAST hit: gi|332686338|ref|YP_004456112.1| ECF transporter ATPase 1090974003467 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974003468 Walker B; other site 1090974003469 D-loop; other site 1090974003470 H-loop/switch region; other site 1090974003471 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 1090974003472 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974003473 Walker A/P-loop; other site 1090974003474 ATP binding site [chemical binding]; other site 1090974003475 Q-loop/lid; other site 1090974003476 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 1090974003477 Walker A/P-loop; other site 1090974003478 ATP binding site [chemical binding]; other site 1090974003479 Q-loop/lid; other site 1090974003480 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1090974003481 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1090974003482 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 1090974003483 active site 1090974003484 substrate binding site [chemical binding]; other site 1090974003485 metal binding site [ion binding]; metal-binding site 1090974003486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 1090974003487 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1090974003488 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1090974003489 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 1090974003490 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 1090974003491 dimer interface [polypeptide binding]; other site 1090974003492 PYR/PP interface [polypeptide binding]; other site 1090974003493 TPP binding site [chemical binding]; other site 1090974003494 substrate binding site [chemical binding]; other site 1090974003495 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 1090974003496 Domain of unknown function; Region: EKR; cl11037 1090974003497 4Fe-4S binding domain; Region: Fer4; cl02805 1090974003498 4Fe-4S binding domain; Region: Fer4; cl02805 1090974003499 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 1090974003500 TPP-binding site [chemical binding]; other site 1090974003501 dimer interface [polypeptide binding]; other site 1090974003502 glutamine synthetase, type I; Region: GlnA; TIGR00653 1090974003503 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1090974003504 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1090974003505 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1090974003506 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1090974003507 DNA binding residues [nucleotide binding] 1090974003508 putative dimer interface [polypeptide binding]; other site 1090974003509 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1090974003510 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1090974003511 HflX GTPase family; Region: HflX; cd01878 1090974003512 G1 box; other site 1090974003513 GTP/Mg2+ binding site [chemical binding]; other site 1090974003514 Switch I region; other site 1090974003515 G2 box; other site 1090974003516 G3 box; other site 1090974003517 Switch II region; other site 1090974003518 G4 box; other site 1090974003519 G5 box; other site 1090974003520 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1090974003521 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974003522 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974003523 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1090974003524 NAD(P) binding site [chemical binding]; other site 1090974003525 active site 1090974003526 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1090974003527 MatE; Region: MatE; cl10513 1090974003528 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 1090974003529 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 1090974003530 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 1090974003531 O-Antigen ligase; Region: Wzy_C; cl04850 1090974003532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974003533 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1090974003534 NAD(P) binding site [chemical binding]; other site 1090974003535 active site 1090974003536 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1090974003537 substrate binding site; other site 1090974003538 dimer interface; other site 1090974003539 putative glycosyl transferase; Provisional; Region: PRK10073 1090974003540 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 1090974003541 active site 1090974003542 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1090974003543 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 1090974003544 active site 1090974003545 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1090974003546 Bacterial sugar transferase; Region: Bac_transf; cl00939 1090974003547 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 1090974003548 Probable Catalytic site; other site 1090974003549 metal-binding site 1090974003550 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1090974003551 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1090974003552 Probable Catalytic site; other site 1090974003553 metal-binding site 1090974003554 glycosyl transferase, group 2 family protein 1090974003555 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1090974003556 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 1090974003557 Walker A/P-loop; other site 1090974003558 ATP binding site [chemical binding]; other site 1090974003559 Q-loop/lid; other site 1090974003560 ABC transporter signature motif; other site 1090974003561 Walker B; other site 1090974003562 D-loop; other site 1090974003563 H-loop/switch region; other site 1090974003564 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1090974003565 putative carbohydrate binding site [chemical binding]; other site 1090974003566 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1090974003567 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 1090974003568 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1090974003569 Ligand binding site; other site 1090974003570 Putative Catalytic site; other site 1090974003571 DXD motif; other site 1090974003572 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1090974003573 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1090974003574 NADP binding site [chemical binding]; other site 1090974003575 active site 1090974003576 putative substrate binding site [chemical binding]; other site 1090974003577 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1090974003578 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1090974003579 NAD binding site [chemical binding]; other site 1090974003580 substrate binding site [chemical binding]; other site 1090974003581 homodimer interface [polypeptide binding]; other site 1090974003582 active site 1090974003583 Cupin domain; Region: Cupin_2; cl09118 1090974003584 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1090974003585 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1090974003586 substrate binding site; other site 1090974003587 tetramer interface; other site 1090974003588 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1090974003589 Probable Catalytic site; other site 1090974003590 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 1090974003591 active site 1090974003592 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1090974003593 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 1090974003594 active site 1090974003595 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 1090974003596 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 1090974003597 Mg++ binding site [ion binding]; other site 1090974003598 putative catalytic motif [active] 1090974003599 substrate binding site [chemical binding]; other site 1090974003600 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1090974003601 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 1090974003602 active site 1090974003603 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1090974003604 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1090974003605 putative substrate translocation pore; other site 1090974003606 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1090974003607 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1090974003608 Helix-turn-helix domains; Region: HTH; cl00088 1090974003609 WHG domain; Region: WHG; pfam13305 1090974003610 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1090974003611 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1090974003612 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1090974003613 PTS_IIA, PTS system, lactose/cellobiose 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_lac; cd00215 1090974003614 active site 1090974003615 methionine cluster; other site 1090974003616 phosphorylation site [posttranslational modification] 1090974003617 metal binding site [ion binding]; metal-binding site 1090974003618 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1090974003619 active site 1090974003620 P-loop; other site 1090974003621 phosphorylation site [posttranslational modification] 1090974003622 GI:332686287; NtrC family transcriptional regulator 1090974003623 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974003624 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1090974003625 ATP binding site [chemical binding]; other site 1090974003626 putative Mg++ binding site [ion binding]; other site 1090974003627 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 1090974003628 nucleotide binding region [chemical binding]; other site 1090974003629 ATP-binding site [chemical binding]; other site 1090974003630 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1090974003631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974003632 Helix-turn-helix domains; Region: HTH; cl00088 1090974003633 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 1090974003634 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1090974003635 FeoA domain; Region: FeoA; cl00838 1090974003636 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1090974003637 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1090974003638 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1090974003639 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1090974003640 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1090974003641 active site 1090974003642 HIGH motif; other site 1090974003643 nucleotide binding site [chemical binding]; other site 1090974003644 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1090974003645 active site 1090974003646 KMSKS motif; other site 1090974003647 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1090974003648 tRNA binding surface [nucleotide binding]; other site 1090974003649 anticodon binding site; other site 1090974003650 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1090974003651 DivIVA protein; Region: DivIVA; pfam05103 1090974003652 DivIVA domain; Region: DivI1A_domain; TIGR03544 1090974003653 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1090974003654 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 1090974003655 RNA binding surface [nucleotide binding]; other site 1090974003656 YGGT family; Region: YGGT; cl00508 1090974003657 Protein of unknown function (DUF552); Region: DUF552; cl00775 1090974003658 cell division protein FtsZ; Validated; Region: PRK09330 1090974003659 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 1090974003660 nucleotide binding site [chemical binding]; other site 1090974003661 SulA interaction site; other site 1090974003662 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1090974003663 Cell division protein FtsA; Region: FtsA; cl11496 1090974003664 Cell division protein FtsA; Region: FtsA; cl11496 1090974003665 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 1090974003666 GI:332686274; cell division protein FtsQ 1090974003667 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1090974003668 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 1090974003669 active site 1090974003670 homodimer interface [polypeptide binding]; other site 1090974003671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974003672 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1090974003673 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1090974003674 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1090974003675 