-- dump date 20120504_163121 -- class Genbank::misc_feature -- table misc_feature_note -- id note 299768000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 299768000002 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 299768000003 Walker A motif; other site 299768000004 ATP binding site [chemical binding]; other site 299768000005 Walker B motif; other site 299768000006 arginine finger; other site 299768000007 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 299768000008 DnaA box-binding interface [nucleotide binding]; other site 299768000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 299768000010 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 299768000011 putative DNA binding surface [nucleotide binding]; other site 299768000012 dimer interface [polypeptide binding]; other site 299768000013 beta-clamp/clamp loader binding surface; other site 299768000014 beta-clamp/translesion DNA polymerase binding surface; other site 299768000015 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 299768000016 GTP-binding protein YchF; Reviewed; Region: PRK09601 299768000017 YchF GTPase; Region: YchF; cd01900 299768000018 G1 box; other site 299768000019 GTP/Mg2+ binding site [chemical binding]; other site 299768000020 Switch I region; other site 299768000021 G2 box; other site 299768000022 Switch II region; other site 299768000023 G3 box; other site 299768000024 G4 box; other site 299768000025 G5 box; other site 299768000026 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 299768000027 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 299768000028 putative active site [active] 299768000029 catalytic residue [active] 299768000030 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 299768000031 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 299768000032 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 299768000033 ATP binding site [chemical binding]; other site 299768000034 putative Mg++ binding site [ion binding]; other site 299768000035 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 299768000036 nucleotide binding region [chemical binding]; other site 299768000037 ATP-binding site [chemical binding]; other site 299768000038 TRCF domain; Region: TRCF; cl04088 299768000039 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 299768000040 Septum formation initiator; Region: DivIC; cl11433 299768000041 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 299768000042 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 299768000043 Ligand Binding Site [chemical binding]; other site 299768000044 B3/4 domain; Region: B3_4; cl11458 299768000045 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 299768000046 active site 299768000047 FtsH Extracellular; Region: FtsH_ext; pfam06480 299768000048 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 299768000049 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 299768000050 Walker A motif; other site 299768000051 ATP binding site [chemical binding]; other site 299768000052 Walker B motif; other site 299768000053 arginine finger; other site 299768000054 Peptidase family M41; Region: Peptidase_M41; pfam01434 299768000055 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768000056 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768000057 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 299768000058 Helix-turn-helix domains; Region: HTH; cl00088 299768000059 HTH-like domain; Region: HTH_21; pfam13276 299768000060 Integrase core domain; Region: rve; cl01316 299768000061 Integrase core domain; Region: rve_3; cl15866 299768000062 rod shape-determining protein MreC; Provisional; Region: PRK13922 299768000063 rod shape-determining protein MreC; Region: MreC; pfam04085 299768000064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 299768000065 Septum formation initiator; Region: DivIC; cl11433 299768000066 NlpC/P60 family; Region: NLPC_P60; cl11438 299768000067 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 299768000068 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 299768000069 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 299768000070 active site 299768000071 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768000072 aromatic amino acid aminotransferase; Validated; Region: PRK07309 299768000073 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 299768000074 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768000075 homodimer interface [polypeptide binding]; other site 299768000076 catalytic residue [active] 299768000077 Recombination protein O N terminal; Region: RecO_N; cl15812 299768000078 DNA repair protein RecO; Region: reco; TIGR00613 299768000079 Recombination protein O C terminal; Region: RecO_C; pfam02565 299768000080 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 299768000081 Phosphopantetheine attachment site; Region: PP-binding; cl09936 299768000082 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 299768000083 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 299768000084 ATP binding site [chemical binding]; other site 299768000085 active site 299768000086 substrate binding site [chemical binding]; other site 299768000087 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 299768000088 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 299768000089 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 299768000090 dimerization interface [polypeptide binding]; other site 299768000091 ATP binding site [chemical binding]; other site 299768000092 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 299768000093 dimerization interface [polypeptide binding]; other site 299768000094 ATP binding site [chemical binding]; other site 299768000095 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 299768000096 putative active site [active] 299768000097 catalytic triad [active] 299768000098 amidophosphoribosyltransferase; Provisional; Region: PRK07272 299768000099 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 299768000100 active site 299768000101 tetramer interface [polypeptide binding]; other site 299768000102 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 299768000103 active site 299768000104 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 299768000105 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 299768000106 dimerization interface [polypeptide binding]; other site 299768000107 putative ATP binding site [chemical binding]; other site 299768000108 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 299768000109 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 299768000110 active site 299768000111 substrate binding site [chemical binding]; other site 299768000112 cosubstrate binding site; other site 299768000113 catalytic site [active] 299768000114 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 299768000115 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 299768000116 purine monophosphate binding site [chemical binding]; other site 299768000117 dimer interface [polypeptide binding]; other site 299768000118 putative catalytic residues [active] 299768000119 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 299768000120 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 299768000121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 299768000122 HTH-like domain; Region: HTH_21; pfam13276 299768000123 Integrase core domain; Region: rve_3; cl15866 299768000124 NlpC/P60 family; Region: NLPC_P60; cl11438 299768000125 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 299768000126 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 299768000127 ATP-grasp domain; Region: ATP-grasp_4; cl03087 299768000128 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 299768000129 AIR carboxylase; Region: AIRC; cl00310 299768000130 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 299768000131 ATP-grasp domain; Region: ATP-grasp_4; cl03087 299768000132 adenylosuccinate lyase; Provisional; Region: PRK07492 299768000133 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 299768000134 tetramer interface [polypeptide binding]; other site 299768000135 active site 299768000136 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 299768000137 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 299768000138 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 299768000139 active site 299768000140 HIGH motif; other site 299768000141 KMSK motif region; other site 299768000142 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 299768000143 tRNA binding surface [nucleotide binding]; other site 299768000144 anticodon binding site; other site 299768000145 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 299768000146 arginine repressor; Region: argR_whole; TIGR01529 299768000147 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 299768000148 Protein of unknown function (DUF964); Region: DUF964; cl01483 299768000149 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 299768000150 MutS domain I; Region: MutS_I; pfam01624 299768000151 MutS domain II; Region: MutS_II; pfam05188 299768000152 MutS family domain IV; Region: MutS_IV; pfam05190 299768000153 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 299768000154 Walker A/P-loop; other site 299768000155 ATP binding site [chemical binding]; other site 299768000156 Q-loop/lid; other site 299768000157 ABC transporter signature motif; other site 299768000158 Walker B; other site 299768000159 D-loop; other site 299768000160 H-loop/switch region; other site 299768000161 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 299768000162 LytTr DNA-binding domain; Region: LytTR; cl04498 299768000163 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 299768000164 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 299768000165 ATP binding site [chemical binding]; other site 299768000166 Mg2+ binding site [ion binding]; other site 299768000167 G-X-G motif; other site 299768000168 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 299768000169 ATP binding site [chemical binding]; other site 299768000170 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 299768000171 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 299768000172 RuvA N terminal domain; Region: RuvA_N; pfam01330 299768000173 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 299768000174 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 299768000175 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 299768000176 competence damage-inducible protein A; Provisional; Region: PRK00549 299768000177 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 299768000178 putative MPT binding site; other site 299768000179 Competence-damaged protein; Region: CinA; cl00666 299768000180 recombinase A; Provisional; Region: recA; PRK09354 299768000181 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 299768000182 hexamer interface [polypeptide binding]; other site 299768000183 Walker A motif; other site 299768000184 ATP binding site [chemical binding]; other site 299768000185 Walker B motif; other site 299768000186 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 299768000187 ArsC family; Region: ArsC; pfam03960 299768000188 putative catalytic residues [active] 299768000189 thiol/disulfide switch; other site 299768000190 DNA polymerase III PolC; Validated; Region: polC; PRK00448 299768000191 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 299768000192 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 299768000193 generic binding surface II; other site 299768000194 generic binding surface I; other site 299768000195 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 299768000196 active site 299768000197 substrate binding site [chemical binding]; other site 299768000198 catalytic site [active] 299768000199 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 299768000200 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 299768000201 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 299768000202 Helix-turn-helix domains; Region: HTH; cl00088 299768000203 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 299768000204 Integrase core domain; Region: rve; cl01316 299768000205 Integrase core domain; Region: rve_3; cl15866 299768000206 HTH-like domain; Region: HTH_21; pfam13276 299768000207 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cl00700 299768000208 dimer interface [polypeptide binding]; other site 299768000209 catalytic triad [active] 299768000210 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cl00700 299768000211 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 299768000212 rRNA interaction site [nucleotide binding]; other site 299768000213 S8 interaction site; other site 299768000214 putative laminin-1 binding site; other site 299768000215 elongation factor Ts; Provisional; Region: tsf; PRK09377 299768000216 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 299768000217 Elongation factor TS; Region: EF_TS; pfam00889 299768000218 Elongation factor TS; Region: EF_TS; pfam00889 299768000219 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 299768000220 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 299768000221 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 299768000222 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 299768000223 Walker A motif; other site 299768000224 ATP binding site [chemical binding]; other site 299768000225 Walker B motif; other site 299768000226 arginine finger; other site 299768000227 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 299768000228 Walker A motif; other site 299768000229 ATP binding site [chemical binding]; other site 299768000230 Walker B motif; other site 299768000231 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 299768000232 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 299768000233 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 299768000234 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 299768000235 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 299768000236 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 299768000237 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 299768000238 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 299768000239 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 299768000240 RNase E interface [polypeptide binding]; other site 299768000241 trimer interface [polypeptide binding]; other site 299768000242 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 299768000243 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 299768000244 RNase E interface [polypeptide binding]; other site 299768000245 trimer interface [polypeptide binding]; other site 299768000246 active site 299768000247 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 299768000248 putative nucleic acid binding region [nucleotide binding]; other site 299768000249 G-X-X-G motif; other site 299768000250 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 299768000251 RNA binding site [nucleotide binding]; other site 299768000252 domain interface; other site 299768000253 serine acetyltransferase; Region: PLN02739 299768000254 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 299768000255 trimer interface [polypeptide binding]; other site 299768000256 active site 299768000257 substrate binding site [chemical binding]; other site 299768000258 CoA binding site [chemical binding]; other site 299768000259 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 299768000260 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 299768000261 active site 299768000262 HIGH motif; other site 299768000263 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 299768000264 KMSKS motif; other site 299768000265 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 299768000266 tRNA binding surface [nucleotide binding]; other site 299768000267 anticodon binding site; other site 299768000268 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 299768000269 active site 299768000270 metal binding site [ion binding]; metal-binding site 299768000271 dimerization interface [polypeptide binding]; other site 299768000272 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 299768000273 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 299768000274 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 299768000275 YacP-like NYN domain; Region: NYN_YacP; cl01491 299768000276 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 299768000277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768000278 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 299768000279 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 299768000280 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 299768000281 23S rRNA interface [nucleotide binding]; other site 299768000282 L3 interface [polypeptide binding]; other site 299768000283 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 299768000284 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 299768000285 DNA binding site [nucleotide binding] 299768000286 active site 299768000287 Int/Topo IB signature motif; other site 299768000288 catalytic residues [active] 299768000289 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 299768000290 Catalytic site [active] 299768000291 Lantibiotic dehydratase, C terminus; Region: Lant_dehyd_C; pfam04738 299768000292 SpaB C-terminal domain; Region: SpaB_C; cl14828 299768000293 LanC is the cyclase enzyme of the lanthionine synthetase. Lanthinoine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as precursor peptides and then post-translationally modified to contain thioether cross-links...; Region: LanC; cd04793 299768000294 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 299768000295 active site 299768000296 zinc binding site [ion binding]; other site 299768000297 H+ Antiporter protein; Region: 2A0121; TIGR00900 299768000298 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 299768000299 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 299768000300 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 299768000301 Helix-turn-helix domains; Region: HTH; cl00088 299768000302 Integrase core domain; Region: rve; cl01316 299768000303 Surface antigen [General function prediction only]; Region: COG3942 299768000304 NlpC/P60 family; Region: NLPC_P60; cl11438 299768000305 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 299768000306 Integrase core domain; Region: rve; cl01316 299768000307 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 299768000308 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 299768000309 putative active site [active] 299768000310 putative metal binding site [ion binding]; other site 299768000311 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 299768000312 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 299768000313 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 299768000314 catalytic core [active] 299768000315 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 299768000316 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 299768000317 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 299768000318 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 299768000319 Helix-turn-helix domains; Region: HTH; cl00088 299768000320 HrcA protein C terminal domain; Region: HrcA; pfam01628 299768000321 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 299768000322 dimer interface [polypeptide binding]; other site 299768000323 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 299768000324 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 299768000325 chaperone protein DnaJ; Provisional; Region: PRK14276 299768000326 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 299768000327 HSP70 interaction site [polypeptide binding]; other site 299768000328 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 299768000329 substrate binding site [polypeptide binding]; other site 299768000330 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 299768000331 Zn binding sites [ion binding]; other site 299768000332 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 299768000333 dimer interface [polypeptide binding]; other site 299768000334 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 299768000335 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 299768000336 dimerization interface 3.5A [polypeptide binding]; other site 299768000337 active site 299768000338 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 299768000339 substrate binding site [chemical binding]; other site 299768000340 dimer interface [polypeptide binding]; other site 299768000341 ATP binding site [chemical binding]; other site 299768000342 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 299768000343 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 299768000344 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 299768000345 peptide binding site [polypeptide binding]; other site 299768000346 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768000347 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 299768000348 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 299768000349 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 299768000350 S-adenosylmethionine binding site [chemical binding]; other site 299768000351 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 299768000352 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 299768000353 Mechanosensitive ion channel; Region: MS_channel; pfam00924 299768000354 trigger factor; Provisional; Region: tig; PRK01490 299768000355 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 299768000356 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 299768000357 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 299768000358 CTP synthetase; Validated; Region: pyrG; PRK05380 299768000359 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 299768000360 Catalytic site [active] 299768000361 active site 299768000362 UTP binding site [chemical binding]; other site 299768000363 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 299768000364 active site 299768000365 putative oxyanion hole; other site 299768000366 catalytic triad [active] 299768000367 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 299768000368 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_23; cd04682 299768000369 nudix motif; other site 299768000370 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 299768000371 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 299768000372 S-adenosylmethionine binding site [chemical binding]; other site 299768000373 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 299768000374 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 299768000375 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 299768000376 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 299768000377 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 299768000378 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK11907 299768000379 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 299768000380 Gram positive anchor; Region: Gram_pos_anchor; cl15427 299768000381 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 299768000382 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 299768000383 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 299768000384 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 299768000385 synthetase active site [active] 299768000386 NTP binding site [chemical binding]; other site 299768000387 metal binding site [ion binding]; metal-binding site 299768000388 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 299768000389 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 299768000390 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 299768000391 putative active site [active] 299768000392 dimerization interface [polypeptide binding]; other site 299768000393 putative tRNAtyr binding site [nucleotide binding]; other site 299768000394 Glycosyl hydrolase family 66; Region: Glyco_hydro_66; pfam13199 299768000395 Glycosyl hydrolase family 66; Region: Glyco_hydro_66; pfam13199 299768000396 threonine dehydratase; Validated; Region: PRK08639 299768000397 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 299768000398 tetramer interface [polypeptide binding]; other site 299768000399 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768000400 catalytic residue [active] 299768000401 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 299768000402 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 299768000403 active site 299768000404 catalytic residues [active] 299768000405 metal binding site [ion binding]; metal-binding site 299768000406 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 299768000407 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 299768000408 ligand binding site [chemical binding]; other site 299768000409 flexible hinge region; other site 299768000410 Helix-turn-helix domains; Region: HTH; cl00088 299768000411 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 299768000412 Major Facilitator Superfamily; Region: MFS_1; pfam07690 299768000413 putative substrate translocation pore; other site 299768000414 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 299768000415 16S/18S rRNA binding site [nucleotide binding]; other site 299768000416 S13e-L30e interaction site [polypeptide binding]; other site 299768000417 25S rRNA binding site [nucleotide binding]; other site 299768000418 VanZ like family; Region: VanZ; cl01971 299768000419 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 299768000420 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768000421 Walker A/P-loop; other site 299768000422 ATP binding site [chemical binding]; other site 299768000423 Q-loop/lid; other site 299768000424 ABC transporter signature motif; other site 299768000425 Walker B; other site 299768000426 D-loop; other site 299768000427 H-loop/switch region; other site 299768000428 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 299768000429 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 299768000430 substrate binding pocket [chemical binding]; other site 299768000431 membrane-bound complex binding site; other site 299768000432 hinge residues; other site 299768000433 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 299768000434 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 299768000435 dimer interface [polypeptide binding]; other site 299768000436 conserved gate region; other site 299768000437 putative PBP binding loops; other site 299768000438 ABC-ATPase subunit interface; other site 299768000439 Bacitracin resistance protein BacA; Region: BacA; cl00858 299768000440 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 299768000441 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 299768000442 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 299768000443 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 299768000444 Mg++ binding site [ion binding]; other site 299768000445 putative catalytic motif [active] 299768000446 substrate binding site [chemical binding]; other site 299768000447 FeS assembly ATPase SufC; Region: sufC; TIGR01978 299768000448 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 299768000449 Walker A/P-loop; other site 299768000450 ATP binding site [chemical binding]; other site 299768000451 Q-loop/lid; other site 299768000452 ABC transporter signature motif; other site 299768000453 Walker B; other site 299768000454 D-loop; other site 299768000455 H-loop/switch region; other site 299768000456 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 299768000457 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 299768000458 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 299768000459 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 299768000460 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 299768000461 catalytic residue [active] 299768000462 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 299768000463 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 299768000464 trimerization site [polypeptide binding]; other site 299768000465 active site 299768000466 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 299768000467 FeS assembly protein SufB; Region: sufB; TIGR01980 299768000468 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 299768000469 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 299768000470 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 299768000471 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 299768000472 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 299768000473 putative PBP binding loops; other site 299768000474 dimer interface [polypeptide binding]; other site 299768000475 ABC-ATPase subunit interface; other site 299768000476 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768000477 Walker A/P-loop; other site 299768000478 ATP binding site [chemical binding]; other site 299768000479 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768000480 Q-loop/lid; other site 299768000481 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 299768000482 ABC transporter signature motif; other site 299768000483 Walker B; other site 299768000484 D-loop; other site 299768000485 H-loop/switch region; other site 299768000486 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 299768000487 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 299768000488 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 299768000489 Walker A/P-loop; other site 299768000490 ATP binding site [chemical binding]; other site 299768000491 Q-loop/lid; other site 299768000492 ABC transporter signature motif; other site 299768000493 Walker B; other site 299768000494 D-loop; other site 299768000495 H-loop/switch region; other site 299768000496 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 299768000497 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 299768000498 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 299768000499 dimerization interface [polypeptide binding]; other site 299768000500 domain crossover interface; other site 299768000501 redox-dependent activation switch; other site 299768000502 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 299768000503 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 299768000504 FMN binding site [chemical binding]; other site 299768000505 active site 299768000506 catalytic residues [active] 299768000507 substrate binding site [chemical binding]; other site 299768000508 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 299768000509 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 299768000510 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 299768000511 active site 299768000512 ATP binding site [chemical binding]; other site 299768000513 substrate binding site [chemical binding]; other site 299768000514 activation loop (A-loop); other site 299768000515 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 299768000516 active site 299768000517 zinc binding site [ion binding]; other site 299768000518 H+ Antiporter protein; Region: 2A0121; TIGR00900 299768000519 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 299768000520 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 299768000521 putative DNA binding site [nucleotide binding]; other site 299768000522 putative Zn2+ binding site [ion binding]; other site 299768000523 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 299768000524 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 299768000525 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 299768000526 ABC-ATPase subunit interface; other site 299768000527 dimer interface [polypeptide binding]; other site 299768000528 putative PBP binding regions; other site 299768000529 Membrane transport protein; Region: Mem_trans; cl09117 299768000530 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 299768000531 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 299768000532 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 299768000533 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; cl00164 299768000534 active site turn [active] 299768000535 phosphorylation site [posttranslational modification] 299768000536 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 299768000537 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 299768000538 HPr interaction site; other site 299768000539 glycerol kinase (GK) interaction site [polypeptide binding]; other site 299768000540 active site 299768000541 phosphorylation site [posttranslational modification] 299768000542 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 299768000543 putative catalytic site [active] 299768000544 putative metal binding site [ion binding]; other site 299768000545 putative phosphate binding site [ion binding]; other site 299768000546 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 299768000547 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 299768000548 active site 299768000549 dimer interface [polypeptide binding]; other site 299768000550 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 299768000551 dimer interface [polypeptide binding]; other site 299768000552 active site 299768000553 Transcriptional regulator; Region: Transcrip_reg; cl00361 299768000554 Preprotein translocase subunit; Region: YajC; cl00806 299768000555 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 299768000556 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 299768000557 catalytic residue [active] 299768000558 putative FPP diphosphate binding site; other site 299768000559 putative FPP binding hydrophobic cleft; other site 299768000560 dimer interface [polypeptide binding]; other site 299768000561 putative IPP diphosphate binding site; other site 299768000562 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 299768000563 RIP metalloprotease RseP; Region: TIGR00054 299768000564 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 299768000565 active site 299768000566 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 299768000567 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 299768000568 protein binding site [polypeptide binding]; other site 299768000569 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 299768000570 putative substrate binding region [chemical binding]; other site 299768000571 prolyl-tRNA synthetase; Provisional; Region: PRK09194 299768000572 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 299768000573 dimer interface [polypeptide binding]; other site 299768000574 motif 1; other site 299768000575 active site 299768000576 motif 2; other site 299768000577 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 299768000578 putative deacylase active site [active] 299768000579 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 299768000580 active site 299768000581 motif 3; other site 299768000582 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 299768000583 anticodon binding site; other site 299768000584 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 299768000585 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 299768000586 zinc binding site [ion binding]; other site 299768000587 putative ligand binding site [chemical binding]; other site 299768000588 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 299768000589 TM-ABC transporter signature motif; other site 299768000590 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 299768000591 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768000592 Walker A/P-loop; other site 299768000593 ATP binding site [chemical binding]; other site 299768000594 Q-loop/lid; other site 299768000595 ABC transporter signature motif; other site 299768000596 Walker B; other site 299768000597 D-loop; other site 299768000598 H-loop/switch region; other site 299768000599 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 299768000600 oligomerisation interface [polypeptide binding]; other site 299768000601 mobile loop; other site 299768000602 roof hairpin; other site 299768000603 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 299768000604 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 299768000605 ring oligomerisation interface [polypeptide binding]; other site 299768000606 ATP/Mg binding site [chemical binding]; other site 299768000607 stacking interactions; other site 299768000608 hinge regions; other site 299768000609 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 299768000610 Helix-turn-helix domains; Region: HTH; cl00088 299768000611 Helix-turn-helix domains; Region: HTH; cl00088 299768000612 HTH-like domain; Region: HTH_21; pfam13276 299768000613 Integrase core domain; Region: rve_3; cl15866 299768000614 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 299768000615 TM2 domain; Region: TM2; cl00984 299768000616 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 299768000617 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 299768000618 active site 299768000619 Transglycosylase; Region: Transgly; cl07896 299768000620 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 299768000621 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 299768000622 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 299768000623 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 299768000624 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 299768000625 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 299768000626 putative homodimer interface [polypeptide binding]; other site 299768000627 KOW motif; Region: KOW; cl00354 299768000628 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 299768000629 active site 299768000630 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 299768000631 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 299768000632 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 299768000633 Helix-turn-helix domains; Region: HTH; cl00088 299768000634 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 299768000635 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 299768000636 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 299768000637 HIGH motif; other site 299768000638 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 299768000639 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 299768000640 active site 299768000641 KMSKS motif; other site 299768000642 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 299768000643 tRNA binding surface [nucleotide binding]; other site 299768000644 Helix-turn-helix domains; Region: HTH; cl00088 299768000645 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 299768000646 Helix-turn-helix domains; Region: HTH; cl00088 299768000647 Integrase core domain; Region: rve; cl01316 299768000648 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 299768000649 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 299768000650 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 299768000651 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 299768000652 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 299768000653 active site 299768000654 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 299768000655 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 299768000656 homodimer interface [polypeptide binding]; other site 299768000657 NAD binding pocket [chemical binding]; other site 299768000658 ATP binding pocket [chemical binding]; other site 299768000659 Mg binding site [ion binding]; other site 299768000660 active-site loop [active] 299768000661 Protein of unknown function (DUF805); Region: DUF805; cl01224 299768000662 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 299768000663 trimer interface [polypeptide binding]; other site 299768000664 active site 299768000665 G bulge; other site 299768000666 Transglycosylase; Region: Transgly; cl07896 299768000667 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 299768000668 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 299768000669 Recombination protein U; Region: RecU; cl01314 299768000670 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 299768000671 cell division protein GpsB; Provisional; Region: PRK14127 299768000672 DivIVA domain; Region: DivI1A_domain; TIGR03544 299768000673 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 299768000674 THUMP domain; Region: THUMP; cl12076 299768000675 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768000676 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 299768000677 Helix-turn-helix domains; Region: HTH; cl00088 299768000678 Integrase core domain; Region: rve; cl01316 299768000679 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 299768000680 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 299768000681 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 299768000682 ATP binding site [chemical binding]; other site 299768000683 putative Mg++ binding site [ion binding]; other site 299768000684 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 299768000685 nucleotide binding region [chemical binding]; other site 299768000686 ATP-binding site [chemical binding]; other site 299768000687 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 299768000688 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 299768000689 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 299768000690 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 299768000691 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 299768000692 Coenzyme A binding pocket [chemical binding]; other site 299768000693 YceG-like family; Region: YceG; pfam02618 299768000694 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 299768000695 dimerization interface [polypeptide binding]; other site 299768000696 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 299768000697 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 299768000698 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 299768000699 Integrase core domain; Region: rve; cl01316 299768000700 Integrase core domain; Region: rve_3; cl15866 299768000701 OxaA-like protein precursor; Provisional; Region: PRK02463 299768000702 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 299768000703 Acylphosphatase; Region: Acylphosphatase; cl00551 299768000704 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 299768000705 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 299768000706 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 299768000707 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 299768000708 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 299768000709 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 299768000710 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 299768000711 active site 299768000712 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 299768000713 substrate binding site [chemical binding]; other site 299768000714 catalytic residues [active] 299768000715 dimer interface [polypeptide binding]; other site 299768000716 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 299768000717 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 299768000718 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 299768000719 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 299768000720 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 299768000721 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 299768000722 active site 299768000723 dimerization interface [polypeptide binding]; other site 299768000724 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 299768000725 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 299768000726 active site 299768000727 metal binding site [ion binding]; metal-binding site 299768000728 homotetramer interface [polypeptide binding]; other site 299768000729 FOG: CBS domain [General function prediction only]; Region: COG0517 299768000730 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 299768000731 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 299768000732 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 299768000733 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 299768000734 DNA binding site [nucleotide binding] 299768000735 Int/Topo IB signature motif; other site 299768000736 active site 299768000737 catalytic residues [active] 299768000738 ScpA/B protein; Region: ScpA_ScpB; cl00598 299768000739 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 299768000740 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 299768000741 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 299768000742 RNA binding surface [nucleotide binding]; other site 299768000743 Pseudouridine synthases are responsible for the synthesis of pseudouridine from uracil in ribosomal RNA. The RsuA subfamily includes Pseudouridine Synthase similar to Ribosomal small subunit pseudouridine 516 synthase. Most of the proteins in this...; Region: PseudoU_synth_RsuA_like; cd02870 299768000744 active site 299768000745 Haemolytic domain; Region: Haemolytic; cl00506 299768000746 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 299768000747 Cation transport protein; Region: TrkH; cl10514 299768000748 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 299768000749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768000750 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 299768000751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768000752 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 299768000753 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 299768000754 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 299768000755 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 299768000756 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 299768000757 active site 299768000758 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 299768000759 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 299768000760 putative active site [active] 299768000761 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 299768000762 putative active site [active] 299768000763 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 299768000764 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 299768000765 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 299768000766 Walker A/P-loop; other site 299768000767 ATP binding site [chemical binding]; other site 299768000768 Q-loop/lid; other site 299768000769 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768000770 ABC transporter signature motif; other site 299768000771 Walker B; other site 299768000772 D-loop; other site 299768000773 H-loop/switch region; other site 299768000774 Protein of unknown function (DUF805); Region: DUF805; cl01224 299768000775 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 299768000776 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 299768000777 alpha-gamma subunit interface [polypeptide binding]; other site 299768000778 beta-gamma subunit interface [polypeptide binding]; other site 299768000779 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 299768000780 gamma-beta subunit interface [polypeptide binding]; other site 299768000781 alpha-beta subunit interface [polypeptide binding]; other site 299768000782 urease subunit alpha; Reviewed; Region: ureC; PRK13207 299768000783 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 299768000784 subunit interactions [polypeptide binding]; other site 299768000785 active site 299768000786 flap region; other site 299768000787 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 299768000788 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 299768000789 dimer interface [polypeptide binding]; other site 299768000790 catalytic residues [active] 299768000791 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 299768000792 UreF; Region: UreF; pfam01730 299768000793 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768000794 UreD urease accessory protein; Region: UreD; cl00530 299768000795 cobalt transport protein CbiM; Provisional; Region: PRK07331 299768000796 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 299768000797 PDGLE domain; Region: PDGLE; cl07986 299768000798 Cobalt transport protein; Region: CbiQ; cl00463 299768000799 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 299768000800 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 299768000801 Walker A/P-loop; other site 299768000802 ATP binding site [chemical binding]; other site 299768000803 Q-loop/lid; other site 299768000804 ABC transporter signature motif; other site 299768000805 Walker B; other site 299768000806 D-loop; other site 299768000807 H-loop/switch region; other site 299768000808 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 299768000809 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 299768000810 substrate binding pocket [chemical binding]; other site 299768000811 membrane-bound complex binding site; other site 299768000812 hinge residues; other site 299768000813 NMT1-like family; Region: NMT1_2; cl15260 299768000814 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 299768000815 metal binding site [ion binding]; metal-binding site 299768000816 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 299768000817 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 299768000818 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 299768000819 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 299768000820 Walker A/P-loop; other site 299768000821 ATP binding site [chemical binding]; other site 299768000822 Q-loop/lid; other site 299768000823 ABC transporter signature motif; other site 299768000824 Walker B; other site 299768000825 D-loop; other site 299768000826 H-loop/switch region; other site 299768000827 NIL domain; Region: NIL; cl09633 299768000828 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 299768000829 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 299768000830 Uncharacterized conserved protein [Function unknown]; Region: COG1912 299768000831 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 299768000832 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 299768000833 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 299768000834 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 299768000835 Walker A/P-loop; other site 299768000836 ATP binding site [chemical binding]; other site 299768000837 Q-loop/lid; other site 299768000838 ABC transporter signature motif; other site 299768000839 Walker B; other site 299768000840 D-loop; other site 299768000841 H-loop/switch region; other site 299768000842 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 299768000843 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 299768000844 Walker A/P-loop; other site 299768000845 ATP binding site [chemical binding]; other site 299768000846 Q-loop/lid; other site 299768000847 ABC transporter signature motif; other site 299768000848 Walker B; other site 299768000849 D-loop; other site 299768000850 H-loop/switch region; other site 299768000851 Cobalt transport protein; Region: CbiQ; cl00463 299768000852 transketolase; Reviewed; Region: PRK05899 299768000853 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 299768000854 TPP-binding site [chemical binding]; other site 299768000855 dimer interface [polypeptide binding]; other site 299768000856 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 299768000857 PYR/PP interface [polypeptide binding]; other site 299768000858 dimer interface [polypeptide binding]; other site 299768000859 TPP binding site [chemical binding]; other site 299768000860 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 299768000861 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 299768000862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768000863 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 299768000864 Cation transport protein; Region: TrkH; cl10514 299768000865 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 299768000866 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 299768000867 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 299768000868 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 299768000869 active site 299768000870 phosphorylation site [posttranslational modification] 299768000871 intermolecular recognition site; other site 299768000872 dimerization interface [polypeptide binding]; other site 299768000873 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 299768000874 DNA binding site [nucleotide binding] 299768000875 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 299768000876 dimerization interface [polypeptide binding]; other site 299768000877 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 299768000878 dimer interface [polypeptide binding]; other site 299768000879 phosphorylation site [posttranslational modification] 299768000880 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 299768000881 ATP binding site [chemical binding]; other site 299768000882 Mg2+ binding site [ion binding]; other site 299768000883 G-X-G motif; other site 299768000884 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 299768000885 ATP cone domain; Region: ATP-cone; pfam03477 299768000886 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 299768000887 primosomal protein DnaI; Reviewed; Region: PRK08939 299768000888 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 299768000889 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 299768000890 Walker A motif; other site 299768000891 ATP binding site [chemical binding]; other site 299768000892 Walker B motif; other site 299768000893 arginine finger; other site 299768000894 GTP-binding protein Der; Reviewed; Region: PRK00093 299768000895 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 299768000896 G1 box; other site 299768000897 GTP/Mg2+ binding site [chemical binding]; other site 299768000898 Switch I region; other site 299768000899 G2 box; other site 299768000900 Switch II region; other site 299768000901 G3 box; other site 299768000902 G4 box; other site 299768000903 G5 box; other site 299768000904 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 299768000905 G1 box; other site 299768000906 GTP/Mg2+ binding site [chemical binding]; other site 299768000907 Switch I region; other site 299768000908 G2 box; other site 299768000909 G3 box; other site 299768000910 Switch II region; other site 299768000911 G4 box; other site 299768000912 G5 box; other site 299768000913 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 299768000914 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 299768000915 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768000916 Walker A/P-loop; other site 299768000917 ATP binding site [chemical binding]; other site 299768000918 Q-loop/lid; other site 299768000919 ABC transporter signature motif; other site 299768000920 Walker B; other site 299768000921 D-loop; other site 299768000922 H-loop/switch region; other site 299768000923 Transposase, Mutator family; Region: Transposase_mut; pfam00872 299768000924 Transposase, Mutator family; Region: Transposase_mut; pfam00872 299768000925 MULE transposase domain; Region: MULE; pfam10551 299768000926 seryl-tRNA synthetase; Provisional; Region: PRK05431 299768000927 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 299768000928 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 299768000929 dimer interface [polypeptide binding]; other site 299768000930 active site 299768000931 motif 1; other site 299768000932 motif 2; other site 299768000933 motif 3; other site 299768000934 Domain of unknown function (DUF956); Region: DUF956; cl01917 299768000935 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 299768000936 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 299768000937 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 299768000938 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 299768000939 active pocket/dimerization site; other site 299768000940 active site 299768000941 phosphorylation site [posttranslational modification] 299768000942 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 299768000943 active site 299768000944 phosphorylation site [posttranslational modification] 299768000945 Putative cyclase; Region: Cyclase; cl00814 299768000946 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 299768000947 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 299768000948 active site 299768000949 motif I; other site 299768000950 motif II; other site 299768000951 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 299768000952 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 299768000953 putative acetyltransferase YhhY; Provisional; Region: PRK10140 299768000954 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 299768000955 Coenzyme A binding pocket [chemical binding]; other site 299768000956 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 299768000957 ribosome maturation protein RimP; Reviewed; Region: PRK00092 299768000958 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 299768000959 Sm1 motif; other site 299768000960 predicted subunit interaction site [polypeptide binding]; other site 299768000961 RNA binding pocket [nucleotide binding]; other site 299768000962 Sm2 motif; other site 299768000963 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 299768000964 NusA N-terminal domain; Region: NusA_N; pfam08529 299768000965 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 299768000966 RNA binding site [nucleotide binding]; other site 299768000967 homodimer interface [polypeptide binding]; other site 299768000968 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 299768000969 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 299768000970 G-X-X-G motif; other site 299768000971 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 299768000972 putative RNA binding cleft [nucleotide binding]; other site 299768000973 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 299768000974 translation initiation factor IF-2; Validated; Region: infB; PRK05306 299768000975 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 299768000976 translation initiation factor IF-2; Region: IF-2; TIGR00487 299768000977 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 299768000978 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 299768000979 G1 box; other site 299768000980 putative GEF interaction site [polypeptide binding]; other site 299768000981 GTP/Mg2+ binding site [chemical binding]; other site 299768000982 Switch I region; other site 299768000983 G2 box; other site 299768000984 G3 box; other site 299768000985 Switch II region; other site 299768000986 G4 box; other site 299768000987 G5 box; other site 299768000988 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 299768000989 Translation-initiation factor 2; Region: IF-2; pfam11987 299768000990 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 299768000991 Ribosome-binding factor A; Region: RBFA; cl00542 299768000992 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 299768000993 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 299768000994 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 299768000995 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 299768000996 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 299768000997 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 299768000998 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 299768000999 MatE; Region: MatE; cl10513 299768001000 stage V