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1090974003676 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 1090974003677 Mg++ binding site [ion binding]; other site 1090974003678 putative catalytic motif [active] 1090974003679 putative substrate binding site [chemical binding]; other site 1090974003680 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1090974003681 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1090974003682 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1090974003683 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1090974003684 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; cl16911 1090974003685 cell division protein MraZ; Reviewed; Region: PRK00326 1090974003686 MraZ protein; Region: MraZ; pfam02381 1090974003687 MraZ protein; Region: MraZ; pfam02381 1090974003688 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 1090974003689 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1090974003690 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1090974003691 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 1090974003692 Walker A/P-loop; other site 1090974003693 ATP binding site [chemical binding]; other site 1090974003694 Q-loop/lid; other site 1090974003695 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 1090974003696 ABC transporter signature motif; other site 1090974003697 Walker B; other site 1090974003698 D-loop; other site 1090974003699 H-loop/switch region; other site 1090974003700 Arginine repressor [Transcription]; Region: ArgR; COG1438 1090974003701 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1090974003702 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1090974003703 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1090974003704 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 1090974003705 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; cl16911 1090974003706 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1090974003707 substrate binding pocket [chemical binding]; other site 1090974003708 chain length determination region; other site 1090974003709 substrate-Mg2+ binding site; other site 1090974003710 catalytic residues [active] 1090974003711 aspartate-rich region 1; other site 1090974003712 active site lid residues [active] 1090974003713 aspartate-rich region 2; other site 1090974003714 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 1090974003715 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1090974003716 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 1090974003717 generic binding surface II; other site 1090974003718 generic binding surface I; other site 1090974003719 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 1090974003720 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1090974003721 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1090974003722 homodimer interface [polypeptide binding]; other site 1090974003723 NADP binding site [chemical binding]; other site 1090974003724 substrate binding site [chemical binding]; other site 1090974003725 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 1090974003726 putative RNA binding site [nucleotide binding]; other site 1090974003727 Asp23 family; Region: Asp23; cl00574 1090974003728 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1090974003729 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1090974003730 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 1090974003731 active site 1090974003732 Phosphate-starvation-inducible E; Region: PsiE; cl01264 1090974003733 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1090974003734 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 1090974003735 Protein of unknown function (DUF464); Region: DUF464; cl01080 1090974003736 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 1090974003737 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 1090974003738 putative catalytic residues [active] 1090974003739 Protein of unknown function (DUF441); Region: DUF441; cl01041 1090974003740 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1090974003741 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1090974003742 Coenzyme A binding pocket [chemical binding]; other site 1090974003743 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1090974003744 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1090974003745 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1090974003746 active site 1090974003747 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 1090974003748 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1090974003749 synthetase active site [active] 1090974003750 NTP binding site [chemical binding]; other site 1090974003751 metal binding site [ion binding]; metal-binding site 1090974003752 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1090974003753 putative active site [active] 1090974003754 putative metal binding residues [ion binding]; other site 1090974003755 signature motif; other site 1090974003756 putative triphosphate binding site [ion binding]; other site 1090974003757 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 1090974003758 Thioredoxin; Region: Thioredoxin_5; pfam13743 1090974003759 catalytic residues [active] 1090974003760 oligoendopeptidase F; Region: pepF; TIGR00181 1090974003761 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1090974003762 active site 1090974003763 Zn binding site [ion binding]; other site 1090974003764 Competence protein CoiA-like family; Region: CoiA; cl11541 1090974003765 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 1090974003766 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 1090974003767 ArsC family; Region: ArsC; pfam03960 1090974003768 putative catalytic residues [active] 1090974003769 thiol/disulfide switch; other site 1090974003770 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1090974003771 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1090974003772 active site 1090974003773 HIGH motif; other site 1090974003774 dimer interface [polypeptide binding]; other site 1090974003775 KMSKS motif; other site 1090974003776 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 1090974003777 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1090974003778 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1090974003779 ligand binding site [chemical binding]; other site 1090974003780 active site 1090974003781 UGI interface [polypeptide binding]; other site 1090974003782 catalytic site [active] 1090974003783 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 1090974003784 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1090974003785 active site 1090974003786 motif I; other site 1090974003787 motif II; other site 1090974003788 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1090974003789 Scramblase; Region: Scramblase; cl02043 1090974003790 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1090974003791 Coenzyme A binding pocket [chemical binding]; other site 1090974003792 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1090974003793 3D domain; Region: 3D; cl01439 1090974003794 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1090974003795 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1090974003796 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974003797 Walker A/P-loop; other site 1090974003798 ATP binding site [chemical binding]; other site 1090974003799 Q-loop/lid; other site 1090974003800 ABC transporter signature motif; other site 1090974003801 Walker B; other site 1090974003802 D-loop; other site 1090974003803 H-loop/switch region; other site 1090974003804 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1090974003805 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1090974003806 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 1090974003807 Walker A/P-loop; other site 1090974003808 ATP binding site [chemical binding]; other site 1090974003809 Q-loop/lid; other site 1090974003810 ABC transporter signature motif; other site 1090974003811 Walker B; other site 1090974003812 D-loop; other site 1090974003813 H-loop/switch region; other site 1090974003814 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1090974003815 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1090974003816 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 1090974003817 active site 1090974003818 dimer interfaces [polypeptide binding]; other site 1090974003819 catalytic residues [active] 1090974003820 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1090974003821 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 1090974003822 Walker A/P-loop; other site 1090974003823 ATP binding site [chemical binding]; other site 1090974003824 Q-loop/lid; other site 1090974003825 ABC transporter signature motif; other site 1090974003826 Walker B; other site 1090974003827 D-loop; other site 1090974003828 H-loop/switch region; other site 1090974003829 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; cl16911 1090974003830 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1090974003831 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 1090974003832 putative active site [active] 1090974003833 putative metal binding site [ion binding]; other site 1090974003834 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1090974003835 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1090974003836 active site 1090974003837 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1090974003838 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1090974003839 active site 1090974003840 HIGH motif; other site 1090974003841 KMSKS motif; other site 1090974003842 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1090974003843 tRNA binding surface [nucleotide binding]; other site 1090974003844 anticodon binding site; other site 1090974003845 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 1090974003846 dimer interface [polypeptide binding]; other site 1090974003847 putative tRNA-binding site [nucleotide binding]; other site 1090974003848 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 1090974003849 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 1090974003850 ATP binding site [chemical binding]; other site 1090974003851 Mg2+ binding site [ion binding]; other site 1090974003852 G-X-G motif; other site 1090974003853 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1090974003854 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1090974003855 active site 1090974003856 phosphorylation site [posttranslational modification] 1090974003857 intermolecular recognition site; other site 1090974003858 dimerization interface [polypeptide binding]; other site 1090974003859 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1090974003860 DNA binding site [nucleotide binding] 1090974003861 ribosomal protein L20; Region: rpl20; CHL00068 1090974003862 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1090974003863 23S rRNA binding site [nucleotide binding]; other site 1090974003864 L21 binding site [polypeptide binding]; other site 1090974003865 L13 binding site [polypeptide binding]; other site 1090974003866 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 1090974003867 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1090974003868 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1090974003869 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1090974003870 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1090974003871 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 1090974003872 Walker A/P-loop; other site 1090974003873 ATP binding site [chemical binding]; other site 1090974003874 Q-loop/lid; other site 1090974003875 ABC transporter signature motif; other site 1090974003876 Walker B; other site 1090974003877 D-loop; other site 1090974003878 H-loop/switch region; other site 1090974003879 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1090974003880 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1090974003881 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 1090974003882 Walker A/P-loop; other site 1090974003883 ATP binding site [chemical binding]; other site 1090974003884 Q-loop/lid; other site 1090974003885 ABC transporter signature