sporulation protein B; Region: spore_V_B; TIGR02900 299768001001 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 299768001002 cystathionine gamma-synthase; Reviewed; Region: PRK07269 299768001003 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 299768001004 homodimer interface [polypeptide binding]; other site 299768001005 substrate-cofactor binding pocket; other site 299768001006 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768001007 catalytic residue [active] 299768001008 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 299768001009 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 299768001010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768001011 homodimer interface [polypeptide binding]; other site 299768001012 catalytic residue [active] 299768001013 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 299768001014 active site 299768001015 Clp protease; Region: CLP_protease; pfam00574 299768001016 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 299768001017 oligomer interface [polypeptide binding]; other site 299768001018 active site residues [active] 299768001019 Protein of unknown function (DUF964); Region: DUF964; cl01483 299768001020 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 299768001021 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 299768001022 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 299768001023 putative ligand binding site [chemical binding]; other site 299768001024 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 299768001025 TM-ABC transporter signature motif; other site 299768001026 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 299768001027 TM-ABC transporter signature motif; other site 299768001028 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 299768001029 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 299768001030 Walker A/P-loop; other site 299768001031 ATP binding site [chemical binding]; other site 299768001032 Q-loop/lid; other site 299768001033 ABC transporter signature motif; other site 299768001034 Walker B; other site 299768001035 D-loop; other site 299768001036 H-loop/switch region; other site 299768001037 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 299768001038 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 299768001039 Walker A/P-loop; other site 299768001040 ATP binding site [chemical binding]; other site 299768001041 Q-loop/lid; other site 299768001042 ABC transporter signature motif; other site 299768001043 Walker B; other site 299768001044 D-loop; other site 299768001045 H-loop/switch region; other site 299768001046 FOG: CBS domain [General function prediction only]; Region: COG0517 299768001047 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 299768001048 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 299768001049 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 299768001050 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 299768001051 dimer interface [polypeptide binding]; other site 299768001052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768001053 catalytic residue [active] 299768001054 Uncharacterized conserved protein [Function unknown]; Region: COG1739 299768001055 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 299768001056 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 299768001057 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 299768001058 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 299768001059 ATP binding site [chemical binding]; other site 299768001060 putative Mg++ binding site [ion binding]; other site 299768001061 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 299768001062 nucleotide binding region [chemical binding]; other site 299768001063 ATP-binding site [chemical binding]; other site 299768001064 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 299768001065 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 299768001066 active site 299768001067 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 299768001068 30S subunit binding site; other site 299768001069 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 299768001070 Helix-turn-helix domains; Region: HTH; cl00088 299768001071 Integrase core domain; Region: rve; cl01316 299768001072 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 299768001073 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 299768001074 DHHA2 domain; Region: DHHA2; pfam02833 299768001075 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 299768001076 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 299768001077 Protein of unknown function (DUF402); Region: DUF402; cl00979 299768001078 RecX family; Region: RecX; cl00936 299768001079 TRAM domain; Region: TRAM; cl01282 299768001080 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 299768001081 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 299768001082 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 299768001083 S-adenosylmethionine binding site [chemical binding]; other site 299768001084 Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II...; Region: AsnA; cd00645 299768001085 dimer interface [polypeptide binding]; other site 299768001086 active site 299768001087 aspartate kinase; Reviewed; Region: PRK09034 299768001088 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 299768001089 putative catalytic residues [active] 299768001090 putative nucleotide binding site [chemical binding]; other site 299768001091 putative aspartate binding site [chemical binding]; other site 299768001092 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 299768001093 allosteric regulatory residue; other site 299768001094 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 299768001095 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 299768001096 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 299768001097 motif II; other site 299768001098 enoyl-CoA hydratase; Provisional; Region: PRK07260 299768001099 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 299768001100 substrate binding site [chemical binding]; other site 299768001101 oxyanion hole (OAH) forming residues; other site 299768001102 trimer interface [polypeptide binding]; other site 299768001103 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 299768001104 Helix-turn-helix domains; Region: HTH; cl00088 299768001105 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 299768001106 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 299768001107 dimer interface [polypeptide binding]; other site 299768001108 active site 299768001109 CoA binding pocket [chemical binding]; other site 299768001110 Phosphopantetheine attachment site; Region: PP-binding; cl09936 299768001111 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 299768001112 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 299768001113 FMN binding site [chemical binding]; other site 299768001114 substrate binding site [chemical binding]; other site 299768001115 putative catalytic residue [active] 299768001116 Acyl transferase domain; Region: Acyl_transf_1; cl08282 299768001117 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 299768001118 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 299768001119 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001120 NAD(P) binding site [chemical binding]; other site 299768001121 active site 299768001122 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 299768001123 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 299768001124 dimer interface [polypeptide binding]; other site 299768001125 active site 299768001126 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 299768001127 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 299768001128 carboxyltransferase (CT) interaction site; other site 299768001129 biotinylation site [posttranslational modification]; other site 299768001130 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 299768001131 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 299768001132 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 299768001133 ATP-grasp domain; Region: ATP-grasp_4; cl03087 299768001134 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 299768001135 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 299768001136 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 299768001137 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 299768001138 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 299768001139 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 299768001140 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 299768001141 Integrase core domain; Region: rve; cl01316 299768001142 hypothetical protein; Provisional; Region: PRK00106 299768001143 ATP synthase archaeal, H subunit; Region: AhaH; TIGR02926 299768001144 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 299768001145 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768001146 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 299768001147 Helix-turn-helix domains; Region: HTH; cl00088 299768001148 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 299768001149 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 299768001150 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 299768001151 putative substrate binding site [chemical binding]; other site 299768001152 putative ATP binding site [chemical binding]; other site 299768001153 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 299768001154 active site 299768001155 phosphorylation site [posttranslational modification] 299768001156 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 299768001157 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 299768001158 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 299768001159 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 299768001160 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 299768001161 glutathione reductase; Validated; Region: PRK06116 299768001162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001164 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 299768001165 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 299768001166 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 299768001167 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 299768001168 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 299768001169 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 299768001170 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 299768001171 catalytic residue [active] 299768001172 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 299768001173 THUMP domain; Region: THUMP; cl12076 299768001174 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 299768001175 Ligand Binding Site [chemical binding]; other site 299768001176 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 299768001177 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 299768001178 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 299768001179 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 299768001180 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 299768001181 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 299768001182 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 299768001183 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 299768001184 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 299768001185 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 299768001186 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 299768001187 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 299768001188 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 299768001189 dihydrodipicolinate reductase; Provisional; Region: PRK00048 299768001190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001191 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 299768001192 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 299768001193 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 299768001194 active site 299768001195 NTP binding site [chemical binding]; other site 299768001196 metal binding triad [ion binding]; metal-binding site 299768001197 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 299768001198 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 299768001199 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 299768001200 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768001201 Walker A/P-loop; other site 299768001202 ATP binding site [chemical binding]; other site 299768001203 Q-loop/lid; other site 299768001204 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 299768001205 ABC transporter; Region: ABC_tran_2; pfam12848 299768001206 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 299768001207 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 299768001208 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 299768001209 nudix motif; other site 299768001210 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 299768001211 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 299768001212 active site 299768001213 (T/H)XGH motif; other site 299768001214 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768001215 glutamate dehydrogenase; Provisional; Region: PRK09414 299768001216 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 299768001217 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 299768001218 NAD(P) binding site [chemical binding]; other site 299768001219 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 299768001220 active site 299768001221 catalytic residues [active] 299768001222 metal binding site [ion binding]; metal-binding site 299768001223 Helix-turn-helix domains; Region: HTH; cl00088 299768001224 transcriptional regulator SlyA; Provisional; Region: PRK03573 299768001225 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 299768001226 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 299768001227 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768001228 Walker A/P-loop; other site 299768001229 ATP binding site [chemical binding]; other site 299768001230 Q-loop/lid; other site 299768001231 ABC transporter signature motif; other site 299768001232 Walker B; other site 299768001233 D-loop; other site 299768001234 H-loop/switch region; other site 299768001235 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 299768001236 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 299768001237 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 299768001238 Walker A/P-loop; other site 299768001239 ATP binding site [chemical binding]; other site 299768001240 Q-loop/lid; other site 299768001241 ABC transporter signature motif; other site 299768001242 Walker B; other site 299768001243 D-loop; other site 299768001244 H-loop/switch region; other site 299768001245 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 299768001246 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 299768001247 dimer interface [polypeptide binding]; other site 299768001248 phosphorylation site [posttranslational modification] 299768001249 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 299768001250 putative nucleotide binding site [chemical binding]; other site 299768001251 uridine monophosphate binding site [chemical binding]; other site 299768001252 homohexameric interface [polypeptide binding]; other site 299768001253 ribosome recycling factor; Reviewed; Region: frr; PRK00083 299768001254 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 299768001255 hinge region; other site 299768001256 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 299768001257 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 299768001258 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 299768001259 NlpC/P60 family; Region: NLPC_P60; cl11438 299768001260 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768001261 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 299768001262 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 299768001263 Helix-turn-helix domains; Region: HTH; cl00088 299768001264 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768001265 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 299768001266 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768001267 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 299768001268 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 299768001269 active site 299768001270 HIGH motif; other site 299768001271 KMSKS motif; other site 299768001272 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 299768001273 tRNA binding surface [nucleotide binding]; other site 299768001274 anticodon binding site; other site 299768001275 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 299768001276 dimer interface [polypeptide binding]; other site 299768001277 putative tRNA-binding site [nucleotide binding]; other site 299768001278 Transcriptional regulator [Transcription]; Region: LysR; COG0583 299768001279 Helix-turn-helix domains; Region: HTH; cl00088 299768001280 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 299768001281 dimerization interface [polypeptide binding]; other site 299768001282 Competence protein CoiA-like family; Region: CoiA; cl11541 299768001283 oligoendopeptidase F; Region: pepF; TIGR00181 299768001284 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 299768001285 active site 299768001286 Zn binding site [ion binding]; other site 299768001287 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 299768001288 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 299768001289 S-adenosylmethionine binding site [chemical binding]; other site 299768001290 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 299768001291 SurA N-terminal domain; Region: SurA_N_3; cl07813 299768001292 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 299768001293 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 299768001294 motif 1; other site 299768001295 active site 299768001296 motif 2; other site 299768001297 motif 3; other site 299768001298 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 299768001299 DHHA1 domain; Region: DHHA1; pfam02272 299768001300 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 299768001301 Bacterial SH3 domain; Region: SH3_3; cl02551 299768001302 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 299768001303 Bacterial SH3 domain; Region: SH3_3; cl02551 299768001304 Bacterial SH3 domain; Region: SH3_3; cl02551 299768001305 Bacterial SH3 domain; Region: SH3_3; cl02551 299768001306 Predicted amidohydrolase [General function prediction only]; Region: COG0388 299768001307 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 299768001308 putative active site [active] 299768001309 catalytic triad [active] 299768001310 putative dimer interface [polypeptide binding]; other site 299768001311 transaminase; Reviewed; Region: PRK08068 299768001312 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 299768001313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768001314 homodimer interface [polypeptide binding]; other site 299768001315 catalytic residue [active] 299768001316 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 299768001317 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001318 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 299768001319 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 299768001320 heterotetramer interface [polypeptide binding]; other site 299768001321 active site pocket [active] 299768001322 cleavage site 299768001323 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 299768001324 nucleotide binding site [chemical binding]; other site 299768001325 N-acetyl-L-glutamate binding site [chemical binding]; other site 299768001326 acetylornithine aminotransferase; Provisional; Region: PRK04260 299768001327 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 299768001328 inhibitor-cofactor binding pocket; inhibition site 299768001329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768001330 catalytic residue [active] 299768001331 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 299768001332 putative active site [active] 299768001333 putative metal binding site [ion binding]; other site 299768001334 homoserine dehydrogenase; Provisional; Region: PRK06349 299768001335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001336 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 299768001337 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 299768001338 homoserine kinase; Provisional; Region: PRK01212 299768001339 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 299768001340 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 299768001341 Predicted permeases [General function prediction only]; Region: RarD; COG2962 299768001342 EamA-like transporter family; Region: EamA; cl01037 299768001343 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 299768001344 Flavin Reductases; Region: FlaRed; cl00801 299768001345 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 299768001346 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 299768001347 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 299768001348 active site 299768001349 HIGH motif; other site 299768001350 nucleotide binding site [chemical binding]; other site 299768001351 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 299768001352 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 299768001353 active site 299768001354 KMSKS motif; other site 299768001355 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 299768001356 tRNA binding surface [nucleotide binding]; other site 299768001357 anticodon binding site; other site 299768001358 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 299768001359 ATP synthase subunit C; Region: ATP-synt_C; cl00466 299768001360 ATP synthase A chain; Region: ATP-synt_A; cl00413 299768001361 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 299768001362 Plant ATP synthase F0; Region: YMF19; cl07975 299768001363 Plant ATP synthase F0; Region: YMF19; cl07975 299768001364 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 299768001365 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 299768001366 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 299768001367 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 299768001368 beta subunit interaction interface [polypeptide binding]; other site 299768001369 Walker A motif; other site 299768001370 ATP binding site [chemical binding]; other site 299768001371 Walker B motif; other site 299768001372 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 299768001373 ATP synthase; Region: ATP-synt; cl00365 299768001374 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 299768001375 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 299768001376 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 299768001377 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 299768001378 alpha subunit interaction interface [polypeptide binding]; other site 299768001379 Walker A motif; other site 299768001380 ATP binding site [chemical binding]; other site 299768001381 Walker B motif; other site 299768001382 inhibitor binding site; inhibition site 299768001383 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 299768001384 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 299768001385 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 299768001386 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 299768001387 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 299768001388 elongation factor Tu; Reviewed; Region: PRK00049 299768001389 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 299768001390 G1 box; other site 299768001391 GEF interaction site [polypeptide binding]; other site 299768001392 GTP/Mg2+ binding site [chemical binding]; other site 299768001393 Switch I region; other site 299768001394 G2 box; other site 299768001395 G3 box; other site 299768001396 Switch II region; other site 299768001397 G4 box; other site 299768001398 G5 box; other site 299768001399 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 299768001400 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 299768001401 Antibiotic Binding Site [chemical binding]; other site 299768001402 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 299768001403 substrate binding site [chemical binding]; other site 299768001404 dimer interface [polypeptide binding]; other site 299768001405 catalytic triad [active] 299768001406 thymidylate kinase; Validated; Region: tmk; PRK00698 299768001407 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 299768001408 TMP-binding site; other site 299768001409 ATP-binding site [chemical binding]; other site 299768001410 DNA polymerase III subunit delta'; Validated; Region: PRK07276 299768001411 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768001412 PSP1 C-terminal conserved region; Region: PSP1; cl00770 299768001413 TSC-22/dip/bun family; Region: TSC22; cl01853 299768001414 Predicted methyltransferases [General function prediction only]; Region: COG0313 299768001415 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 299768001416 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 299768001417 Nitrogen regulatory protein P-II; Region: P-II; cl00412 299768001418 Nitrogen regulatory protein P-II; Region: P-II; smart00938 299768001419 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 299768001420 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 299768001421 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 299768001422 active site 299768001423 motif I; other site 299768001424 motif II; other site 299768001425 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 299768001426 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 299768001427 PhoU domain; Region: PhoU; pfam01895 299768001428 PhoU domain; Region: PhoU; pfam01895 299768001429 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 299768001430 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 299768001431 active site 299768001432 dimer interface [polypeptide binding]; other site 299768001433 Uncharacterized membrane protein [Function unknown]; Region: COG3949 299768001434 Uncharacterized membrane protein [Function unknown]; Region: COG3949 299768001435 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 299768001436 dimer interface [polypeptide binding]; other site 299768001437 motif 1; other site 299768001438 active site 299768001439 motif 2; other site 299768001440 motif 3; other site 299768001441 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 299768001442 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 299768001443 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 299768001444 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 299768001445 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 299768001446 active site turn [active] 299768001447 phosphorylation site [posttranslational modification] 299768001448 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 299768001449 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 299768001450 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 299768001451 HPr interaction site; other site 299768001452 glycerol kinase (GK) interaction site [polypeptide binding]; other site 299768001453 active site 299768001454 phosphorylation site [posttranslational modification] 299768001455 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 299768001456 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 299768001457 active site 299768001458 Transcriptional regulator [Transcription]; Region: LysR; COG0583 299768001459 Helix-turn-helix domains; Region: HTH; cl00088 299768001460 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 299768001461 dimerization interface [polypeptide binding]; other site 299768001462 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 299768001463 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 299768001464 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 299768001465 RNA binding surface [nucleotide binding]; other site 299768001466 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 299768001467 active site 299768001468 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 299768001469 active site 299768001470 uracil transporter; Provisional; Region: PRK10720 299768001471 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 299768001472 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 299768001473 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 299768001474 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001475 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 299768001476 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 299768001477 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 299768001478 catalytic site [active] 299768001479 subunit interface [polypeptide binding]; other site 299768001480 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 299768001481 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 299768001482 ATP-grasp domain; Region: ATP-grasp_4; cl03087 299768001483 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 299768001484 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 299768001485 ATP-grasp domain; Region: ATP-grasp_4; cl03087 299768001486 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 299768001487 IMP binding site; other site 299768001488 dimer interface [polypeptide binding]; other site 299768001489 interdomain contacts; other site 299768001490 partial ornithine binding site; other site 299768001491 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001492 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 299768001493 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 299768001494 FtsX-like permease family; Region: FtsX; cl15850 299768001495 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 299768001496 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 299768001497 23S rRNA interface [nucleotide binding]; other site 299768001498 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 299768001499 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 299768001500 core dimer interface [polypeptide binding]; other site 299768001501 L10 interface [polypeptide binding]; other site 299768001502 L11 interface [polypeptide binding]; other site 299768001503 putative EF-Tu interaction site [polypeptide binding]; other site 299768001504 putative EF-G interaction site [polypeptide binding]; other site 299768001505 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 299768001506 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 299768001507 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768001508 Walker A/P-loop; other site 299768001509 ATP binding site [chemical binding]; other site 299768001510 Q-loop/lid; other site 299768001511 ABC transporter signature motif; other site 299768001512 Walker B; other site 299768001513 D-loop; other site 299768001514 H-loop/switch region; other site 299768001515 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 299768001516 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 299768001517 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 299768001518 Walker A/P-loop; other site 299768001519 ATP binding site [chemical binding]; other site 299768001520 Q-loop/lid; other site 299768001521 ABC transporter signature motif; other site 299768001522 Walker B; other site 299768001523 D-loop; other site 299768001524 H-loop/switch region; other site 299768001525 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 299768001526 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 299768001527 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 299768001528 active site 299768001529 trimer interface [polypeptide binding]; other site 299768001530 allosteric site; other site 299768001531 active site lid [active] 299768001532 hexamer (dimer of trimers) interface [polypeptide binding]; other site 299768001533 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 299768001534 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 299768001535 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 299768001536 active site 299768001537 phosphorylation site [posttranslational modification] 299768001538 intermolecular recognition site; other site 299768001539 dimerization interface [polypeptide binding]; other site 299768001540 LytTr DNA-binding domain; Region: LytTR; cl04498 299768001541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001542 ATP binding site [chemical binding]; other site 299768001543 substrate interface [chemical binding]; other site 299768001544 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 299768001545 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768001546 Walker A/P-loop; other site 299768001547 ATP binding site [chemical binding]; other site 299768001548 Q-loop/lid; other site 299768001549 ABC transporter signature motif; other site 299768001550 Walker B; other site 299768001551 D-loop; other site 299768001552 H-loop/switch region; other site 299768001553 ABC-2 type transporter; Region: ABC2_membrane; cl11417 299768001554 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 299768001555 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 299768001556 active site residue [active] 299768001557 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 299768001558 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 299768001559 non-specific DNA binding site [nucleotide binding]; other site 299768001560 salt bridge; other site 299768001561 sequence-specific DNA binding site [nucleotide binding]; other site 299768001562 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 299768001563 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 299768001564 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 299768001565 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 299768001566 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 299768001567 active site 299768001568 uracil binding [chemical binding]; other site 299768001569 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 299768001570 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 299768001571 metal binding site [ion binding]; metal-binding site 299768001572 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 299768001573 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 299768001574 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001575 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 299768001576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001577 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 299768001578 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 299768001579 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 299768001580 mevalonate kinase; Region: mevalon_kin; TIGR00549 299768001581 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 299768001582 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 299768001583 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 299768001584 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 299768001585 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 299768001586 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 299768001587 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 299768001588 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 299768001589 homotetramer interface [polypeptide binding]; other site 299768001590 FMN binding site [chemical binding]; other site 299768001591 homodimer contacts [polypeptide binding]; other site 299768001592 putative active site [active] 299768001593 putative substrate binding site [chemical binding]; other site 299768001594 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 299768001595 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 299768001596 Substrate binding site; other site 299768001597 Mg++ binding site; other site 299768001598 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 299768001599 active site 299768001600 substrate binding site [chemical binding]; other site 299768001601 CoA binding site [chemical binding]; other site 299768001602 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 299768001603 dimer interface [polypeptide binding]; other site 299768001604 ADP-ribose binding site [chemical binding]; other site 299768001605 active site 299768001606 nudix motif; other site 299768001607 metal binding site [ion binding]; metal-binding site 299768001608 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 299768001609 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 299768001610 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 299768001611 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 299768001612 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 299768001613 putative ADP-binding pocket [chemical binding]; other site 299768001614 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 299768001615 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 299768001616 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 299768001617 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 299768001618 active site 299768001619 dimer interface [polypeptide binding]; other site 299768001620 motif 1; other site 299768001621 motif 2; other site 299768001622 motif 3; other site 299768001623 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 299768001624 anticodon binding site; other site 299768001625 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 299768001626 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 299768001627 Haemolysin-III related; Region: HlyIII; cl03831 299768001628 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 299768001629 homodimer interface [polypeptide binding]; other site 299768001630 NAD binding site [chemical binding]; other site 299768001631 catalytic residues [active] 299768001632 substrate binding pocket [chemical binding]; other site 299768001633 flexible flap; other site 299768001634 'initiating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are characterized by the...; Region: init_cond_enzymes; cd00827 299768001635 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 299768001636 dimer interface [polypeptide binding]; other site 299768001637 active site 299768001638 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 299768001639 dimerization interface [polypeptide binding]; other site 299768001640 active site 299768001641 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 299768001642 folate binding site [chemical binding]; other site 299768001643 NADP+ binding site [chemical binding]; other site 299768001644 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 299768001645 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 299768001646 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 299768001647 Walker A motif; other site 299768001648 ATP binding site [chemical binding]; other site 299768001649 Walker B motif; other site 299768001650 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 299768001651 Predicted GTPase [General function prediction only]; Region: COG0218 299768001652 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 299768001653 G1 box; other site 299768001654 GTP/Mg2+ binding site [chemical binding]; other site 299768001655 Switch I region; other site 299768001656 G2 box; other site 299768001657 G3 box; other site 299768001658 Switch II region; other site 299768001659 G4 box; other site 299768001660 G5 box; other site 299768001661 S-methylmethionine transporter; Provisional; Region: PRK11387 299768001662 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 299768001663 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 299768001664 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 299768001665 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 299768001666 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 299768001667 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 299768001668 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 299768001669 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 299768001670 anchoring element; other site 299768001671 dimer interface [polypeptide binding]; other site 299768001672 ATP binding site [chemical binding]; other site 299768001673 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 299768001674 active site 299768001675 putative metal-binding site [ion binding]; other site 299768001676 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 299768001677 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 299768001678 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 299768001679 CAP-like domain; other site 299768001680 active site 299768001681 primary dimer interface [polypeptide binding]; other site 299768001682 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 299768001683 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 299768001684 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 299768001685 homodimer interface [polypeptide binding]; other site 299768001686 substrate-cofactor binding pocket; other site 299768001687 catalytic residue [active] 299768001688 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 299768001689 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 299768001690 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 299768001691 RNA binding site [nucleotide binding]; other site 299768001692 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 299768001693 RNA binding site [nucleotide binding]; other site 299768001694 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 299768001695 RNA binding site [nucleotide binding]; other site 299768001696 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 299768001697 RNA binding site [nucleotide binding]; other site 299768001698 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 299768001699 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 299768001700 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 299768001701 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 299768001702 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001703 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 299768001704 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 299768001705 nudix motif; other site 299768001706 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 299768001707 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 299768001708 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 299768001709 Walker A motif; other site 299768001710 ATP binding site [chemical binding]; other site 299768001711 Walker B motif; other site 299768001712 arginine finger; other site 299768001713 Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]; Region: UvrB; COG0556 299768001714 UvrB/uvrC motif; Region: UVR; pfam02151 299768001715 ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]; Region: ClpX; COG1219 299768001716 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 299768001717 Walker A motif; other site 299768001718 ATP binding site [chemical binding]; other site 299768001719 Walker B motif; other site 299768001720 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 299768001721 ornithine carbamoyltransferase; Validated; Region: PRK02102 299768001722 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 299768001723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001724 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 299768001725 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 299768001726 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 299768001727 dimer interface [polypeptide binding]; other site 299768001728 conserved gate region; other site 299768001729 putative PBP binding loops; other site 299768001730 ABC-ATPase subunit interface; other site 299768001731 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 299768001732 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 299768001733 Walker A/P-loop; other site 299768001734 ATP binding site [chemical binding]; other site 299768001735 Q-loop/lid; other site 299768001736 ABC transporter signature motif; other site 299768001737 Walker B; other site 299768001738 D-loop; other site 299768001739 H-loop/switch region; other site 299768001740 FeoA domain; Region: FeoA; cl00838 299768001741 FeoA domain; Region: FeoA; cl00838 299768001742 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 299768001743 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 299768001744 G1 box; other site 299768001745 GTP/Mg2+ binding site [chemical binding]; other site 299768001746 Switch I region; other site 299768001747 G2 box; other site 299768001748 G3 box; other site 299768001749 Switch II region; other site 299768001750 G4 box; other site 299768001751 G5 box; other site 299768001752 Nucleoside recognition; Region: Gate; cl00486 299768001753 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 299768001754 Nucleoside recognition; Region: Gate; cl00486 299768001755 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 299768001756 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 299768001757 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 299768001758 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 299768001759 homodimer interface [polypeptide binding]; other site 299768001760 NADP binding site [chemical binding]; other site 299768001761 substrate binding site [chemical binding]; other site 299768001762 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 299768001763 putative substrate binding site [chemical binding]; other site 299768001764 putative ATP binding site [chemical binding]; other site 299768001765 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 299768001766 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 299768001767 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 299768001768 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 299768001769 recombination protein RecR; Reviewed; Region: recR; PRK00076 299768001770 RecR protein; Region: RecR; pfam02132 299768001771 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 299768001772 putative active site [active] 299768001773 putative metal-binding site [ion binding]; other site 299768001774 tetramer interface [polypeptide binding]; other site 299768001775 CAT RNA binding domain; Region: CAT_RBD; cl03904 299768001776 PRD domain; Region: PRD; cl15445 299768001777 PRD domain; Region: PRD; cl15445 299768001778 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 299768001779 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 299768001780 GTPase Era; Reviewed; Region: era; PRK00089 299768001781 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 299768001782 G1 box; other site 299768001783 GTP/Mg2+ binding site [chemical binding]; other site 299768001784 Switch I region; other site 299768001785 G2 box; other site 299768001786 Switch II region; other site 299768001787 G3 box; other site 299768001788 G4 box; other site 299768001789 G5 box; other site 299768001790 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 299768001791 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 299768001792 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 299768001793 DNA binding site [nucleotide binding] 299768001794 catalytic residue [active] 299768001795 H2TH interface [polypeptide binding]; other site 299768001796 putative catalytic residues [active] 299768001797 turnover-facilitating residue; other site 299768001798 intercalation triad [nucleotide binding]; other site 299768001799 8OG recognition residue [nucleotide binding]; other site 299768001800 putative reading head residues; other site 299768001801 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 299768001802 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 299768001803 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 299768001804 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 299768001805 CoA-binding site [chemical binding]; other site 299768001806 ATP-binding [chemical binding]; other site 299768001807 drug efflux system protein MdtG; Provisional; Region: PRK09874 299768001808 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 299768001809 putative substrate translocation pore; other site 299768001810 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 299768001811 Preprotein translocase SecG subunit; Region: SecG; cl09123 299768001812 ribonuclease R; Region: RNase_R; TIGR02063 299768001813 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 299768001814 RNB domain; Region: RNB; pfam00773 299768001815 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 299768001816 RNA binding site [nucleotide binding]; other site 299768001817 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 299768001818 SmpB-tmRNA interface; other site 299768001819 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 299768001820 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 299768001821 active site 299768001822 motif I; other site 299768001823 motif II; other site 299768001824 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 299768001825 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 299768001826 active site 299768001827 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 299768001828 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 299768001829 RNA binding site [nucleotide binding]; other site 299768001830 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 299768001831 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 299768001832 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 299768001833 active site 299768001834 catabolite control protein A; Region: ccpA; TIGR01481 299768001835 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 299768001836 DNA binding site [nucleotide binding] 299768001837 domain linker motif; other site 299768001838 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 299768001839 dimerization interface [polypeptide binding]; other site 299768001840 effector binding site; other site 299768001841 Protein of unknown function (DUF419); Region: DUF419; cl15265 299768001842 Glycerate kinase family; Region: Gly_kinase; cl00841 299768001843 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 299768001844 enolase; Provisional; Region: eno; PRK00077 299768001845 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 299768001846 dimer interface [polypeptide binding]; other site 299768001847 metal binding site [ion binding]; metal-binding site 299768001848 substrate binding pocket [chemical binding]; other site 299768001849 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 299768001850 Sulfatase; Region: Sulfatase; cl10460 299768001851 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 299768001852 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 299768001853 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 299768001854 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 299768001855 active site 299768001856 catalytic residue [active] 299768001857 dimer interface [polypeptide binding]; other site 299768001858 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 299768001859 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 299768001860 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 299768001861 shikimate binding site; other site 299768001862 NAD(P) binding site [chemical binding]; other site 299768001863 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 299768001864 active site 299768001865 dimer interface [polypeptide binding]; other site 299768001866 metal binding site [ion binding]; metal-binding site 299768001867 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 299768001868 Tetramer interface [polypeptide binding]; other site 299768001869 active site 299768001870 FMN-binding site [chemical binding]; other site 299768001871 prephenate dehydrogenase; Validated; Region: PRK06545 299768001872 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001873 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 299768001874 Protein of unknown function (DUF964); Region: DUF964; cl01483 299768001875 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 299768001876 tetramer (dimer of dimers) interface [polypeptide binding]; other site 299768001877 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 299768001878 NAD binding site [chemical binding]; other site 299768001879 dimer interface [polypeptide binding]; other site 299768001880 substrate binding site [chemical binding]; other site 299768001881 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 299768001882 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 299768001883 putative active site [active] 299768001884 shikimate kinase; Reviewed; Region: aroK; PRK00131 299768001885 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 299768001886 ADP binding site [chemical binding]; other site 299768001887 magnesium binding site [ion binding]; other site 299768001888 putative shikimate binding site; other site 299768001889 prephenate dehydratase; Provisional; Region: PRK11898 299768001890 Prephenate dehydratase; Region: PDT; pfam00800 299768001891 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 299768001892 putative L-Phe binding site [chemical binding]; other site 299768001893 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 299768001894 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 299768001895 gating phenylalanine in ion channel; other site 299768001896 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 299768001897 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 299768001898 active site 299768001899 Uncharacterized conserved protein [Function unknown]; Region: COG2128 299768001900 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 299768001901 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 299768001902 TRAM domain; Region: TRAM; cl01282 299768001903 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 299768001904 S-adenosylmethionine binding site [chemical binding]; other site 299768001905 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 299768001906 GIY-YIG motif/motif A; other site 299768001907 putative active site [active] 299768001908 putative metal binding site [ion binding]; other site 299768001909 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001910 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 299768001911 CRISPR-associated protein Cas9/Csn1, subtype II/NMEMI; Region: cas_Csn1; TIGR01865 299768001912 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 299768001913 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 299768001914 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 299768001915 Predicted permeases [General function prediction only]; Region: COG0701 299768001916 Predicted permease; Region: DUF318; pfam03773 299768001917 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 299768001918 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 299768001919 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 299768001920 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 299768001921 RNA binding site [nucleotide binding]; other site 299768001922 hypothetical protein; Provisional; Region: PRK04351 299768001923 SprT homologues; Region: SprT; cl01182 299768001924 PspC domain; Region: PspC; cl00864 299768001925 HPr kinase/phosphorylase; Provisional; Region: PRK05428 299768001926 DRTGG domain; Region: DRTGG; cl12147 299768001927 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 299768001928 Hpr binding site; other site 299768001929 active site 299768001930 homohexamer subunit interaction site [polypeptide binding]; other site 299768001931 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 299768001932 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 299768001933 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 299768001934 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional; Region: PRK13585 299768001935 Peptidase family U32; Region: Peptidase_U32; cl03113 299768001936 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 299768001937 Peptidase family U32; Region: Peptidase_U32; cl03113 299768001938 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 299768001939 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 299768001940 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 299768001941 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 299768001942 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 299768001943 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 299768001944 active site 299768001945 8-oxo-dGMP binding site [chemical binding]; other site 299768001946 nudix motif; other site 299768001947 metal binding site [ion binding]; metal-binding site 299768001948 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 299768001949 YolD-like protein; Region: YolD; pfam08863 299768001950 YaaC-like Protein; Region: YaaC; pfam14175 299768001951 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 299768001952 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 299768001953 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 299768001954 non-specific DNA binding site [nucleotide binding]; other site 299768001955 salt bridge; other site 299768001956 sequence-specific DNA binding site [nucleotide binding]; other site 299768001957 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 299768001958 Helix-turn-helix domains; Region: HTH; cl00088 299768001959 Integrase core domain; Region: rve; cl01316 299768001960 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 299768001961 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 299768001962 dimer interface [polypeptide binding]; other site 299768001963 putative anticodon binding site; other site 299768001964 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 299768001965 motif 1; other site 299768001966 active site 299768001967 motif 2; other site 299768001968 motif 3; other site 299768001969 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 299768001970 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 299768001971 motif II; other site 299768001972 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 299768001973 catalytic core [active] 299768001974 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 299768001975 putative deacylase active site [active] 299768001976 PlyB is a bacteriophage endolysin that displays potent lytic activity toward Bacillus anthracis. PlyB has an N-terminal glycosyl hydrolase family 25 (GH25) catalytic domain and a C-terminal bacterial SH3-like domain, SH3b. Both domains are required for...; Region: GH25_PlyB-like; cd06523 299768001977 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 299768001978 active site 299768001979 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 299768001980 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 299768001981 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 299768001982 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001983 NAD(P) binding site [chemical binding]; other site 299768001984 active site 299768001985 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 299768001986 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 299768001987 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 299768001988 ATP binding site [chemical binding]; other site 299768001989 putative Mg++ binding site [ion binding]; other site 299768001990 AAA domain; Region: AAA_21; pfam13304 