motif; other site 1090974003886 Walker B; other site 1090974003887 D-loop; other site 1090974003888 H-loop/switch region; other site 1090974003889 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1090974003890 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1090974003891 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1090974003892 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 1090974003893 dimer interface [polypeptide binding]; other site 1090974003894 conserved gate region; other site 1090974003895 putative PBP binding loops; other site 1090974003896 ABC-ATPase subunit interface; other site 1090974003897 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1090974003898 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 1090974003899 dimer interface [polypeptide binding]; other site 1090974003900 conserved gate region; other site 1090974003901 putative PBP binding loops; other site 1090974003902 ABC-ATPase subunit interface; other site 1090974003903 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 1090974003904 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1090974003905 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1090974003906 peptide binding site [polypeptide binding]; other site 1090974003907 mevalonate kinase; Region: mevalon_kin; TIGR00549 1090974003908 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1090974003909 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1090974003910 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 1090974003911 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 1090974003912 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1090974003913 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 1090974003914 putative active site [active] 1090974003915 FMN binding site [chemical binding]; other site 1090974003916 putative substrate binding site [chemical binding]; other site 1090974003917 homotetramer interface [polypeptide binding]; other site 1090974003918 Predicted membrane protein [Function unknown]; Region: COG1511 1090974003919 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1090974003920 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 1090974003921 Predicted membrane protein [Function unknown]; Region: COG1511 1090974003922 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1090974003923 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1090974003924 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1090974003925 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1090974003926 putative catalytic cysteine [active] 1090974003927 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1090974003928 putative active site [active] 1090974003929 metal binding site [ion binding]; metal-binding site 1090974003930 Post-transcriptional regulator; Region: Post_transc_reg; pfam13797 1090974003931 Preprotein translocase subunit; Region: YajC; cl00806 1090974003932 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 1090974003933 tRNA-guanine transglycosylases, various specificities; Region: tgt_general; TIGR00449 1090974003934 GI:332686191; amino acid ABC transporter amino acid-binding/ permease 1090974003935 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1090974003936 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 1090974003937 Walker A/P-loop; other site 1090974003938 ATP binding site [chemical binding]; other site 1090974003939 Q-loop/lid; other site 1090974003940 ABC transporter signature motif; other site 1090974003941 Walker B; other site 1090974003942 D-loop; other site 1090974003943 H-loop/switch region; other site 1090974003944 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1090974003945 nudix motif; other site 1090974003946 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 1090974003947 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1090974003948 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1090974003949 putative NAD(P) binding site [chemical binding]; other site 1090974003950 dimer interface [polypeptide binding]; other site 1090974003951 OpgC protein; Region: OpgC_C; cl00792 1090974003952 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1090974003953 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 1090974003954 catalytic triad [active] 1090974003955 catalytic triad [active] 1090974003956 oxyanion hole [active] 1090974003957 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 1090974003958 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1090974003959 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1090974003960 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1090974003961 Clp protease; Region: CLP_protease; pfam00574 1090974003962 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1090974003963 oligomer interface [polypeptide binding]; other site 1090974003964 active site residues [active] 1090974003965 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1090974003966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1090974003967 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1090974003968 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1090974003969 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 1090974003970 phosphate binding site [ion binding]; other site 1090974003971 putative substrate binding pocket [chemical binding]; other site 1090974003972 dimer interface [polypeptide binding]; other site 1090974003973 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 1090974003974 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 1090974003975 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1090974003976 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 1090974003977 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 1090974003978 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 1090974003979 excinuclease ABC subunit B; Provisional; Region: PRK05298 1090974003980 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 1090974003981 ATP binding site [chemical binding]; other site 1090974003982 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 1090974003983 nucleotide binding region [chemical binding]; other site 1090974003984 ATP-binding site [chemical binding]; other site 1090974003985 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1090974003986 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 1090974003987 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1090974003988 substrate binding pocket [chemical binding]; other site 1090974003989 membrane-bound complex binding site; other site 1090974003990 hinge residues; other site 1090974003991 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 1090974003992 dimer interface [polypeptide binding]; other site 1090974003993 conserved gate region; other site 1090974003994 putative PBP binding loops; other site 1090974003995 ABC-ATPase subunit interface; other site 1090974003996 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1090974003997 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 1090974003998 Walker A/P-loop; other site 1090974003999 ATP binding site [chemical binding]; other site 1090974004000 Q-loop/lid; other site 1090974004001 ABC transporter signature motif; other site 1090974004002 Walker B; other site 1090974004003 D-loop; other site 1090974004004 H-loop/switch region; other site 1090974004005 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 1090974004006 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 1090974004007 TRAM domain; Region: TRAM; cl01282 1090974004008 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1090974004009 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 1090974004010 S-adenosylmethionine binding site [chemical binding]; other site 1090974004011 putative lipid kinase; Reviewed; Region: PRK13055 1090974004012 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 1090974004013 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1090974004014 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1090974004015 GatB domain; Region: GatB_Yqey; cl11497 1090974004016 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1090974004017 Amidase; Region: Amidase; cl11426 1090974004018 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 1090974004019 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1090974004020 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 1090974004021 nucleotide binding pocket [chemical binding]; other site 1090974004022 K-X-D-G motif; other site 1090974004023 catalytic site [active] 1090974004024 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1090974004025 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1090974004026 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 1090974004027 Dimer interface [polypeptide binding]; other site 1090974004028 BRCT sequence motif; other site 1090974004029 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1090974004030 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974004031 Family description; Region: UvrD_C_2; cl15862 1090974004032 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 1090974004033 Alpha amylase catalytic domain found in bacterial and fungal Alpha amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_bac_fung_AmyA; cd11318 1090974004034 active site 1090974004035 Na/Ca binding site [ion binding]; other site 1090974004036 catalytic site [active] 1090974004037 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1090974004038 Helix-turn-helix domains; Region: HTH; cl00088 1090974004039 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 1090974004040 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1090974004041 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 1090974004042 putative substrate binding site [chemical binding]; other site 1090974004043 putative ATP binding site [chemical binding]; other site 1090974004044 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1090974004045 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 1090974004046 active site 1090974004047 phosphorylation site [posttranslational modification] 1090974004048 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 1090974004049 active site 1090974004050 P-loop; other site 1090974004051 phosphorylation site [posttranslational modification] 1090974004052 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1090974004053 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1090974004054 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1090974004055 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 1090974004056 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 1090974004057 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 1090974004058 dimerization domain swap beta strand [polypeptide binding]; other site 1090974004059 regulatory protein interface [polypeptide binding]; other site 1090974004060 active site 1090974004061 regulatory phosphorylation site [posttranslational modification]; other site 1090974004062 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 1090974004063 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 1090974004064 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1090974004065 Walker A motif; other site 1090974004066 ATP binding site [chemical binding]; other site 1090974004067 Walker B motif; other site 1090974004068 arginine finger; other site 1090974004069 flagellar biosynthetic protein FlhF; Region: FlhF; TIGR03499 1090974004070 UvrB/uvrC motif; Region: UVR; pfam02151 1090974004071 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 1090974004072 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1090974004073 Walker A motif; other site 1090974004074 ATP binding site [chemical binding]; other site 1090974004075 Walker B motif; other site 1090974004076 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1090974004077 Protein of unknown function (DUF964); Region: DUF964; cl01483 1090974004078 Transglycosylase; Region: Transgly; cl07896 1090974004079 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1090974004080 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1090974004081 CsbD-like; Region: CsbD; cl15799 1090974004082 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 1090974004083 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1090974004084 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1090974004085 active site 1090974004086 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1090974004087 A subgroup of the 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_1; cd05710 1090974004088 putative active site [active] 1090974004089 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 1090974004090 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1090974004091 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1090974004092 dimer interface [polypeptide binding]; other site 1090974004093 active site 1090974004094 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 1090974004095 dimer interface [polypeptide binding]; other site 1090974004096 active site 1090974004097 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1090974004098 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 1090974004099 PTS_IIB, PTS system, Mannose/sorbose 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_man; cd00001 1090974004100 active site 1090974004101 phosphorylation site [posttranslational modification] 1090974004102 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1090974004103 active site 1090974004104 active pocket/dimerization site; other site 1090974004105 phosphorylation site [posttranslational modification] 1090974004106 Helix-turn-helix domains; Region: HTH; cl00088 1090974004107 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 1090974004108 Walker A motif; other site 1090974004109 ATP binding site [chemical binding]; other site 1090974004110 Walker B motif; other site 1090974004111 arginine finger; other site 1090974004112 Transcriptional antiterminator [Transcription]; Region: COG3933 1090974004113 PRD domain; Region: PRD; cl15445 1090974004114 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 1090974004115 active pocket/dimerization site; other site 1090974004116 active site 1090974004117 phosphorylation site [posttranslational modification] 1090974004118 PRD domain; Region: PRD; cl15445 1090974004119 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 1090974004120 active site 1090974004121 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1090974004122 substrate binding site [chemical binding]; other site 1090974004123 metal binding site [ion binding]; metal-binding site 1090974004124 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1090974004125 arginine repressor; Region: argR_whole; TIGR01529 1090974004126 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1090974004127 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 1090974004128 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 1090974004129 S-adenosylmethionine binding site [chemical binding]; other site 1090974004130 D-alanyl-lipoteichoic acid biosynthesis protein DltD; Region: LTA_DltD; TIGR04092 1090974004131 DltD N-terminal region; Region: DltD_N; pfam04915 1090974004132 DltD central region; Region: DltD_M; pfam04918 1090974004133 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1090974004134 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1090974004135 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 1090974004136 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1090974004137 AMP-binding enzyme; Region: AMP-binding; cl15778 1090974004138 GI:332686128; GI:332686129; putative permease 1090974004139 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1090974004140 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 1090974004141 Walker A/P-loop; other site 1090974004142 ATP binding site [chemical binding]; other site 1090974004143 Q-loop/lid; other site 1090974004144 ABC transporter signature motif; other site 1090974004145 Walker B; other site 1090974004146 D-loop; other site 1090974004147 H-loop/switch region; other site 1090974004148 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1090974004149 ATP cone domain; Region: ATP-cone; pfam03477 1090974004150 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1090974004151 effector binding site; other site 1090974004152 active site 1090974004153 Zn binding site [ion binding]; other site 1090974004154 glycine loop; other site 1090974004155 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 1090974004156 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1090974004157 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1090974004158 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1090974004159 active site 1090974004160 DNA polymerase IV; Validated; Region: PRK02406 1090974004161 DNA binding site [nucleotide binding] 1090974004162 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 1090974004163 Predicted methyltransferases [General function prediction only]; Region: COG0313 1090974004164 Protein of unknown function (DUF972); Region: DUF972; pfam06156 1090974004165 GI:332686120; signal peptidase-like protein 1090974004166 DNA polymerase III subunit delta'; Validated; Region: PRK08058 1090974004167 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974004168 Nitrogen regulatory protein P-II; Region: P-II; cl00412 1090974004169 thymidylate kinase; Validated; Region: tmk; PRK00698 1090974004170 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 1090974004171 TMP-binding site; other site 1090974004172 ATP-binding site [chemical binding]; other site 1090974004173 recombination protein RecR; Reviewed; Region: recR; PRK00076 1090974004174 RecR protein; Region: RecR; pfam02132 1090974004175 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 1090974004176 putative active site [active] 1090974004177 putative metal-binding site [ion binding]; other site 1090974004178 tetramer interface [polypeptide binding]; other site 1090974004179 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 1090974004180 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1090974004181 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 1090974004182 Walker A motif; other site 1090974004183 ATP binding site [chemical binding]; other site 1090974004184 Walker B motif; other site 1090974004185 arginine finger; other site 1090974004186 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1090974004187 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1090974004188 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1090974004189 DNA binding site [nucleotide binding] 1090974004190 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 1090974004191 putative ligand binding site [chemical binding]; other site 1090974004192 putative dimerization interface [polypeptide binding]; other site 1090974004193 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1090974004194 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1090974004195 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 1090974004196 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1090974004197 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1090974004198 NAD binding site [chemical binding]; other site 1090974004199 homodimer interface [polypeptide binding]; other site 1090974004200 active site 1090974004201 substrate binding site [chemical binding]; other site 1090974004202 galactokinase; Provisional; Region: PRK05322 1090974004203 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1090974004204 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1090974004205 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1090974004206 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 1090974004207 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 1090974004208 active site residue [active] 1090974004209 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1090974004210 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1090974004211 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 1090974004212 GI:332686104; GlpG protein 1090974004213 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 1090974004214 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1090974004215 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1090974004216 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1090974004217 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1090974004218 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 1090974004219 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 1090974004220 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 1090974004221 active site 1090974004222 dimer interface [polypeptide binding]; other site 1090974004223 motif 1; other site 1090974004224 motif 2; other site 1090974004225 motif 3; other site 1090974004226 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 1090974004227 anticodon binding site; other site 1090974004228 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1090974004229 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 1090974004230 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 1090974004231 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 1090974004232 putative active site [active] 1090974004233 Bacterial protein of unknown function (DUF916); Region: DUF916; pfam06030 1090974004234 Protein of unknown function C-terminal (DUF3324); Region: DUF3324; pfam11797 1090974004235 Transcriptional regulator; Region: Transcrip_reg; cl00361 1090974004236 Predicted nucleotidyltransferase [General function prediction only]; Region: COG1323 1090974004237 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1090974004238 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1090974004239 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 1090974004240 S-adenosylmethionine binding site [chemical binding]; other site 1090974004241 Oligomerisation domain; Region: Oligomerisation; cl00519 1090974004242 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 1090974004243 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1090974004244 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1090974004245 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1090974004246 active site 1090974004247 (T/H)XGH motif; other site 1090974004248 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 1090974004249 GTPase YqeH; Provisional; Region: PRK13796 1090974004250 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1090974004251 GTP/Mg2+ binding site [chemical binding]; other site 1090974004252 G4 box; other site 1090974004253 G5 box; other site 1090974004254 G1 box; other site 1090974004255 Switch I region; other site 1090974004256 G2 box; other site 1090974004257 G3 box; other site 1090974004258 Switch II region; other site 1090974004259 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1090974004260 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 1090974004261 active site 1090974004262 motif I; other site 1090974004263 motif II; other site 1090974004264 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1090974004265 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1090974004266 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 1090974004267 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1090974004268 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1090974004269 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1090974004270 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1090974004271 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1090974004272 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 1090974004273 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1090974004274 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 1090974004275 carboxyltransferase (CT) interaction site; other site 1090974004276 biotinylation site [posttranslational modification]; other site 1090974004277 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 1090974004278 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 1090974004279 dimer interface [polypeptide binding]; other site 1090974004280 active site 1090974004281 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1090974004282 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1090974004283 NAD(P) binding site [chemical binding]; other site 1090974004284 homotetramer interface [polypeptide binding]; other site 1090974004285 homodimer interface [polypeptide binding]; other