299768001991 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 299768001992 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 299768001993 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 299768001994 HsdM N-terminal domain; Region: HsdM_N; pfam12161 299768001995 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 299768001996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768001997 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 299768001998 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 299768001999 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 299768002000 LemA family; Region: LemA; cl00742 299768002001 Peptidase family M48; Region: Peptidase_M48; cl12018 299768002002 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 299768002003 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 299768002004 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 299768002005 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 299768002006 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 299768002007 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 299768002008 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 299768002009 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 299768002010 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 299768002011 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 299768002012 Ferritin-like domain; Region: Ferritin; pfam00210 299768002013 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 299768002014 dimerization interface [polypeptide binding]; other site 299768002015 DPS ferroxidase diiron center [ion binding]; other site 299768002016 ion pore; other site 299768002017 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 299768002018 metal binding site 2 [ion binding]; metal-binding site 299768002019 putative DNA binding helix; other site 299768002020 metal binding site 1 [ion binding]; metal-binding site 299768002021 dimer interface [polypeptide binding]; other site 299768002022 structural Zn2+ binding site [ion binding]; other site 299768002023 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 299768002024 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 299768002025 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 299768002026 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 299768002027 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 299768002028 G1 box; other site 299768002029 putative GEF interaction site [polypeptide binding]; other site 299768002030 GTP/Mg2+ binding site [chemical binding]; other site 299768002031 Switch I region; other site 299768002032 G2 box; other site 299768002033 G3 box; other site 299768002034 Switch II region; other site 299768002035 G4 box; other site 299768002036 G5 box; other site 299768002037 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 299768002038 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 299768002039 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 299768002040 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 299768002041 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768002042 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 299768002043 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 299768002044 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 299768002045 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 299768002046 homodimer interface [polypeptide binding]; other site 299768002047 active site 299768002048 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 299768002049 Cell division protein FtsQ; Region: FtsQ; pfam03799 299768002050 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 299768002051 Cell division protein FtsA; Region: FtsA; cl11496 299768002052 Cell division protein FtsA; Region: FtsA; cl11496 299768002053 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 299768002054 cell division protein FtsZ; Validated; Region: PRK09330 299768002055 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 299768002056 nucleotide binding site [chemical binding]; other site 299768002057 SulA interaction site; other site 299768002058 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 299768002059 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 299768002060 catalytic residue [active] 299768002061 Protein of unknown function (DUF552); Region: DUF552; cl00775 299768002062 YGGT family; Region: YGGT; cl00508 299768002063 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 299768002064 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 299768002065 RNA binding surface [nucleotide binding]; other site 299768002066 DivIVA protein; Region: DivIVA; pfam05103 299768002067 DivIVA domain; Region: DivI1A_domain; TIGR03544 299768002068 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 299768002069 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 299768002070 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 299768002071 active site 299768002072 HIGH motif; other site 299768002073 nucleotide binding site [chemical binding]; other site 299768002074 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 299768002075 active site 299768002076 KMSKS motif; other site 299768002077 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 299768002078 tRNA binding surface [nucleotide binding]; other site 299768002079 anticodon binding site; other site 299768002080 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 299768002081 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768002082 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768002083 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 299768002084 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 299768002085 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 299768002086 ApbE family; Region: ApbE; cl00643 299768002087 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 299768002088 DHH family; Region: DHH; pfam01368 299768002089 DHHA1 domain; Region: DHHA1; pfam02272 299768002090 putative S-transferase; Provisional; Region: PRK11752 299768002091 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 299768002092 C-terminal domain interface [polypeptide binding]; other site 299768002093 GSH binding site (G-site) [chemical binding]; other site 299768002094 dimer interface [polypeptide binding]; other site 299768002095 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 299768002096 dimer interface [polypeptide binding]; other site 299768002097 N-terminal domain interface [polypeptide binding]; other site 299768002098 active site 299768002099 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 299768002100 active site 299768002101 thymidine kinase; Provisional; Region: PRK04296 299768002102 peptide chain release factor 1; Validated; Region: prfA; PRK00591 299768002103 RF-1 domain; Region: RF-1; cl02875 299768002104 RF-1 domain; Region: RF-1; cl02875 299768002105 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 299768002106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768002107 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 299768002108 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 299768002109 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 299768002110 dimer interface [polypeptide binding]; other site 299768002111 glycine-pyridoxal phosphate binding site [chemical binding]; other site 299768002112 active site 299768002113 folate binding site [chemical binding]; other site 299768002114 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 299768002115 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 299768002116 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 299768002117 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 299768002118 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768002119 Walker A/P-loop; other site 299768002120 ATP binding site [chemical binding]; other site 299768002121 Q-loop/lid; other site 299768002122 ABC transporter signature motif; other site 299768002123 Walker B; other site 299768002124 D-loop; other site 299768002125 H-loop/switch region; other site 299768002126 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 299768002127 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 299768002128 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 299768002129 Walker A/P-loop; other site 299768002130 ATP binding site [chemical binding]; other site 299768002131 Q-loop/lid; other site 299768002132 ABC transporter signature motif; other site 299768002133 Walker B; other site 299768002134 D-loop; other site 299768002135 H-loop/switch region; other site 299768002136 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 299768002137 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 299768002138 AMP-binding enzyme; Region: AMP-binding; cl15778 299768002139 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 299768002140 Phosphopantetheine attachment site; Region: PP-binding; cl09936 299768002141 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 299768002142 DltD N-terminal region; Region: DltD_N; pfam04915 299768002143 DltD central region; Region: DltD_M; pfam04918 299768002144 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 299768002145 Integrase core domain; Region: rve_3; cl15866 299768002146 Integrase core domain; Region: rve; cl01316 299768002147 HTH-like domain; Region: HTH_21; pfam13276 299768002148 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 299768002149 plasma-membrane calcium-translocating P-type ATPase; Region: ATPase-IIB_Ca; TIGR01517 299768002150 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 299768002151 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 299768002152 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 299768002153 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 299768002154 anthranilate synthase component I; Reviewed; Region: PRK06404 299768002155 chorismate binding enzyme; Region: Chorismate_bind; cl10555 299768002156 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 299768002157 substrate-cofactor binding pocket; other site 299768002158 homodimer interface [polypeptide binding]; other site 299768002159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768002160 catalytic residue [active] 299768002161 D5 N terminal like; Region: D5_N; cl07360 299768002162 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 299768002163 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 299768002164 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 299768002165 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 299768002166 non-specific DNA binding site [nucleotide binding]; other site 299768002167 salt bridge; other site 299768002168 sequence-specific DNA binding site [nucleotide binding]; other site 299768002169 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 299768002170 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 299768002171 Int/Topo IB signature motif; other site 299768002172 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 299768002173 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 299768002174 THF binding site; other site 299768002175 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 299768002176 substrate binding site [chemical binding]; other site 299768002177 THF binding site; other site 299768002178 zinc-binding site [ion binding]; other site 299768002179 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 299768002180 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 299768002181 FAD binding site [chemical binding]; other site 299768002182 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 299768002183 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 299768002184 active site 299768002185 substrate binding site [chemical binding]; other site 299768002186 metal binding site [ion binding]; metal-binding site 299768002187 Predicted membrane protein [Function unknown]; Region: COG4684 299768002188 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 299768002189 Flavoprotein; Region: Flavoprotein; cl08021 299768002190 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 299768002191 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 299768002192 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 299768002193 Potassium binding sites [ion binding]; other site 299768002194 Cesium cation binding sites [ion binding]; other site 299768002195 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 299768002196 active site 299768002197 phosphorylation site [posttranslational modification] 299768002198 intermolecular recognition site; other site 299768002199 dimerization interface [polypeptide binding]; other site 299768002200 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 299768002201 DNA binding site [nucleotide binding] 299768002202 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 299768002203 dimer interface [polypeptide binding]; other site 299768002204 phosphorylation site [posttranslational modification] 299768002205 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 299768002206 ATP binding site [chemical binding]; other site 299768002207 Mg2+ binding site [ion binding]; other site 299768002208 G-X-G motif; other site 299768002209 putative transposase OrfB; Reviewed; Region: PHA02517 299768002210 HTH-like domain; Region: HTH_21; pfam13276 299768002211 Integrase core domain; Region: rve; cl01316 299768002212 Integrase core domain; Region: rve_3; cl15866 299768002213 Helix-turn-helix domains; Region: HTH; cl00088 299768002214 Helix-turn-helix domains; Region: HTH; cl00088 299768002215 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 299768002216 Helix-turn-helix domains; Region: HTH; cl00088 299768002217 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 299768002218 pantothenate kinase; Provisional; Region: PRK05439 299768002219 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 299768002220 ATP-binding site [chemical binding]; other site 299768002221 CoA-binding site [chemical binding]; other site 299768002222 Mg2+-binding site [ion binding]; other site 299768002223 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 299768002224 S-adenosylmethionine binding site [chemical binding]; other site 299768002225 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 299768002226 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 299768002227 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 299768002228 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 299768002229 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 299768002230 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 299768002231 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 299768002232 active site 299768002233 catalytic residue [active] 299768002234 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 299768002235 active site 299768002236 catalytic motif [active] 299768002237 Zn binding site [ion binding]; other site 299768002238 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 299768002239 ligand binding site [chemical binding]; other site 299768002240 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 299768002241 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 299768002242 Walker A/P-loop; other site 299768002243 ATP binding site [chemical binding]; other site 299768002244 Q-loop/lid; other site 299768002245 ABC transporter signature motif; other site 299768002246 Walker B; other site 299768002247 D-loop; other site 299768002248 H-loop/switch region; other site 299768002249 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 299768002250 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 299768002251 TM-ABC transporter signature motif; other site 299768002252 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 299768002253 TM-ABC transporter signature motif; other site 299768002254 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 299768002255 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 299768002256 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 299768002257 active site 299768002258 substrate binding site [chemical binding]; other site 299768002259 catalytic site [active] 299768002260 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768002261 ATP binding site [chemical binding]; other site 299768002262 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768002263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 299768002264 aspartate aminotransferase; Provisional; Region: PRK05764 299768002265 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 299768002266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768002267 homodimer interface [polypeptide binding]; other site 299768002268 catalytic residue [active] 299768002269 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 299768002270 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 299768002271 putative dimer interface [polypeptide binding]; other site 299768002272 putative anticodon binding site; other site 299768002273 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 299768002274 homodimer interface [polypeptide binding]; other site 299768002275 motif 1; other site 299768002276 motif 2; other site 299768002277 active site 299768002278 motif 3; other site 299768002279 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768002280 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 299768002281 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768002282 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 299768002283 homotrimer interaction site [polypeptide binding]; other site 299768002284 putative active site [active] 299768002285 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 299768002286 Ligand Binding Site [chemical binding]; other site 299768002287 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 299768002288 active site 299768002289 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 299768002290 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 299768002291 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 299768002292 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 299768002293 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 299768002294 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 299768002295 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 299768002296 dimer interface [polypeptide binding]; other site 299768002297 phosphate binding site [ion binding]; other site 299768002298 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 299768002299 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 299768002300 Peptidase family C69; Region: Peptidase_C69; pfam03577 299768002301 Peptidase family C69; Region: Peptidase_C69; pfam03577 299768002302 Peptidase family C69; Region: Peptidase_C69; pfam03577 299768002303 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 299768002304 DNA-binding site [nucleotide binding]; DNA binding site 299768002305 RNA-binding motif; other site 299768002306 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 299768002307 DNA-binding site [nucleotide binding]; DNA binding site 299768002308 RNA-binding motif; other site 299768002309 Transposase, Mutator family; Region: Transposase_mut; pfam00872 299768002310 MULE transposase domain; Region: MULE; pfam10551 299768002311 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 299768002312 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 299768002313 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 299768002314 MULE transposase domain; Region: MULE; pfam10551 299768002315 Transposase, Mutator family; Region: Transposase_mut; pfam00872 299768002316 Transposase, Mutator family; Region: Transposase_mut; pfam00872 299768002317 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 299768002318 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 299768002319 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768002320 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 299768002321 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 299768002322 dimer interface [polypeptide binding]; other site 299768002323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768002324 catalytic residue [active] 299768002325 cystathionine beta-lyase; Provisional; Region: PRK07671 299768002326 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 299768002327 homodimer interface [polypeptide binding]; other site 299768002328 substrate-cofactor binding pocket; other site 299768002329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768002330 catalytic residue [active] 299768002331 serine O-acetyltransferase; Region: cysE; TIGR01172 299768002332 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 299768002333 trimer interface [polypeptide binding]; other site 299768002334 active site 299768002335 substrate binding site [chemical binding]; other site 299768002336 Transposase, Mutator family; Region: Transposase_mut; pfam00872 299768002337 MULE transposase domain; Region: MULE; pfam10551 299768002338 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 299768002339 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 299768002340 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 299768002341 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768002342 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 299768002343 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768002344 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 299768002345 HsdM N-terminal domain; Region: HsdM_N; pfam12161 299768002346 Protease prsW family; Region: PrsW-protease; cl15823 299768002347 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 299768002348 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 299768002349 metal binding site [ion binding]; metal-binding site 299768002350 YodA lipocalin-like domain; Region: YodA; cl01365 299768002351 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768002352 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 299768002353 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 299768002354 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 299768002355 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 299768002356 Helix-turn-helix domains; Region: HTH; cl00088 299768002357 Integrase core domain; Region: rve; cl01316 299768002358 Integrase core domain; Region: rve_3; cl15866 299768002359 Integrase core domain; Region: rve_3; cl15866 299768002360 Transcriptional regulator [Transcription]; Region: LysR; COG0583 299768002361 Helix-turn-helix domains; Region: HTH; cl00088 299768002362 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 299768002363 dimerization interface [polypeptide binding]; other site 299768002364 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 299768002365 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 299768002366 glutaminase active site [active] 299768002367 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 299768002368 dimer interface [polypeptide binding]; other site 299768002369 active site 299768002370 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 299768002371 dimer interface [polypeptide binding]; other site 299768002372 active site 299768002373 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 299768002374 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 299768002375 PhnA protein; Region: PhnA; pfam03831 299768002376 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 299768002377 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 299768002378 dimer interface [polypeptide binding]; other site 299768002379 conserved gate region; other site 299768002380 ABC-ATPase subunit interface; other site 299768002381 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 299768002382 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768002383 Walker A/P-loop; other site 299768002384 ATP binding site [chemical binding]; other site 299768002385 Q-loop/lid; other site 299768002386 ABC transporter signature motif; other site 299768002387 Walker B; other site 299768002388 D-loop; other site 299768002389 H-loop/switch region; other site 299768002390 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 299768002391 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 299768002392 substrate binding pocket [chemical binding]; other site 299768002393 membrane-bound complex binding site; other site 299768002394 hinge residues; other site 299768002395 Y-family of DNA polymerases; Region: PolY; cl12025 299768002396 Y-family of DNA polymerases; Region: PolY; cl12025 299768002397 Y-family of DNA polymerases; Region: PolY; cl12025 299768002398 DNA binding site [nucleotide binding] 299768002399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768002400 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768002401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768002402 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768002403 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768002404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3421 299768002405 ATP binding site [chemical binding]; other site 299768002406 putative Mg++ binding site [ion binding]; other site 299768002407 Type III restriction/modification enzyme methylation subunit; Region: TypeIII_RM_meth; pfam12564 299768002408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768002409 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768002410 GMP synthase; Reviewed; Region: guaA; PRK00074 299768002411 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 299768002412 AMP/PPi binding site [chemical binding]; other site 299768002413 candidate oxyanion hole; other site 299768002414 catalytic triad [active] 299768002415 potential glutamine specificity residues [chemical binding]; other site 299768002416 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 299768002417 ATP Binding subdomain [chemical binding]; other site 299768002418 Dimerization subdomain; other site 299768002419 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 299768002420 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 299768002421 DNA-binding site [nucleotide binding]; DNA binding site 299768002422 UTRA domain; Region: UTRA; cl01230 299768002423 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 299768002424 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 299768002425 signal recognition particle protein; Provisional; Region: PRK10867 299768002426 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 299768002427 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 299768002428 P loop; other site 299768002429 GTP binding site [chemical binding]; other site 299768002430 Signal peptide binding domain; Region: SRP_SPB; pfam02978 299768002431 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 299768002432 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 299768002433 Helix-turn-helix domains; Region: HTH; cl00088 299768002434 3H domain; Region: 3H; pfam02829 299768002435 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 299768002436 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 299768002437 non-specific DNA binding site [nucleotide binding]; other site 299768002438 salt bridge; other site 299768002439 sequence-specific DNA binding site [nucleotide binding]; other site 299768002440 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 299768002441 Catalytic site [active] 299768002442 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 299768002443 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 299768002444 GTP/Mg2+ binding site [chemical binding]; other site 299768002445 G4 box; other site 299768002446 G5 box; other site 299768002447 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768002448 G1 box; other site 299768002449 G1 box; other site 299768002450 GTP/Mg2+ binding site [chemical binding]; other site 299768002451 Switch I region; other site 299768002452 G2 box; other site 299768002453 G2 box; other site 299768002454 G3 box; other site 299768002455 G3 box; other site 299768002456 Switch II region; other site 299768002457 Switch II region; other site 299768002458 G5 box; other site 299768002459 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 299768002460 RNA/DNA hybrid binding site [nucleotide binding]; other site 299768002461 active site 299768002462 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 299768002463 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 299768002464 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 299768002465 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 299768002466 DNA topoisomerase I; Validated; Region: PRK05582 299768002467 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 299768002468 active site 299768002469 interdomain interaction site; other site 299768002470 putative metal-binding site [ion binding]; other site 299768002471 nucleotide binding site [chemical binding]; other site 299768002472 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 299768002473 domain I; other site 299768002474 DNA binding groove [nucleotide binding] 299768002475 phosphate binding site [ion binding]; other site 299768002476 domain II; other site 299768002477 domain III; other site 299768002478 nucleotide binding site [chemical binding]; other site 299768002479 catalytic site [active] 299768002480 domain IV; other site 299768002481 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 299768002482 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 299768002483 TraX protein; Region: TraX; cl05434 299768002484 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 299768002485 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 299768002486 active site 299768002487 phosphorylation site [posttranslational