site 1090974004286 active site 1090974004287 Acyl transferase domain; Region: Acyl_transf_1; cl08282 1090974004288 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1090974004289 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1090974004290 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1090974004291 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 1090974004292 dimer interface [polypeptide binding]; other site 1090974004293 active site 1090974004294 CoA binding pocket [chemical binding]; other site 1090974004295 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1090974004296 Helix-turn-helix domains; Region: HTH; cl00088 1090974004297 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 1090974004298 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1090974004299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974004300 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1090974004301 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 1090974004302 putative ADP-binding pocket [chemical binding]; other site 1090974004303 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1090974004304 general stress protein 13; Validated; Region: PRK08059 1090974004305 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 1090974004306 RNA binding site [nucleotide binding]; other site 1090974004307 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1090974004308 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 1090974004309 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1090974004310 homodimer interface [polypeptide binding]; other site 1090974004311 catalytic residue [active] 1090974004312 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 1090974004313 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 1090974004314 active site 1090974004315 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1090974004316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974004317 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1090974004318 CAAX protease self-immunity; Region: Abi; cl00558 1090974004319 OsmC-like protein; Region: OsmC; cl00767 1090974004320 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 1090974004321 Virus attachment protein p12 family; Region: P12; pfam12669 1090974004322 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1090974004323 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1090974004324 G1 box; other site 1090974004325 GTP/Mg2+ binding site [chemical binding]; other site 1090974004326 Switch I region; other site 1090974004327 G2 box; other site 1090974004328 G3 box; other site 1090974004329 Switch II region; other site 1090974004330 G4 box; other site 1090974004331 G5 box; other site 1090974004332 Nucleoside recognition; Region: Gate; cl00486 1090974004333 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1090974004334 Nucleoside recognition; Region: Gate; cl00486 1090974004335 FeoA domain; Region: FeoA; cl00838 1090974004336 FeoA domain; Region: FeoA; cl00838 1090974004337 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 1090974004338 catalytic residues [active] 1090974004339 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1090974004340 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 1090974004341 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1090974004342 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1090974004343 active site 1090974004344 dimer interface [polypeptide binding]; other site 1090974004345 catalytic residues [active] 1090974004346 effector binding site; other site 1090974004347 R2 peptide binding site; other site 1090974004348 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1090974004349 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1090974004350 dimer interface [polypeptide binding]; other site 1090974004351 putative radical transfer pathway; other site 1090974004352 diiron center [ion binding]; other site 1090974004353 tyrosyl radical; other site 1090974004354 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1090974004355 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 1090974004356 active site 1090974004357 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1090974004358 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1090974004359 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 1090974004360 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1090974004361 active site 1090974004362 homodimer interface [polypeptide binding]; other site 1090974004363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974004364 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1090974004365 NAD(P) binding site [chemical binding]; other site 1090974004366 active site 1090974004367 Cupin domain; Region: Cupin_2; cl09118 1090974004368 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 1090974004369 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1090974004370 NAD(P) binding site [chemical binding]; other site 1090974004371 homodimer interface [polypeptide binding]; other site 1090974004372 substrate binding site [chemical binding]; other site 1090974004373 active site 1090974004374 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 1090974004375 potential frameshift: common BLAST hit: gi|160881625|ref|YP_001560593.1| group 1 glycosyl transferase 1090974004376 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 1090974004377 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 1090974004378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974004379 NAD(P) binding site [chemical binding]; other site 1090974004380 active site 1090974004381 Bacterial sugar transferase; Region: Bac_transf; cl00939 1090974004382 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1090974004383 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1090974004384 NAD(P) binding site [chemical binding]; other site 1090974004385 homodimer interface [polypeptide binding]; other site 1090974004386 substrate binding site [chemical binding]; other site 1090974004387 active site 1090974004388 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1090974004389 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1090974004390 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974004391 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1090974004392 Chain length determinant protein; Region: Wzz; cl15801 1090974004393 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1090974004394 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1090974004395 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1090974004396 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1090974004397 Protein of unknown function (DUF1189); Region: DUF1189; pfam06691 1090974004398 D-isomer specific 2-hydroxyacid dehydrogenase family protein; GI:332686028 1090974004399 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1090974004400 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1090974004401 Ligand binding site; other site 1090974004402 Putative Catalytic site; other site 1090974004403 DXD motif; other site 1090974004404 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1090974004405 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1090974004406 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1090974004407 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1090974004408 YceG-like family; Region: YceG; pfam02618 1090974004409 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1090974004410 dimerization interface [polypeptide binding]; other site 1090974004411 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1090974004412 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1090974004413 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1090974004414 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 1090974004415 N-terminal catalytic domain of SPGH38, a putative alpha-mannosidase of Streptococcus pyogenes, and its prokaryotic homologs; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_SpGH38_like; cd10814 1090974004416 active site 1090974004417 metal binding site [ion binding]; metal-binding site 1090974004418 homodimer interface [polypeptide binding]; other site 1090974004419 catalytic site [active] 1090974004420 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; cl08536 1090974004421 Protein of unknown function (DUF1237); Region: DUF1237; cl15402 1090974004422 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1090974004423 DNA-binding site [nucleotide binding]; DNA binding site 1090974004424 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1090974004425 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1090974004426 ligand binding site [chemical binding]; other site 1090974004427 dimerization interface [polypeptide binding]; other site 1090974004428 Putative alpha-1,2-mannosidase [Carbohydrate transport and metabolism]; Region: COG3537 1090974004429 Glycosyl hydrolase family 92; Region: Glyco_hydro_92; cl15460 1090974004430 DNA-binding response regulator, AraC family 1090974004431 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 1090974004432 Histidine kinase; Region: His_kinase; pfam06580 1090974004433 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 1090974004434 Protein of unknown function, DUF624; Region: DUF624; cl02369 1090974004435 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 1090974004436 Domain of unknown function (DUF3502); Region: DUF3502; pfam12010 1090974004437 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1090974004438 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 1090974004439 dimer interface [polypeptide binding]; other site 1090974004440 ABC-ATPase subunit interface; other site 1090974004441 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1090974004442 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 1090974004443 dimer interface [polypeptide binding]; other site 1090974004444 conserved gate region; other site 1090974004445 putative PBP binding loops; other site 1090974004446 ABC-ATPase subunit interface; other site 1090974004447 Glycosyl hydrolase family 43; Region: GH43_ABN_1; cd08998 1090974004448 substrate binding site [chemical binding]; other site 1090974004449 active site 1090974004450 Predicted transcriptional regulator [Transcription]; Region: COG4189 1090974004451 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 1090974004452 dimerization interface [polypeptide binding]; other site 1090974004453 putative DNA binding site [nucleotide binding]; other site 1090974004454 putative Zn2+ binding site [ion binding]; other site 1090974004455 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1090974004456 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1090974004457 DNA-binding site [nucleotide binding]; DNA binding site 1090974004458 FCD domain; Region: FCD; cl11656 1090974004459 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1090974004460 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 1090974004461 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1090974004462 altronate oxidoreductase; Provisional; Region: PRK03643 1090974004463 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 1090974004464 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 1090974004465 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1090974004466 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1090974004467 DNA binding site [nucleotide binding] 1090974004468 domain linker motif; other site 1090974004469 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 1090974004470 ligand binding site [chemical binding]; other site 1090974004471 MFS/sugar transport protein; Region: MFS_2; pfam13347 1090974004472 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1090974004473 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 1090974004474 Glycosyl hydrolases family 28; Region: Glyco_hydro_28; pfam00295 1090974004475 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1090974004476 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1090974004477 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 1090974004478 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 1090974004479 inhibitor binding site; inhibition site 1090974004480 active site 1090974004481 Pectinesterase; Region: Pectinesterase; cl01911 1090974004482 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 1090974004483 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 1090974004484 Protein of unknown function, DUF624; Region: DUF624; cl02369 1090974004485 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1090974004486 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 1090974004487 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1090974004488 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 1090974004489 ABC-ATPase subunit interface; other site 1090974004490 potential frameshift: common BLAST hit: gi|332685983|ref|YP_004455757.1| ADA regulatory protein 1090974004491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1090974004492 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1090974004493 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1090974004494 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1090974004495 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 1090974004496 Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are...; Region: Rhamnogalacturan_acetylesterase_like; cd01821 1090974004497 active site 1090974004498 catalytic triad [active] 1090974004499 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 1090974004500 GI:332685979; amino acid permease family protein 1090974004501 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 1090974004502 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1090974004503 catalytic residue [active] 1090974004504 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 1090974004505 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1090974004506 active site 1090974004507 HIGH motif; other site 1090974004508 dimer interface [polypeptide binding]; other site 1090974004509 KMSKS motif; other site 1090974004510 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 1090974004511 RNA binding surface [nucleotide binding]; other site 1090974004512 putative phosphoketolase; Provisional; Region: PRK05261 1090974004513 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 1090974004514 TPP-binding site; other site 1090974004515 D-xylulose 5-phosphate/D-fructose 6-phosphate phosphoketolase; Region: XFP; pfam03894 1090974004516 XFP C-terminal domain; Region: XFP_C; pfam09363 1090974004517 L-arabinose isomerase; Provisional; Region: PRK02929 1090974004518 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 1090974004519 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1090974004520 trimer interface [polypeptide binding]; other site 1090974004521 substrate binding site [chemical binding]; other site 1090974004522 Mn binding site [ion binding]; other site 1090974004523 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 1090974004524 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1090974004525 putative substrate translocation pore; other site 1090974004526 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 1090974004527 Repair protein; Region: Repair_PSII; cl01535 1090974004528 LemA family; Region: LemA; cl00742 1090974004529 Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain; Region: GH18_EndoS-like; cd06542 1090974004530 active site 1090974004531 L-1,2-propanediol oxidoreductase; Provisional; Region: PRK10624 1090974004532 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1090974004533 dimer interface [polypeptide binding]; other site 1090974004534 active site 1090974004535 metal binding site [ion binding]; metal-binding site 1090974004536 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 1090974004537 putative metal binding site [ion binding]; other site 1090974004538 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 1090974004539 Carbohydrate Binding Module family 35 (CBM35); appended mainly to enzymes that bind alpha-D-galactose (CBM35-Gal), including glycoside hydrolase (GH) families GH31 and GH43; Region: CBM35_galactosidase-like; cd04081 1090974004540 Ca binding site [ion binding]; other site 1090974004541 potential frameshift: common BLAST hit: gi|332685963|ref|YP_004455737.1| alpha-galactosidase 1090974004542 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 1090974004543 Alpha-galactosidase [Carbohydrate transport and metabolism]; Region: GalA; COG3345 1090974004544 The enzymes of glycosyl hydrolase family 31 (GH31) occur in prokaryotes, eukaryotes, and archaea with a wide range of hydrolytic activities, including alpha-glucosidase (glucoamylase and sucrase-isomaltase), alpha-xylosidase, 6-alpha-glucosyltransferase; Region: GH31; cl11402 1090974004545 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1090974004546 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1090974004547 Cupin domain; Region: Cupin_2; cl09118 1090974004548 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1090974004549 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1090974004550 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1090974004551 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1090974004552 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 1090974004553 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 1090974004554 Cl- selectivity filter; other site 1090974004555 Cl- binding residues [ion binding]; other site 1090974004556 pore gating glutamate residue; other site 1090974004557 dimer interface [polypeptide binding]; other site 1090974004558 H+/Cl- coupling transport residue; other site 1090974004559 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 1090974004560 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1090974004561 CAT RNA binding domain; Region: CAT_RBD; cl03904 1090974004562 PRD domain; Region: PRD; cl15445 1090974004563 PRD domain; Region: PRD; cl15445 1090974004564 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1090974004565 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 1090974004566 active site turn [active] 1090974004567 phosphorylation site [posttranslational modification] 1090974004568 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1090974004569 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 1090974004570 HPr interaction site; other site 1090974004571 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1090974004572 active site 1090974004573 phosphorylation site [posttranslational modification] 1090974004574 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 1090974004575 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 1090974004576 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1090974004577 homodimer interface [polypeptide binding]; other site 1090974004578 catalytic residue [active] 1090974004579 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1090974004580 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; cl15381 1090974004581 Carbohydrate binding domain X2; Region: CBM_X2; pfam03442 1090974004582 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 1090974004583 active site 1090974004584 trimer interface [polypeptide binding]; other site 1090974004585 allosteric site; other site 1090974004586 active site lid [active] 1090974004587 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1090974004588 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1090974004589 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1090974004590 peptide binding site [polypeptide binding]; other site 1090974004591 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 1090974004592 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974004593 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1090974004594 Walker A/P-loop; other site 1090974004595 ATP binding site [chemical binding]; other site 1090974004596 Q-loop/lid; other site 1090974004597 ABC transporter signature motif; other site 1090974004598 Walker B; other site 1090974004599 D-loop; other site 1090974004600 H-loop/switch region; other site 1090974004601 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1090974004602 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1090974004603 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 1090974004604 active site turn [active] 1090974004605 phosphorylation site [posttranslational modification] 1090974004606 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1090974004607 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; cl00162 1090974004608 HPr interaction site; other site 1090974004609 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1090974004610 active site 1090974004611 phosphorylation site [posttranslational modification] 1090974004612 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1090974004613 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1090974004614 DNA-binding site [nucleotide binding]; DNA binding site 1090974004615 UTRA domain; Region: UTRA; cl01230 1090974004616 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1090974004617 active pocket/dimerization site; other site 1090974004618 active site 1090974004619 phosphorylation site [posttranslational modification] 1090974004620 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1090974004621 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 1090974004622 PTS_IIB, PTS system, Mannose/sorbose 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_man; cd00001 1090974004623 active site 1090974004624 phosphorylation site [posttranslational modification] 1090974004625 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 1090974004626 Beta-galactosidase; Region: Glyco_hydro_42; cl03154 1090974004627 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 1090974004628 putative sugar isomerase, AgaS family; Region: agaS_fam; TIGR02815 1090974004629 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 1090974004630 dimer interface [polypeptide binding]; other site 1090974004631 active site 1090974004632 AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases; Region: SIS_AgaS_like; cd05010 1090974004633 putative active site [active] 1090974004634 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1090974004635 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1090974004636 DNA-binding site [nucleotide binding]; DNA binding site 1090974004637 UTRA domain; Region: UTRA; cl01230 1090974004638 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 1090974004639 dimer interface [polypeptide binding]; other site 1090974004640 conserved gate region; other site 1090974004641 putative PBP binding loops; other site 1090974004642 ABC-ATPase subunit interface; other site 1090974004643 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1090974004644 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 1090974004645 dimer interface [polypeptide binding]; other site 1090974004646 conserved gate region; other site 1090974004647 putative PBP binding loops; other site 1090974004648 ABC-ATPase subunit interface; other site 1090974004649 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 1090974004650 Glycosyl Hydrolase Family 88; Region: Glyco_hydro_88; pfam07470 1090974004651 Uncharacterized protein conserved in bacteria (DUF2264); Region: DUF2264; cl01752 1090974004652 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1090974004653 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1090974004654 DNA binding site [nucleotide binding] 1090974004655 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 1090974004656 putative ligand binding site [chemical binding]; other site 1090974004657 putative dimerization interface [polypeptide binding]; other site 1090974004658 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 1090974004659 Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); Region: GRDB; cl06409 1090974004660 potential frameshift: common BLAST hit: gi|332685909|ref|YP_004455683.1| D-proline reductase, 45 kDa subunit/ D-proline reductase, 23 kDa 1090974004661 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 1090974004662 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 1090974004663 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 1090974004664 Predicted NADH:ubiquinone oxidoreductase, subunit RnfC [Energy production and conversion]; Region: RnfC; COG4656 1090974004665 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 1090974004666 