modification] 299768002488 intermolecular recognition site; other site 299768002489 dimerization interface [polypeptide binding]; other site 299768002490 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 299768002491 DNA binding site [nucleotide binding] 299768002492 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 299768002493 dimer interface [polypeptide binding]; other site 299768002494 phosphorylation site [posttranslational modification] 299768002495 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 299768002496 ATP binding site [chemical binding]; other site 299768002497 Mg2+ binding site [ion binding]; other site 299768002498 G-X-G motif; other site 299768002499 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 299768002500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768002501 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 299768002502 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 299768002503 substrate binding site [chemical binding]; other site 299768002504 THF binding site; other site 299768002505 zinc-binding site [ion binding]; other site 299768002506 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 299768002507 active site 299768002508 multimer interface [polypeptide binding]; other site 299768002509 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 299768002510 active site residue [active] 299768002511 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 299768002512 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 299768002513 substrate binding pocket [chemical binding]; other site 299768002514 membrane-bound complex binding site; other site 299768002515 hinge residues; other site 299768002516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768002517 NAD(P) binding site [chemical binding]; other site 299768002518 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768002519 GTP-binding protein LepA; Provisional; Region: PRK05433 299768002520 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 299768002521 G1 box; other site 299768002522 putative GEF interaction site [polypeptide binding]; other site 299768002523 GTP/Mg2+ binding site [chemical binding]; other site 299768002524 Switch I region; other site 299768002525 G2 box; other site 299768002526 G3 box; other site 299768002527 Switch II region; other site 299768002528 G4 box; other site 299768002529 G5 box; other site 299768002530 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 299768002531 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 299768002532 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 299768002533 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 299768002534 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 299768002535 non-specific DNA binding site [nucleotide binding]; other site 299768002536 salt bridge; other site 299768002537 sequence-specific DNA binding site [nucleotide binding]; other site 299768002538 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 299768002539 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 299768002540 non-specific DNA binding site [nucleotide binding]; other site 299768002541 salt bridge; other site 299768002542 sequence-specific DNA binding site [nucleotide binding]; other site 299768002543 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 299768002544 Flagellin N-methylase; Region: FliB; cl00497 299768002545 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 299768002546 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 299768002547 FeS/SAM binding site; other site 299768002548 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 299768002549 Arginase family; Region: Arginase; cl00306 299768002550 acetolactate synthase; Reviewed; Region: PRK08617 299768002551 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 299768002552 PYR/PP interface [polypeptide binding]; other site 299768002553 dimer interface [polypeptide binding]; other site 299768002554 TPP binding site [chemical binding]; other site 299768002555 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 299768002556 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 299768002557 TPP-binding site [chemical binding]; other site 299768002558 dimer interface [polypeptide binding]; other site 299768002559 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 299768002560 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768002561 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768002562 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 299768002563 FtsX-like permease family; Region: FtsX; cl15850 299768002564 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768002565 NAD(P) binding site [chemical binding]; other site 299768002566 active site 299768002567 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 299768002568 Helix-turn-helix domains; Region: HTH; cl00088 299768002569 Cation efflux family; Region: Cation_efflux; cl00316 299768002570 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 299768002571 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 299768002572 active site 299768002573 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 299768002574 active site 299768002575 N-terminal domain interface [polypeptide binding]; other site 299768002576 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768002577 NAD(P) binding site [chemical binding]; other site 299768002578 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 299768002579 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 299768002580 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 299768002581 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 299768002582 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 299768002583 motif II; other site 299768002584 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 299768002585 intersubunit interface [polypeptide binding]; other site 299768002586 MatE; Region: MatE; cl10513 299768002587 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 299768002588 MatE; Region: MatE; cl10513 299768002589 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 299768002590 Domain of unknown function (DUF814); Region: DUF814; pfam05670 299768002591 TraX protein; Region: TraX; cl05434 299768002592 DJ-1 family protein; Region: not_thiJ; TIGR01383 299768002593 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 299768002594 conserved cys residue [active] 299768002595 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 299768002596 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 299768002597 FAD binding pocket [chemical binding]; other site 299768002598 FAD binding motif [chemical binding]; other site 299768002599 phosphate binding motif [ion binding]; other site 299768002600 beta-alpha-beta structure motif; other site 299768002601 NAD binding pocket [chemical binding]; other site 299768002602 Iron coordination center [ion binding]; other site 299768002603 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 299768002604 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 299768002605 heterodimer interface [polypeptide binding]; other site 299768002606 active site 299768002607 FMN binding site [chemical binding]; other site 299768002608 homodimer interface [polypeptide binding]; other site 299768002609 substrate binding site [chemical binding]; other site 299768002610 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 299768002611 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 299768002612 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 299768002613 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 299768002614 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 299768002615 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 299768002616 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cd09699 299768002617 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 299768002618 active site 299768002619 dimer interface [polypeptide binding]; other site 299768002620 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 299768002621 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 299768002622 active site 299768002623 Amidase; Region: Amidase; cl11426 299768002624 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 299768002625 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 299768002626 putative substrate translocation pore; other site 299768002627 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 299768002628 Helix-turn-helix domains; Region: HTH; cl00088 299768002629 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 299768002630 Integrase core domain; Region: rve; cl01316 299768002631 Amidase; Region: Amidase; cl11426 299768002632 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 299768002633 substrate binding pocket [chemical binding]; other site 299768002634 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; cl15306 299768002635 membrane-bound complex binding site; other site 299768002636 hinge residues; other site 299768002637 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 299768002638 dimer interface [polypeptide binding]; other site 299768002639 conserved gate region; other site 299768002640 ABC-ATPase subunit interface; other site 299768002641 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 299768002642 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 299768002643 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 299768002644 active site 299768002645 metal binding site [ion binding]; metal-binding site 299768002646 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 299768002647 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 299768002648 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 299768002649 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 299768002650 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 299768002651 trmE is a tRNA modification GTPase; Region: trmE; cd04164 299768002652 G1 box; other site 299768002653 GTP/Mg2+ binding site [chemical binding]; other site 299768002654 Switch I region; other site 299768002655 G2 box; other site 299768002656 Switch II region; other site 299768002657 G3 box; other site 299768002658 G4 box; other site 299768002659 G5 box; other site 299768002660 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 299768002661 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 299768002662 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 299768002663 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 299768002664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768002665 Family description; Region: UvrD_C_2; cl15862 299768002666 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 299768002667 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 299768002668 homodimer interface [polypeptide binding]; other site 299768002669 substrate-cofactor binding pocket; other site 299768002670 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768002671 catalytic residue [active] 299768002672 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 299768002673 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 299768002674 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 299768002675 dimer interface [polypeptide binding]; other site 299768002676 catalytic triad [active] 299768002677 peroxidatic and resolving cysteines [active] 299768002678 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 299768002679 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 299768002680 Uncharacterized conserved protein [Function unknown]; Region: COG2461 299768002681 Family of unknown function (DUF438); Region: DUF438; pfam04282 299768002682 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 299768002683 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 299768002684 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 299768002685 RNA binding site [nucleotide binding]; other site 299768002686 active site 299768002687 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 299768002688 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 299768002689 active site 299768002690 Riboflavin kinase; Region: Flavokinase; cl03312 299768002691 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 299768002692 ArsC family; Region: ArsC; pfam03960 299768002693 putative catalytic residues [active] 299768002694 thiol/disulfide switch; other site 299768002695 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 299768002696 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 299768002697 active site 299768002698 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 299768002699 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 299768002700 S-adenosylmethionine binding site [chemical binding]; other site 299768002701 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 299768002702 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 299768002703 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 299768002704 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 299768002705 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 299768002706 dimer interface [polypeptide binding]; other site 299768002707 conserved gate region; other site 299768002708 putative PBP binding loops; other site 299768002709 ABC-ATPase subunit interface; other site 299768002710 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 299768002711 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 299768002712 dimer interface [polypeptide binding]; other site 299768002713 conserved gate region; other site 299768002714 putative PBP binding loops; other site 299768002715 ABC-ATPase subunit interface; other site 299768002716 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 299768002717 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 299768002718 Walker A/P-loop; other site 299768002719 ATP binding site [chemical binding]; other site 299768002720 Q-loop/lid; other site 299768002721 ABC transporter signature motif; other site 299768002722 Walker B; other site 299768002723 D-loop; other site 299768002724 H-loop/switch region; other site 299768002725 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 299768002726 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 299768002727 Walker A/P-loop; other site 299768002728 ATP binding site [chemical binding]; other site 299768002729 Q-loop/lid; other site 299768002730 ABC transporter signature motif; other site 299768002731 Walker B; other site 299768002732 D-loop; other site 299768002733 H-loop/switch region; other site 299768002734 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 299768002735 PhoU domain; Region: PhoU; pfam01895 299768002736 PhoU domain; Region: PhoU; pfam01895 299768002737 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 299768002738 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 299768002739 Zn binding site [ion binding]; other site 299768002740 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 299768002741 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 299768002742 DNA binding site [nucleotide binding] 299768002743 Int/Topo IB signature motif; other site 299768002744 active site 299768002745 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 299768002746 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 299768002747 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 299768002748 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 299768002749 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 299768002750 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 299768002751 Transcriptional regulators [Transcription]; Region: PurR; COG1609 299768002752 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 299768002753 DNA binding site [nucleotide binding] 299768002754 domain linker motif; other site 299768002755 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 299768002756 putative dimerization interface [polypeptide binding]; other site 299768002757 putative ligand binding site [chemical binding]; other site 299768002758 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 299768002759 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 299768002760 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 299768002761 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 299768002762 ABC-ATPase subunit interface; other site 299768002763 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768002764 Toxin Fst, type I toxin-antitoxin system; Region: Fst_toxin; pfam13955 299768002765 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 299768002766 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 299768002767 Iron permease FTR1 family; Region: FTR1; cl00475 299768002768 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 299768002769 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 299768002770 Imelysin; Region: Peptidase_M75; cl09159 299768002771 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 299768002772 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 299768002773 putative ligand binding residues [chemical binding]; other site 299768002774 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 299768002775 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 299768002776 Walker A/P-loop; other site 299768002777 ATP binding site [chemical binding]; other site 299768002778 Q-loop/lid; other site 299768002779 ABC transporter signature motif; other site 299768002780 Walker B; other site 299768002781 D-loop; other site 299768002782 H-loop/switch region; other site 299768002783 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 299768002784 ABC-ATPase subunit interface; other site 299768002785 dimer interface [polypeptide binding]; other site 299768002786 putative PBP binding regions; other site 299768002787 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 299768002788 ABC-ATPase subunit interface; other site 299768002789 dimer interface [polypeptide binding]; other site 299768002790 putative PBP binding regions; other site 299768002791 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 299768002792 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 299768002793 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 299768002794 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 299768002795 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 299768002796 active site 299768002797 catalytic site [active] 299768002798 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 299768002799 Transposase, Mutator family; Region: Transposase_mut; pfam00872 299768002800 Transposase, Mutator family; Region: Transposase_mut; pfam00872 299768002801 MULE transposase domain; Region: MULE; pfam10551 299768002802 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 299768002803 Helix-turn-helix domains; Region: HTH; cl00088 299768002804 Integrase core domain; Region: rve; cl01316 299768002805 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 299768002806 putative active site [active] 299768002807 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 299768002808 nudix motif; other site 299768002809 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 299768002810 active site 299768002811 HIGH motif; other site 299768002812 dimer interface [polypeptide binding]; other site 299768002813 KMSKS motif; other site 299768002814 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 299768002815 non-specific DNA binding site [nucleotide binding]; other site 299768002816 salt bridge; other site 299768002817 sequence-specific DNA binding site [nucleotide binding]; other site 299768002818 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 299768002819 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 299768002820 Helix-turn-helix domains; Region: HTH; cl00088 299768002821 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768002822 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 299768002823 active site 299768002824 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 299768002825 E3 interaction surface; other site 299768002826 lipoyl attachment site [posttranslational modification]; other site 299768002827 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 299768002828 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 299768002829 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 299768002830 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 299768002831 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 299768002832 E3 interaction surface; other site 299768002833 lipoyl attachment site [posttranslational modification]; other site 299768002834 e3 binding domain; Region: E3_binding; pfam02817 299768002835 e3 binding domain; Region: E3_binding; pfam02817 299768002836 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 299768002837 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 299768002838 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 299768002839 alpha subunit interface [polypeptide binding]; other site 299768002840 TPP binding site [chemical binding]; other site 299768002841 heterodimer interface [polypeptide binding]; other site 299768002842 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 299768002843 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 299768002844 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 299768002845 tetramer interface [polypeptide binding]; other site 299768002846 TPP-binding site [chemical binding]; other site 299768002847 heterodimer interface [polypeptide binding]; other site 299768002848 phosphorylation loop region [posttranslational modification] 299768002849 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 299768002850 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 299768002851 dihydroorotase; Validated; Region: pyrC; PRK09357 299768002852 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 299768002853 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 299768002854 active site 299768002855 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 299768002856 ligand binding site [chemical binding]; other site 299768002857 active site 299768002858 UGI interface [polypeptide binding]; other site 299768002859 catalytic site [active] 299768002860 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 299768002861 Cation efflux family; Region: Cation_efflux; cl00316 299768002862 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 299768002863 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 299768002864 Domain of unknown function (DUF1958); Region: DUF1958; pfam09211 299768002865 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 299768002866 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 299768002867 active site 299768002868 nucleophile elbow; other site 299768002869 NnaC (CMP-NeuNAc synthetase) _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...; Region: NnaC_like; cd01841 299768002870 active site 299768002871 oxyanion hole [active] 299768002872 catalytic triad [active] 299768002873 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 299768002874 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 299768002875 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 299768002876 ATP binding site [chemical binding]; other site 299768002877 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 299768002878 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 299768002879 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 299768002880 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 299768002881 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 299768002882 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 299768002883 Domain of unknown function DUF20; Region: UPF0118; cl00465 299768002884 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 299768002885 catalytic core [active] 299768002886 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 299768002887 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 299768002888 Transposase, Mutator family; Region: Transposase_mut; pfam00872 299768002889 MULE transposase domain; Region: MULE; pfam10551 299768002890 UDP-D-galactose:(glucosyl)lipopolysaccharide-1, 6-D-galactosyltransferase; Provisional; Region: PRK09922 299768002891 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 299768002892 putative ADP-binding pocket [chemical binding]; other site 299768002893 DDE domain; Region: DDE_Tnp_IS240; pfam13610 299768002894 Integrase core domain; Region: rve; cl01316 299768002895 VanZ like family; Region: VanZ; cl01971 299768002896 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 299768002897 MatE; Region: MatE; cl10513 299768002898 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 299768002899 Core-2/I-Branching enzyme; Region: Branch; pfam02485 299768002900 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 299768002901 active site 299768002902 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 299768002903 trimer interface [polypeptide binding]; other site 299768002904 active site 299768002905 substrate binding site [chemical binding]; other site 299768002906 CoA binding site [chemical binding]; other site 299768002907 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 299768002908 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 299768002909 putative ADP-binding pocket [chemical binding]; other site 299768002910 UDP-galactopyranose mutase; Region: GLF; pfam03275 299768002911 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 299768002912 putative ADP-binding pocket [chemical binding]; other site 299768002913 Bacterial sugar transferase; Region: Bac_transf; cl00939 299768002914 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 299768002915 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768002916 Chain length determinant protein; Region: Wzz; cl01623 299768002917 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 299768002918 DNA polymerase processivity factor; Region: DNA_PPF; pfam02916 299768002919 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 299768002920 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 299768002921 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 299768002922 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 299768002923 catalytic triad [active] 299768002924 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 299768002925 pore gating glutamate residue; other site 299768002926 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 299768002927 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 299768002928 Sulfatase; Region: Sulfatase; cl10460 299768002929 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 299768002930 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 299768002931 tetramer (dimer of dimers) interface [polypeptide binding]; other site 299768002932 active site 299768002933 dimer interface [polypeptide binding]; other site 299768002934 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 299768002935 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 299768002936 putative uracil binding site [chemical binding]; other site 299768002937 putative active site [active] 299768002938 dipeptidase PepV; Reviewed; Region: PRK07318 299768002939 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 299768002940 active site 299768002941 metal binding site [ion binding]; metal-binding site 299768002942 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 299768002943 active site 1 [active] 299768002944 dimer interface [polypeptide binding]; other site 299768002945 hexamer interface [polypeptide binding]; other site 299768002946 active site 2 [active] 299768002947 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 299768002948 Coenzyme A binding pocket [chemical binding]; other site 299768002949 Transposase IS200 like; Region: Y1_Tnp; cl00848 299768002950 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 299768002951 23S rRNA binding site [nucleotide binding]; other site 299768002952 L21 binding site [polypeptide binding]; other site 299768002953 L13 binding site [polypeptide binding]; other site 299768002954 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 299768002955 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 299768002956 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 299768002957 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 299768002958 cytidylate kinase; Provisional; Region: cmk; PRK00023 299768002959 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 299768002960 CMP-binding site; other site 299768002961 The sites determining sugar specificity; other site 299768002962 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 299768002963 peptidase T; Region: peptidase-T; TIGR01882 299768002964 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 299768002965 metal binding site [ion binding]; metal-binding site 299768002966 dimer interface [polypeptide binding]; other site 299768002967 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 299768002968 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; cl10465 299768002969 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 299768002970 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 299768002971 Domain of unknown function DUF20; Region: UPF0118; pfam01594 299768002972 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 299768002973 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 299768002974 putative active site [active] 299768002975 nucleotide binding site [chemical binding]; other site 299768002976 nudix motif; other site 299768002977 putative metal binding site [ion binding]; other site 299768002978 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 299768002979 FtsX-like permease family; Region: FtsX; cl15850 299768002980 