Glycine/sarcosine/betaine reductase component B subunits; Region: Gly_reductase; pfam09338 1090974004667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974004668 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1090974004669 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1090974004670 PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N; Region: PTS_IIB_chitobiose_lichenan; cd05564 1090974004671 active site 1090974004672 P-loop; other site 1090974004673 phosphorylation site [posttranslational modification] 1090974004674 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 1090974004675 active site 1090974004676 dimer interface [polypeptide binding]; other site 1090974004677 catalytic nucleophile [active] 1090974004678 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1090974004679 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 1090974004680 active site 1090974004681 metal binding site [ion binding]; metal-binding site 1090974004682 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1090974004683 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 1090974004684 putative dimer interface [polypeptide binding]; other site 1090974004685 putative anticodon binding site; other site 1090974004686 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 1090974004687 homodimer interface [polypeptide binding]; other site 1090974004688 motif 1; other site 1090974004689 motif 2; other site 1090974004690 active site 1090974004691 motif 3; other site 1090974004692 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 1090974004693 GI:332685893; xylulose kinase 1090974004694 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 1090974004695 Helix-turn-helix domains; Region: HTH; cl00088 1090974004696 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1090974004697 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1090974004698 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1090974004699 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974004700 Walker A/P-loop; other site 1090974004701 ATP binding site [chemical binding]; other site 1090974004702 Q-loop/lid; other site 1090974004703 ABC transporter signature motif; other site 1090974004704 Walker B; other site 1090974004705 D-loop; other site 1090974004706 H-loop/switch region; other site 1090974004707 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 1090974004708 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 1090974004709 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 1090974004710 putative substrate binding site [chemical binding]; other site 1090974004711 putative ATP binding site [chemical binding]; other site 1090974004712 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 1090974004713 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 1090974004714 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1090974004715 Helix-turn-helix domains; Region: HTH; cl00088 1090974004716 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 1090974004717 GI:332685883; integral membrane protein 1090974004718 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1090974004719 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 1090974004720 Walker A/P-loop; other site 1090974004721 ATP binding site [chemical binding]; other site 1090974004722 Q-loop/lid; other site 1090974004723 ABC transporter signature motif; other site 1090974004724 Walker B; other site 1090974004725 D-loop; other site 1090974004726 H-loop/switch region; other site 1090974004727 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1090974004728 GI:332685880; dipeptidase 1090974004729 MgtC family; Region: MgtC; pfam02308 1090974004730 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 1090974004731 active site 1090974004732 catalytic triad [active] 1090974004733 oxyanion hole [active] 1090974004734 N-terminal catalytic domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_N; cd10320 1090974004735 active site 1090974004736 catalytic site [active] 1090974004737 Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_M; cd10316 1090974004738 C-terminal domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase; Region: RGL4_C; cd10317 1090974004739 Ca binding site [ion binding]; other site 1090974004740 substrate binding site [chemical binding]; other site 1090974004741 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 1090974004742 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1090974004743 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1090974004744 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1090974004745 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 1090974004746 Walker A/P-loop; other site 1090974004747 ATP binding site [chemical binding]; other site 1090974004748 Q-loop/lid; other site 1090974004749 ABC transporter signature motif; other site 1090974004750 Walker B; other site 1090974004751 D-loop; other site 1090974004752 H-loop/switch region; other site 1090974004753 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1090974004754 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1090974004755 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974004756 Walker A/P-loop; other site 1090974004757 ATP binding site [chemical binding]; other site 1090974004758 Q-loop/lid; other site 1090974004759 ABC transporter signature motif; other site 1090974004760 Walker B; other site 1090974004761 D-loop; other site 1090974004762 H-loop/switch region; other site 1090974004763 Helix-turn-helix domains; Region: HTH; cl00088 1090974004764 transcriptional regulator SlyA; Provisional; Region: PRK03573 1090974004765 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 1090974004766 active site 1090974004767 tetramer interface [polypeptide binding]; other site 1090974004768 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1090974004769 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1090974004770 Nucleoside recognition; Region: Gate; cl00486 1090974004771 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1090974004772 Domain of unknown function (DUF718); Region: DUF718; cl01281 1090974004773 Response regulator containing CheY-like receiver domain and AraC-type DNA-binding domain [Signal transduction mechanisms]; Region: COG4753 1090974004774 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1090974004775 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 1090974004776 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1090974004777 active site 1090974004778 catalytic tetrad [active] 1090974004779 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; cl00162 1090974004780 HPr interaction site; other site 1090974004781 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1090974004782 active site 1090974004783 phosphorylation site [posttranslational modification] 1090974004784 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1090974004785 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 1090974004786 substrate binding site [chemical binding]; other site 1090974004787 dimer interface [polypeptide binding]; other site 1090974004788 ATP binding site [chemical binding]; other site 1090974004789 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1090974004790 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1090974004791 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 1090974004792 putative active site [active] 1090974004793 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 1090974004794 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 1090974004795 active site turn [active] 1090974004796 phosphorylation site [posttranslational modification] 1090974004797 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1090974004798 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 1090974004799 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 1090974004800 putative active site [active] 1090974004801 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 1090974004802 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 1090974004803 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 1090974004804 active site 1090974004805 P-loop; other site 1090974004806 phosphorylation site [posttranslational modification] 1090974004807 Helix-turn-helix domains; Region: HTH; cl00088 1090974004808 PRD domain; Region: PRD; cl15445 1090974004809 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1090974004810 active site 1090974004811 P-loop; other site 1090974004812 phosphorylation site [posttranslational modification] 1090974004813 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 1090974004814 active site 1090974004815 phosphorylation site [posttranslational modification] 1090974004816 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 1090974004817 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 1090974004818 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 1090974004819 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 1090974004820 protein binding site [polypeptide binding]; other site 1090974004821 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 1090974004822 Helix-turn-helix domains; Region: HTH; cl00088 1090974004823 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1090974004824 rod shape-determining protein MreC; Region: MreC; pfam04085 1090974004825 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1090974004826 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1090974004827 RNase E interface [polypeptide binding]; other site 1090974004828 trimer interface [polypeptide binding]; other site 1090974004829 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1090974004830 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1090974004831 RNase E interface [polypeptide binding]; other site 1090974004832 trimer interface [polypeptide binding]; other site 1090974004833 active site 1090974004834 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 1090974004835 putative nucleic acid binding region [nucleotide binding]; other site 1090974004836 G-X-X-G motif; other site 1090974004837 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 1090974004838 RNA binding site [nucleotide binding]; other site 1090974004839 domain interface; other site 1090974004840 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 1090974004841 16S/18S rRNA binding site [nucleotide binding]; other site 1090974004842 S13e-L30e interaction site [polypeptide binding]; other site 1090974004843 25S rRNA binding site [nucleotide binding]; other site 1090974004844 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 1090974004845 active site 1090974004846 catalytic residues [active] 1090974004847 metal binding site [ion binding]; metal-binding site 1090974004848 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 1090974004849 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1090974004850 active site 1090974004851 motif I; other site 1090974004852 motif II; other site 1090974004853 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 1090974004854 GI:332685836; formate/nitrite transporter family protein 1090974004855 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1090974004856 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1090974004857 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 1090974004858 RNA binding surface [nucleotide binding]; other site 1090974004859 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1090974004860 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 1090974004861 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 1090974004862 putative ligand binding residues [chemical binding]; other site 1090974004863 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1090974004864 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1090974004865 Walker A/P-loop; other site 1090974004866 ATP binding site [chemical binding]; other site 1090974004867 Q-loop/lid; other site 1090974004868 ABC transporter signature motif; other site 1090974004869 Walker B; other site 1090974004870 D-loop; other site 1090974004871 H-loop/switch region; other site 1090974004872 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1090974004873 ABC-ATPase subunit interface; other site 1090974004874 dimer interface [polypeptide