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 299768002981 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768002982 Walker A/P-loop; other site 299768002983 ATP binding site [chemical binding]; other site 299768002984 Q-loop/lid; other site 299768002985 ABC transporter signature motif; other site 299768002986 Walker B; other site 299768002987 D-loop; other site 299768002988 H-loop/switch region; other site 299768002989 peptide chain release factor 2; Validated; Region: prfB; PRK00578 299768002990 RF-1 domain; Region: RF-1; cl02875 299768002991 RF-1 domain; Region: RF-1; cl02875 299768002992 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 299768002993 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 299768002994 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 299768002995 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 299768002996 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 299768002997 dimer interface [polypeptide binding]; other site 299768002998 FMN binding site [chemical binding]; other site 299768002999 NADPH bind site [chemical binding]; other site 299768003000 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 299768003001 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 299768003002 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 299768003003 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 299768003004 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 299768003005 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 299768003006 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 299768003007 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 299768003008 Coenzyme A binding pocket [chemical binding]; other site 299768003009 sugar phosphate phosphatase; Provisional; Region: PRK10513 299768003010 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 299768003011 active site 299768003012 motif I; other site 299768003013 motif II; other site 299768003014 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 299768003015 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 299768003016 Protein of unknown function (DUF454); Region: DUF454; cl01063 299768003017 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 299768003018 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 299768003019 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 299768003020 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 299768003021 putative active site [active] 299768003022 heme pocket [chemical binding]; other site 299768003023 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 299768003024 dimer interface [polypeptide binding]; other site 299768003025 phosphorylation site [posttranslational modification] 299768003026 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 299768003027 ATP binding site [chemical binding]; other site 299768003028 Mg2+ binding site [ion binding]; other site 299768003029 G-X-G motif; other site 299768003030 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 299768003031 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 299768003032 active site 299768003033 phosphorylation site [posttranslational modification] 299768003034 intermolecular recognition site; other site 299768003035 dimerization interface [polypeptide binding]; other site 299768003036 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 299768003037 DNA binding site [nucleotide binding] 299768003038 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 299768003039 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 299768003040 Walker A/P-loop; other site 299768003041 ATP binding site [chemical binding]; other site 299768003042 Q-loop/lid; other site 299768003043 ABC transporter signature motif; other site 299768003044 Walker B; other site 299768003045 D-loop; other site 299768003046 H-loop/switch region; other site 299768003047 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 299768003048 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 299768003049 substrate binding pocket [chemical binding]; other site 299768003050 membrane-bound complex binding site; other site 299768003051 hinge residues; other site 299768003052 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 299768003053 dimer interface [polypeptide binding]; other site 299768003054 conserved gate region; other site 299768003055 putative PBP binding loops; other site 299768003056 ABC-ATPase subunit interface; other site 299768003057 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 299768003058 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 299768003059 dimer interface [polypeptide binding]; other site 299768003060 conserved gate region; other site 299768003061 putative PBP binding loops; other site 299768003062 ABC-ATPase subunit interface; other site 299768003063 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 299768003064 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 299768003065 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 299768003066 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 299768003067 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 299768003068 hinge; other site 299768003069 active site 299768003070 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 299768003071 UDP-glucose 4-epimerase; Region: PLN02240 299768003072 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 299768003073 NAD binding site [chemical binding]; other site 299768003074 homodimer interface [polypeptide binding]; other site 299768003075 active site 299768003076 substrate binding site [chemical binding]; other site 299768003077 S-adenosylmethionine synthetase; Validated; Region: PRK05250 299768003078 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 299768003079 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 299768003080 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 299768003081 Helix-turn-helix domains; Region: HTH; cl00088 299768003082 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 299768003083 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 299768003084 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 299768003085 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 299768003086 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 299768003087 Walker A motif; other site 299768003088 ATP binding site [chemical binding]; other site 299768003089 Walker B motif; other site 299768003090 arginine finger; other site 299768003091 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 299768003092 GAF domain; Region: GAF; cl15785 299768003093 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768003094 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 299768003095 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 299768003096 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 299768003097 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 299768003098 putative Cl- selectivity filter; other site 299768003099 putative pore gating glutamate residue; other site 299768003100 Chorismate mutase type II; Region: CM_2; cl00693 299768003101 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 299768003102 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 299768003103 Cl- selectivity filter; other site 299768003104 Cl- binding residues [ion binding]; other site 299768003105 pore gating glutamate residue; other site 299768003106 dimer interface [polypeptide binding]; other site 299768003107 H+/Cl- coupling transport residue; other site 299768003108 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 299768003109 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 299768003110 Predicted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5549 299768003111 Zinc-dependent metalloprotease, MMP_like subfamily. This group contains matrix metalloproteinases (MMPs), serralysins, and the astacin_like family of proteases; Region: ZnMc_MMP_like; cd04268 299768003112 active site 299768003113 Predicted esterase [General function prediction only]; Region: COG0627 299768003114 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 299768003115 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 299768003116 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 299768003117 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 299768003118 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 299768003119 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768003120 Walker A/P-loop; other site 299768003121 ATP binding site [chemical binding]; other site 299768003122 Q-loop/lid; other site 299768003123 ABC transporter signature motif; other site 299768003124 Walker B; other site 299768003125 D-loop; other site 299768003126 H-loop/switch region; other site 299768003127 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 299768003128 TM-ABC transporter signature motif; other site 299768003129 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 299768003130 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 299768003131 zinc binding site [ion binding]; other site 299768003132 putative ligand binding site [chemical binding]; other site 299768003133 pyruvate kinase; Provisional; Region: PRK05826 299768003134 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 299768003135 domain interfaces; other site 299768003136 active site 299768003137 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 299768003138 active site 299768003139 ADP/pyrophosphate binding site [chemical binding]; other site 299768003140 dimerization interface [polypeptide binding]; other site 299768003141 allosteric effector site; other site 299768003142 fructose-1,6-bisphosphate binding site; other site 299768003143 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 299768003144 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 299768003145 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 299768003146 generic binding surface II; other site 299768003147 generic binding surface I; other site 299768003148 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 299768003149 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 299768003150 substrate binding site [chemical binding]; other site 299768003151 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 299768003152 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 299768003153 substrate binding site [chemical binding]; other site 299768003154 ligand binding site [chemical binding]; other site 299768003155 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 299768003156 tartrate dehydrogenase; Provisional; Region: PRK08194 299768003157 2-isopropylmalate synthase; Validated; Region: PRK00915 299768003158 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 299768003159 active site 299768003160 catalytic residues [active] 299768003161 metal binding site [ion binding]; metal-binding site 299768003162 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 299768003163 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 299768003164 catalytic core [active] 299768003165 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 299768003166 Integrase core domain; Region: rve; cl01316 299768003167 Integrase core domain; Region: rve_3; cl15866 299768003168 Helix-turn-helix domains; Region: HTH; cl00088 299768003169 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 299768003170 Dihydroorotate dehydrogenase (DHOD) class 1A 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_1A_like; cd04741 299768003171 active site 299768003172 FMN binding site [chemical binding]; other site 299768003173 substrate binding site [chemical binding]; other site 299768003174 catalytic residues [active] 299768003175 homodimer interface [polypeptide binding]; other site 299768003176 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 299768003177 IHF dimer interface [polypeptide binding]; other site 299768003178 IHF - DNA interface [nucleotide binding]; other site 299768003179 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 299768003180 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 299768003181 active site 299768003182 catalytic triad [active] 299768003183 oxyanion hole [active] 299768003184 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 299768003185 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 299768003186 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 299768003187 Walker A/P-loop; other site 299768003188 ATP binding site [chemical binding]; other site 299768003189 Q-loop/lid; other site 299768003190 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 299768003191 ABC transporter signature motif; other site 299768003192 Walker B; other site 299768003193 D-loop; other site 299768003194 H-loop/switch region; other site 299768003195 Arginine repressor [Transcription]; Region: ArgR; COG1438 299768003196 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 299768003197 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 299768003198 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 299768003199 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 299768003200 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 299768003201 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 299768003202 substrate binding pocket [chemical binding]; other site 299768003203 chain length determination region; other site 299768003204 substrate-Mg2+ binding site; other site 299768003205 catalytic residues [active] 299768003206 aspartate-rich region 1; other site 299768003207 active site lid residues [active] 299768003208 aspartate-rich region 2; other site 299768003209 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 299768003210 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 299768003211 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 299768003212 generic binding surface II; other site 299768003213 generic binding surface I; other site 299768003214 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 299768003215 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 299768003216 minor groove reading motif; other site 299768003217 helix-hairpin-helix signature motif; other site 299768003218 substrate binding pocket [chemical binding]; other site 299768003219 active site 299768003220 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 299768003221 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 299768003222 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 299768003223 Homoserine O-succinyltransferase; Region: HTS; pfam04204 299768003224 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 299768003225 proposed active site lysine [active] 299768003226 conserved cys residue [active] 299768003227 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 299768003228 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 299768003229 active site 299768003230 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 299768003231 DHH family; Region: DHH; pfam01368 299768003232 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 299768003233 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 299768003234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768003235 NAD(P) binding site [chemical binding]; other site 299768003236 active site 299768003237 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 299768003238 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 299768003239 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 299768003240 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 299768003241 HflX GTPase family; Region: HflX; cd01878 299768003242 G1 box; other site 299768003243 GTP/Mg2+ binding site [chemical binding]; other site 299768003244 Switch I region; other site 299768003245 G2 box; other site 299768003246 G3 box; other site 299768003247 Switch II region; other site 299768003248 G4 box; other site 299768003249 G5 box; other site 299768003250 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 299768003251 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 299768003252 hypothetical protein; Provisional; Region: PRK07329 299768003253 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 299768003254 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 299768003255 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 299768003256 active site 299768003257 motif I; other site 299768003258 motif II; other site 299768003259 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 299768003260 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 299768003261 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 299768003262 active site 299768003263 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 299768003264 active site 299768003265 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 299768003266 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 299768003267 FeS/SAM binding site; other site 299768003268 HemN C-terminal domain; Region: HemN_C; pfam06969 299768003269 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 299768003270 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 299768003271 NAD binding site [chemical binding]; other site 299768003272 substrate binding site [chemical binding]; other site 299768003273 homodimer interface [polypeptide binding]; other site 299768003274 active site 299768003275 Cupin domain; Region: Cupin_2; cl09118 299768003276 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 299768003277 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 299768003278 substrate binding site; other site 299768003279 tetramer interface; other site 299768003280 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 299768003281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768003282 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 299768003283 Uncharacterized conserved protein [Function unknown]; Region: COG0327 299768003284 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 299768003285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768003286 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 299768003287 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 299768003288 active site 299768003289 substrate binding site [chemical binding]; other site 299768003290 metal binding site [ion binding]; metal-binding site 299768003291 YbbR-like protein; Region: YbbR; pfam07949 299768003292 YbbR-like protein; Region: YbbR; pfam07949 299768003293 Uncharacterized conserved protein [Function unknown]; Region: COG1624 299768003294 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 299768003295 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 299768003296 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 299768003297 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 299768003298 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 299768003299 catalytic triad [active] 299768003300 Predicted integral membrane protein [Function unknown]; Region: COG0392 299768003301 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 299768003302 Uncharacterized conserved protein [Function unknown]; Region: COG2898 299768003303 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 299768003304 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 299768003305 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 299768003306 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 299768003307 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768003308 Q-loop/lid; other site 299768003309 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 299768003310 ABC transporter signature motif; other site 299768003311 Walker B; other site 299768003312 D-loop; other site 299768003313 ABC transporter; Region: ABC_tran_2; pfam12848 299768003314 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 299768003315 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 299768003316 Sugar specificity; other site 299768003317 Pyrimidine base specificity; other site 299768003318 ATP-binding site [chemical binding]; other site 299768003319 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768003320 DEAD-like helicases superfamily; Region: DEXDc; smart00487 299768003321 ATP binding site [chemical binding]; other site 299768003322 putative Mg++ binding site [ion binding]; other site 299768003323 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 299768003324 nucleotide binding region [chemical binding]; other site 299768003325 ATP-binding site [chemical binding]; other site 299768003326 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 299768003327 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 299768003328 tetrameric interface [polypeptide binding]; other site 299768003329 activator binding site; other site 299768003330 NADP binding site [chemical binding]; other site 299768003331 substrate binding site [chemical binding]; other site 299768003332 catalytic residues [active] 299768003333 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 299768003334 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 299768003335 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 299768003336 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 299768003337 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 299768003338 dimerization domain swap beta strand [polypeptide binding]; other site 299768003339 regulatory protein interface [polypeptide binding]; other site 299768003340 active site 299768003341 regulatory phosphorylation site [posttranslational modification]; other site 299768003342 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 299768003343 isocitrate dehydrogenase; Validated; Region: PRK06451 299768003344 Bacillus subtilis (Bs) citrate synthase (CS)-II_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 299768003345 dimer interface [polypeptide binding]; other site 299768003346 Citrate synthase; Region: Citrate_synt; pfam00285 299768003347 active site 299768003348 citrylCoA binding site [chemical binding]; other site 299768003349 oxalacetate/citrate binding site [chemical binding]; other site 299768003350 coenzyme A binding site [chemical binding]; other site 299768003351 catalytic triad [active] 299768003352 aconitate hydratase; Validated; Region: PRK09277 299768003353 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 299768003354 substrate binding site [chemical binding]; other site 299768003355 ligand binding site [chemical binding]; other site 299768003356 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 299768003357 substrate binding site [chemical binding]; other site 299768003358 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 299768003359 catalytic residues [active] 299768003360 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 299768003361 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 299768003362 Class I ribonucleotide reductase; Region: RNR_I; cd01679 299768003363 active site 299768003364 dimer interface [polypeptide binding]; other site 299768003365 catalytic residues [active] 299768003366 effector binding site; other site 299768003367 R2 peptide binding site; other site 299768003368 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 299768003369 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 299768003370 dimer interface [polypeptide binding]; other site 299768003371 putative radical transfer pathway; other site 299768003372 diiron center [ion binding]; other site 299768003373 tyrosyl radical; other site 299768003374 Helix-turn-helix domains; Region: HTH; cl00088 299768003375 Transposase; Region: DEDD_Tnp_IS110; pfam01548 299768003376 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 299768003377 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 299768003378 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 299768003379 active site 299768003380 metal binding site [ion binding]; metal-binding site 299768003381 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 surface protein substrate is...; Region: Sortase; cl09098 299768003382 active site 299768003383 catalytic site [active] 299768003384 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 surface protein substrate is...; Region: Sortase; cl09098 299768003385 DNA gyrase subunit A; Validated; Region: PRK05560 299768003386 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 299768003387 CAP-like domain; other site 299768003388 active site 299768003389 primary dimer interface [polypeptide binding]; other site 299768003390 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 299768003391 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 299768003392 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 299768003393 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 299768003394 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 299768003395 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 299768003396 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 299768003397 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 299768003398 tetramer (dimer of dimers) interface [polypeptide binding]; other site 299768003399 NAD binding site [chemical binding]; other site 299768003400 dimer interface [polypeptide binding]; other site 299768003401 substrate binding site [chemical binding]; other site 299768003402 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 299768003403 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 299768003404 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 299768003405 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 299768003406 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 299768003407 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 299768003408 ABC transporter; Region: ABC_tran_2; pfam12848 299768003409 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 299768003410 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 299768003411 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 299768003412 dimer interface [polypeptide binding]; other site 299768003413 pyridoxal binding site [chemical binding]; other site 299768003414 ATP binding site [chemical binding]; other site 299768003415 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 299768003416 DNA-binding site [nucleotide binding]; DNA binding site 299768003417 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 299768003418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768003419 homodimer interface [polypeptide binding]; other site 299768003420 catalytic residue [active] 299768003421 ATP cone domain; Region: ATP-cone; pfam03477 299768003422 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 299768003423 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 299768003424 putative tRNA-binding site [nucleotide binding]; other site 299768003425 B3/4 domain; Region: B3_4; cl11458 299768003426 tRNA synthetase B5 domain; Region: B5; cl08394 299768003427 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 299768003428 dimer interface [polypeptide binding]; other site 299768003429 motif 1; other site 299768003430 motif 3; other site 299768003431 motif 2; other site 299768003432 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 299768003433 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 299768003434 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 299768003435 Coenzyme A binding pocket [chemical binding]; other site 299768003436 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 299768003437 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 299768003438 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 299768003439 dimer interface [polypeptide binding]; other site 299768003440 motif 1; other site 299768003441 active site 299768003442 motif 2; other site 299768003443 motif 3; other site 299768003444 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 299768003445 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 299768003446 Walker A/P-loop; other site 299768003447 ATP binding site [chemical binding]; other site 299768003448 Q-loop/lid; other site 299768003449 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 299768003450 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 299768003451 dimer interface [polypeptide binding]; other site 299768003452 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 299768003453 ABC transporter signature motif; other site 299768003454 Walker B; other site 299768003455 D-loop; other site 299768003456 H-loop/switch region; other site 299768003457 ribonuclease III; Reviewed; Region: rnc; PRK00102 299768003458 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 299768003459 dimerization interface [polypeptide binding]; other site 299768003460 active site 299768003461 metal binding site [ion binding]; metal-binding site 299768003462 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 299768003463 dsRNA binding site [nucleotide binding]; other site 299768003464 dihydrodipicolinate synthase; Region: dapA; TIGR00674 299768003465 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 299768003466 dimer interface [polypeptide binding]; other site 299768003467 active site 299768003468 catalytic residue [active] 299768003469 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 299768003470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768003471 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 299768003472 A new structural DNA glycosylase; Region: AlkD_like; cl11434 299768003473 active site 299768003474 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 299768003475 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 299768003476 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768003477 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768003478 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 299768003479 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 