binding]; other site 1090974004875 putative PBP binding regions; other site 1090974004876 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 1090974004877 ABC-ATPase subunit interface; other site 1090974004878 dimer interface [polypeptide binding]; other site 1090974004879 putative PBP binding regions; other site 1090974004880 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 1090974004881 GI:332685827; tRNA-dependent lipid II-Ala--L-alanine ligase 1090974004882 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1090974004883 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1090974004884 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1090974004885 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1090974004886 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 1090974004887 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 1090974004888 P loop; other site 1090974004889 GTP binding site [chemical binding]; other site 1090974004890 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 1090974004891 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1090974004892 active site 1090974004893 motif I; other site 1090974004894 motif II; other site 1090974004895 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 1090974004896 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1090974004897 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 1090974004898 Walker A/P-loop; other site 1090974004899 ATP binding site [chemical binding]; other site 1090974004900 Q-loop/lid; other site 1090974004901 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 1090974004902 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 1090974004903 ABC transporter signature motif; other site 1090974004904 Walker B; other site 1090974004905 D-loop; other site 1090974004906 H-loop/switch region; other site 1090974004907 ribonuclease III; Reviewed; Region: rnc; PRK00102 1090974004908 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 1090974004909 dimerization interface [polypeptide binding]; other site 1090974004910 active site 1090974004911 metal binding site [ion binding]; metal-binding site 1090974004912 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 1090974004913 dsRNA binding site [nucleotide binding]; other site 1090974004914 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1090974004915 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 1090974004916 Walker A motif; other site 1090974004917 ATP binding site [chemical binding]; other site 1090974004918 Walker B motif; other site 1090974004919 arginine finger; other site 1090974004920 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1090974004921 GI:332685820; Holliday junction DNA helicase RuvA 1090974004922 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 1090974004923 SelR domain; Region: SelR; pfam01641 1090974004924 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 1090974004925 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 1090974004926 ATP binding site [chemical binding]; other site 1090974004927 Mg2+ binding site [ion binding]; other site 1090974004928 G-X-G motif; other site 1090974004929 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 1090974004930 ATP binding site [chemical binding]; other site 1090974004931 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 1090974004932 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1090974004933 MutS domain I; Region: MutS_I; pfam01624 1090974004934 MutS domain II; Region: MutS_II; pfam05188 1090974004935 MutS family domain IV; Region: MutS_IV; pfam05190 1090974004936 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 1090974004937 Walker A/P-loop; other site 1090974004938 ATP binding site [chemical binding]; other site 1090974004939 Q-loop/lid; other site 1090974004940 ABC transporter signature motif; other site 1090974004941 Walker B; other site 1090974004942 D-loop; other site 1090974004943 H-loop/switch region; other site 1090974004944 Protein of unknown function (DUF964); Region: DUF964; cl01483 1090974004945 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1090974004946 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1090974004947 putative active site [active] 1090974004948 metal binding site [ion binding]; metal-binding site 1090974004949 homodimer binding site [polypeptide binding]; other site 1090974004950 phosphodiesterase; Provisional; Region: PRK12704 1090974004951 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1090974004952 recombinase A; Provisional; Region: recA; PRK09354 1090974004953 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 1090974004954 hexamer interface [polypeptide binding]; other site 1090974004955 Walker A motif; other site 1090974004956 ATP binding site [chemical binding]; other site 1090974004957 Walker B motif; other site 1090974004958 competence damage-inducible protein A; Provisional; Region: PRK00549 1090974004959 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 1090974004960 putative MPT binding site; other site 1090974004961 Competence-damaged protein; Region: CinA; cl00666 1090974004962 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1090974004963 Peptidase family U32; Region: Peptidase_U32; cl03113 1090974004964 Peptidase family U32; Region: Peptidase_U32; cl03113 1090974004965 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1090974004966 Clp amino terminal domain; Region: Clp_N; pfam02861 1090974004967 Clp amino terminal domain; Region: Clp_N; pfam02861 1090974004968 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 1090974004969 Walker A motif; other site 1090974004970 ATP binding site [chemical binding]; other site 1090974004971 Walker B motif; other site 1090974004972 arginine finger; other site 1090974004973 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 1090974004974 Walker A motif; other site 1090974004975 ATP binding site [chemical binding]; other site 1090974004976 Walker B motif; other site 1090974004977 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1090974004978 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 1090974004979 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1090974004980 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1090974004981 active site 1090974004982 phosphorylation site [posttranslational modification] 1090974004983 intermolecular recognition site; other site 1090974004984 dimerization interface [polypeptide binding]; other site 1090974004985 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 1090974004986 DNA binding site [nucleotide binding] 1090974004987 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1090974004988 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 1090974004989 dimer interface [polypeptide binding]; other site 1090974004990 phosphorylation site [posttranslational modification] 1090974004991 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 1090974004992 ATP binding site [chemical binding]; other site 1090974004993 Mg2+ binding site [ion binding]; other site 1090974004994 G-X-G motif; other site 1090974004995 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1090974004996 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 1090974004997 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 1090974004998 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 1090974004999 active site 1090974005000 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 1090974005001 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 1090974005002 GTP-binding protein YchF; Reviewed; Region: PRK09601 1090974005003 YchF GTPase; Region: YchF; cd01900 1090974005004 G1 box; other site 1090974005005 GTP/Mg2+ binding site [chemical binding]; other site 1090974005006 Switch I region; other site 1090974005007 G2 box; other site 1090974005008 Switch II region; other site 1090974005009 G3 box; other site 1090974005010 G4 box; other site 1090974005011 G5 box; other site 1090974005012 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 1090974005013 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 1090974005014 ParB-like partition proteins; Region: parB_part; TIGR00180 1090974005015 ParB-like nuclease domain; Region: ParBc; cl02129 1090974005016 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1090974005017 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974005018 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 1090974005019 Magnesium ion binding site [ion binding]; other site 1090974005020 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; cl16911 1090974005021 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1090974005022 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 1090974005023 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1090974005024 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1090974005025 Nucleoside recognition; Region: Gate; cl00486 1090974005026 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1090974005027 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 1090974005028 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1090974005029 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1090974005030 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 1090974005031 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1090974005032 Helix-turn-helix domains; Region: HTH; cl00088 1090974005033 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1090974005034 Sulfatase; Region: Sulfatase; cl10460 1090974005035 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1090974005036 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1090974005037 intersubunit interface [polypeptide binding]; other site 1090974005038 active site 1090974005039 catalytic residue [active] 1090974005040 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1090974005041 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 1090974005042 active site 1090974005043 catalytic residue [active] 1090974005044 dimer interface [polypeptide binding]; other site 1090974005045 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1090974005046 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1090974005047 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1090974005048 Walker A/P-loop; other site 1090974005049 ATP binding site [chemical binding]; other site 1090974005050 Q-loop/lid; other site 1090974005051 ABC transporter signature motif; other site 1090974005052 Walker B; other site 1090974005053 D-loop; other site 1090974005054 H-loop/switch region; other site 1090974005055 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 1090974005056 DNA binding site [nucleotide binding] 1090974005057 active site 1090974005058 Int/Topo IB signature motif; other site 1090974005059 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1090974005060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1090974005061 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1090974005062 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1090974005063 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1090974005064 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1090974005065 G1 box; other site 1090974005066 GTP/Mg2+ binding site [chemical binding]; other site 1090974005067 Switch I region; other site 1090974005068 G2 box; other site 1090974005069 Switch II region; other site 1090974005070 G3 box; other site 1090974005071 G4 box; other site 1090974005072 G5 box; other site 1090974005073 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1090974005074 potential frameshift: common BLAST hit: gi|332687271|ref|YP_004457045.1| cell wall-associated protease 1090974005075 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1090974005076 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 1090974005077 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1090974005078 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 1090974005079 G-X-X-G motif; other site 1090974005080 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 1090974005081 RxxxH motif; other site 1090974005082 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1090974005083 Ribonuclease P; Region: Ribonuclease_P; cl00457 1090974005084 Ribosomal protein L34; Region: Ribosomal_L34; cl00370