299768003480 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 299768003481 putative active site [active] 299768003482 catalytic site [active] 299768003483 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 299768003484 putative active site [active] 299768003485 catalytic site [active] 299768003486 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 299768003487 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 299768003488 GIY-YIG motif/motif A; other site 299768003489 active site 299768003490 catalytic site [active] 299768003491 putative DNA binding site [nucleotide binding]; other site 299768003492 metal binding site [ion binding]; metal-binding site 299768003493 UvrB/uvrC motif; Region: UVR; pfam02151 299768003494 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 299768003495 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 299768003496 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 299768003497 active site 299768003498 motif I; other site 299768003499 motif II; other site 299768003500 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 299768003501 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 299768003502 dimer interface [polypeptide binding]; other site 299768003503 conserved gate region; other site 299768003504 ABC-ATPase subunit interface; other site 299768003505 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768003506 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 299768003507 Walker A/P-loop; other site 299768003508 ATP binding site [chemical binding]; other site 299768003509 Q-loop/lid; other site 299768003510 ABC transporter signature motif; other site 299768003511 Walker B; other site 299768003512 D-loop; other site 299768003513 H-loop/switch region; other site 299768003514 NMT1-like family; Region: NMT1_2; cl15260 299768003515 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 299768003516 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 299768003517 dimer interface [polypeptide binding]; other site 299768003518 conserved gate region; other site 299768003519 ABC-ATPase subunit interface; other site 299768003520 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 299768003521 active sites [active] 299768003522 tetramer interface [polypeptide binding]; other site 299768003523 Protein of unknown function (DUF917); Region: DUF917; pfam06032 299768003524 urocanate hydratase; Provisional; Region: PRK05414 299768003525 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768003526 NAD(P) binding site [chemical binding]; other site 299768003527 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 299768003528 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 299768003529 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 299768003530 putative L-serine binding site [chemical binding]; other site 299768003531 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 299768003532 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 299768003533 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 299768003534 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 299768003535 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 299768003536 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 299768003537 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768003538 H-loop/switch region; other site 299768003539 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768003540 Walker A/P-loop; other site 299768003541 ATP binding site [chemical binding]; other site 299768003542 Q-loop/lid; other site 299768003543 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768003544 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 299768003545 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 299768003546 active site 299768003547 phosphorylation site [posttranslational modification] 299768003548 intermolecular recognition site; other site 299768003549 dimerization interface [polypeptide binding]; other site 299768003550 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 299768003551 DNA binding residues [nucleotide binding] 299768003552 dimerization interface [polypeptide binding]; other site 299768003553 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 299768003554 Histidine kinase; Region: HisKA_3; pfam07730 299768003555 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 299768003556 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 299768003557 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 299768003558 Walker A/P-loop; other site 299768003559 ATP binding site [chemical binding]; other site 299768003560 Q-loop/lid; other site 299768003561 ABC transporter signature motif; other site 299768003562 Walker B; other site 299768003563 D-loop; other site 299768003564 H-loop/switch region; other site 299768003565 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 299768003566 Membrane transport protein; Region: Mem_trans; cl09117 299768003567 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 299768003568 active site 299768003569 catalytic motif [active] 299768003570 Zn binding site [ion binding]; other site 299768003571 FtsX-like permease family; Region: FtsX; cl15850 299768003572 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 299768003573 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 299768003574 Walker A/P-loop; other site 299768003575 ATP binding site [chemical binding]; other site 299768003576 Q-loop/lid; other site 299768003577 ABC transporter signature motif; other site 299768003578 Walker B; other site 299768003579 D-loop; other site 299768003580 H-loop/switch region; other site 299768003581 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 299768003582 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 299768003583 ATP binding site [chemical binding]; other site 299768003584 Mg2+ binding site [ion binding]; other site 299768003585 G-X-G motif; other site 299768003586 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 299768003587 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 299768003588 active site 299768003589 phosphorylation site [posttranslational modification] 299768003590 intermolecular recognition site; other site 299768003591 dimerization interface [polypeptide binding]; other site 299768003592 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 299768003593 DNA binding site [nucleotide binding] 299768003594 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 299768003595 active site 299768003596 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 299768003597 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 299768003598 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 299768003599 multidrug efflux protein; Reviewed; Region: PRK01766 299768003600 MatE; Region: MatE; cl10513 299768003601 MatE; Region: MatE; cl10513 299768003602 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 299768003603 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 299768003604 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 299768003605 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 299768003606 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 299768003607 substrate binding pocket [chemical binding]; other site 299768003608 membrane-bound complex binding site; other site 299768003609 hinge residues; other site 299768003610 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 299768003611 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 299768003612 tetramer interface [polypeptide binding]; other site 299768003613 active site 299768003614 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 299768003615 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768003616 Walker A/P-loop; other site 299768003617 ATP binding site [chemical binding]; other site 299768003618 Q-loop/lid; other site 299768003619 ABC transporter signature motif; other site 299768003620 Walker B; other site 299768003621 D-loop; other site 299768003622 H-loop/switch region; other site 299768003623 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 299768003624 dimer interface [polypeptide binding]; other site 299768003625 conserved gate region; other site 299768003626 putative PBP binding loops; other site 299768003627 ABC-ATPase subunit interface; other site 299768003628 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 299768003629 Coenzyme A binding pocket [chemical binding]; other site 299768003630 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 299768003631 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 299768003632 homodimer interface [polypeptide binding]; other site 299768003633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768003634 catalytic residue [active] 299768003635 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 299768003636 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 299768003637 metal binding site [ion binding]; metal-binding site 299768003638 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 299768003639 active site 299768003640 NAD binding site [chemical binding]; other site 299768003641 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 299768003642 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 299768003643 metal binding site [ion binding]; metal-binding site 299768003644 dimer interface [polypeptide binding]; other site 299768003645 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 299768003646 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 299768003647 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 299768003648 CsbD-like; Region: CsbD; cl15799 299768003649 amino acid transporter; Region: 2A0306; TIGR00909 299768003650 Spore germination protein; Region: Spore_permease; cl15802 299768003651 Spore germination protein; Region: Spore_permease; cl15802 299768003652 Nitroreductase-like family 4. 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_4; cd02140 299768003653 dimer interface [polypeptide binding]; other site 299768003654 FMN binding site [chemical binding]; other site 299768003655 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 299768003656 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 299768003657 putative metal binding site [ion binding]; other site 299768003658 Predicted transcriptional regulator [Transcription]; Region: COG1959 299768003659 Helix-turn-helix domains; Region: HTH; cl00088 299768003660 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 299768003661 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 299768003662 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 299768003663 dimer interface [polypeptide binding]; other site 299768003664 FMN binding site [chemical binding]; other site 299768003665 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 299768003666 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 299768003667 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 299768003668 active site 299768003669 catalytic tetrad [active] 299768003670 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768003671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768003672 Abortive infection C-terminus; Region: Abi_C; pfam14355 299768003673 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 299768003674 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 299768003675 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 299768003676 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 299768003677 ATP binding site [chemical binding]; other site 299768003678 putative Mg++ binding site [ion binding]; other site 299768003679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768003680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 299768003681 hypothetical protein; Provisional; Region: PRK13663 299768003682 Predicted ferric reductase [Inorganic ion transport and metabolism]; Region: COG4097 299768003683 Helix-turn-helix domains; Region: HTH; cl00088 299768003684 DNA binding site [nucleotide binding] 299768003685 Response regulator receiver domain; Region: Response_reg; pfam00072 299768003686 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 299768003687 active site 299768003688 phosphorylation site [posttranslational modification] 299768003689 intermolecular recognition site; other site 299768003690 dimerization interface [polypeptide binding]; other site 299768003691 Fibronectin-binding repeat; Region: SSURE; pfam11966 299768003692 DNA polymerase IV; Reviewed; Region: PRK03103 299768003693 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 299768003694 active site 299768003695 DNA binding site [nucleotide binding] 299768003696 LysE type translocator; Region: LysE; cl00565 299768003697 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 299768003698 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 299768003699 active site 299768003700 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 299768003701 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 299768003702 Ligand binding site; other site 299768003703 metal-binding site 299768003704 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 299768003705 exonuclease SbcC; Region: sbcc; TIGR00618 299768003706 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 299768003707 Walker A/P-loop; other site 299768003708 ATP binding site [chemical binding]; other site 299768003709 Q-loop/lid; other site 299768003710 ABC transporter signature motif; other site 299768003711 Walker B; other site 299768003712 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 299768003713 ABC transporter signature motif; other site 299768003714 Walker B; other site 299768003715 D-loop; other site 299768003716 H-loop/switch region; other site 299768003717 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 299768003718 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 299768003719 active site 299768003720 metal binding site [ion binding]; metal-binding site 299768003721 DNA binding site [nucleotide binding] 299768003722 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 299768003723 Integrase core domain; Region: rve_3; cl15866 299768003724 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 299768003725 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 299768003726 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 299768003727 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 299768003728 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 299768003729 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 299768003730 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 299768003731 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 299768003732 HPr interaction site; other site 299768003733 glycerol kinase (GK) interaction site [polypeptide binding]; other site 299768003734 active site 299768003735 phosphorylation site [posttranslational modification] 299768003736 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 299768003737 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 299768003738 active site 299768003739 catalytic residues [active] 299768003740 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 299768003741 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 299768003742 NAD binding site [chemical binding]; other site 299768003743 homodimer interface [polypeptide binding]; other site 299768003744 active site 299768003745 substrate binding site [chemical binding]; other site 299768003746 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 299768003747 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 299768003748 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 299768003749 galactokinase; Provisional; Region: PRK05322 299768003750 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 299768003751 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 299768003752 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 299768003753 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 299768003754 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 299768003755 DNA binding site [nucleotide binding] 299768003756 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 299768003757 putative dimerization interface [polypeptide binding]; other site 299768003758 putative ligand binding site [chemical binding]; other site 299768003759 Integrase core domain; Region: rve; cl01316 299768003760 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 299768003761 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 299768003762 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 299768003763 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768003764 Walker B; other site 299768003765 D-loop; other site 299768003766 H-loop/switch region; other site 299768003767 ABC transporter; Region: ABC_tran; pfam00005 299768003768 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768003769 Q-loop/lid; other site 299768003770 ABC transporter signature motif; other site 299768003771 Walker B; other site 299768003772 D-loop; other site 299768003773 H-loop/switch region; other site 299768003774 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 299768003775 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 299768003776 ATP-grasp domain; Region: ATP-grasp_4; cl03087 299768003777 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 299768003778 Helix-turn-helix domains; Region: HTH; cl00088 299768003779 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768003780 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768003781 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 299768003782 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768003783 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 299768003784 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 299768003785 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 299768003786 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 299768003787 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 299768003788 RimM N-terminal domain; Region: RimM; pfam01782 299768003789 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 299768003790 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 299768003791 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 299768003792 active site 299768003793 phosphorylation site [posttranslational modification] 299768003794 intermolecular recognition site; other site 299768003795 dimerization interface [polypeptide binding]; other site 299768003796 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 299768003797 DNA binding residues [nucleotide binding] 299768003798 dimerization interface [polypeptide binding]; other site 299768003799 Histidine kinase; Region: HisKA_3; pfam07730 299768003800 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 299768003801 ATP binding site [chemical binding]; other site 299768003802 Mg2+ binding site [ion binding]; other site 299768003803 G-X-G motif; other site 299768003804 Predicted membrane protein [Function unknown]; Region: COG4758 299768003805 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 299768003806 Ion channel; Region: Ion_trans_2; cl11596 299768003807 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 299768003808 Catalytic domain of Protein Kinases; Region: PKc; cd00180 299768003809 active site 299768003810 ATP binding site [chemical binding]; other site 299768003811 substrate binding site [chemical binding]; other site 299768003812 activation loop (A-loop); other site 299768003813 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 299768003814 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 299768003815 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 299768003816 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 299768003817 active site 299768003818 16S rRNA methyltransferase B; Provisional; Region: PRK14902 299768003819 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 299768003820 putative RNA binding site [nucleotide binding]; other site 299768003821 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 299768003822 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 299768003823 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 299768003824 putative active site [active] 299768003825 substrate binding site [chemical binding]; other site 299768003826 putative cosubstrate binding site; other site 299768003827 catalytic site [active] 299768003828 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 299768003829 substrate binding site [chemical binding]; other site 299768003830 primosome assembly protein PriA; Validated; Region: PRK05580 299768003831 primosome assembly protein PriA; Validated; Region: PRK05580 299768003832 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 299768003833 ATP binding site [chemical binding]; other site 299768003834 putative Mg++ binding site [ion binding]; other site 299768003835 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 299768003836 nucleotide binding region [chemical binding]; other site 299768003837 ATP-binding site [chemical binding]; other site 299768003838 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 299768003839 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 299768003840 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 299768003841 catalytic site [active] 299768003842 G-X2-G-X-G-K; other site 299768003843 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 299768003844 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 299768003845 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 299768003846 P loop; other site 299768003847 GTP binding site [chemical binding]; other site 299768003848 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 299768003849 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 299768003850 active site 299768003851 motif I; other site 299768003852 motif II; other site 299768003853 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 299768003854 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 299768003855 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 299768003856 active site 299768003857 motif I; other site 299768003858 motif II; other site 299768003859 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 299768003860 Predicted transcriptional regulators [Transcription]; Region: COG1725 299768003861 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 299768003862 DNA-binding site [nucleotide binding]; DNA binding site 299768003863 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 299768003864 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 299768003865 Walker A/P-loop; other site 299768003866 ATP binding site [chemical binding]; other site 299768003867 Q-loop/lid; other site 299768003868 ABC transporter signature motif; other site 299768003869 Walker B; other site 299768003870 D-loop; other site 299768003871 H-loop/switch region; other site 299768003872 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 299768003873 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 299768003874 Walker A/P-loop; other site 299768003875 ATP binding site [chemical binding]; other site 299768003876 Q-loop/lid; other site 299768003877 ABC transporter signature motif; other site 299768003878 Walker B; other site 299768003879 D-loop; other site 299768003880 H-loop/switch region; other site 299768003881 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 299768003882 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 299768003883 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 299768003884 Walker A/P-loop; other site 299768003885 ATP binding site [chemical binding]; other site 299768003886 Q-loop/lid; other site 299768003887 ABC transporter signature motif; other site 299768003888 Walker B; other site 299768003889 D-loop; other site 299768003890 H-loop/switch region; other site 299768003891 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 299768003892 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 299768003893 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 299768003894 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 299768003895 dimer interface [polypeptide binding]; other site 299768003896 conserved gate region; other site 299768003897 putative PBP binding loops; other site 299768003898 ABC-ATPase subunit interface; other site 299768003899 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 299768003900 dimer interface [polypeptide binding]; other site 299768003901 conserved gate region; other site 299768003902 putative PBP binding loops; other site 299768003903 ABC-ATPase subunit interface; other site 299768003904 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 299768003905 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 299768003906 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 299768003907 Helix-turn-helix domains; Region: HTH; cl00088 299768003908 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768003909 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 299768003910 peptide binding site [polypeptide binding]; other site 299768003911 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 299768003912 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 299768003913 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 299768003914 ABC transporter signature motif; other site 299768003915 Walker B; other site 299768003916 D-loop; other site 299768003917 H-loop/switch region; other site 299768003918 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 299768003919 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 299768003920 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 299768003921 putative substrate translocation pore; other site 299768003922 HTH-like domain; Region: HTH_21; pfam13276 299768003923 Integrase core domain; Region: rve; cl01316 299768003924 Integrase core domain; Region: rve_3; cl15866 299768003925 HTH-like domain; Region: HTH_21; pfam13276 299768003926 Helix-turn-helix domains; Region: HTH; cl00088 299768003927 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 299768003928 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 299768003929 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 299768003930 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 299768003931 active site 299768003932 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 299768003933 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 299768003934 synthetase active site [active] 299768003935 NTP binding site [chemical binding]; other site 299768003936 metal binding site [ion binding]; metal-binding site 299768003937 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 299768003938 putative active site [active] 299768003939 putative metal binding residues [ion binding]; other site 299768003940 signature motif; other site 299768003941 putative triphosphate binding site [ion binding]; other site 299768003942 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 299768003943 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 299768003944 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 299768003945 active site 299768003946 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 299768003947 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 299768003948 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 299768003949 catalytic residue [active] 299768003950 Putative amino acid metabolism; Region: DUF1831; pfam08866 299768003951 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 299768003952 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 299768003953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768003954 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 299768003955 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 299768003956 catalytic triad [active] 299768003957 hypothetical protein; Reviewed; Region: PRK00024 299768003958 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 299768003959 MPN+ (JAMM) motif; other site 299768003960 Zinc-binding site [ion binding]; other site 299768003961 Predicted membrane protein [Function unknown]; Region: COG4713 299768003962 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 299768003963 Rhamnan synthesis protein F; Region: RgpF; cl01529 299768003964 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 299768003965 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 299768003966 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 299768003967 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 299768003968 Walker A/P-loop; other site 299768003969 ATP binding site [chemical binding]; other site 299768003970 Q-loop/lid; other site 299768003971 ABC transporter signature motif; other site 299768003972 Walker B; other site 299768003973 D-loop; other site 299768003974 H-loop/switch region; other site 299768003975 ABC-2 type transporter; Region: ABC2_membrane; cl11417 299768003976 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 299768003977 Probable Catalytic site; other site 299768003978 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 299768003979 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 299768003980 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 299768003981 active site 299768003982 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 299768003983 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 299768003984 Ligand binding site; other site 299768003985 Putative Catalytic site; other site 299768003986 DXD motif; other site 299768003987 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 299768003988 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 299768003989 active site 299768003990 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 299768003991 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 299768003992 active site 299768003993 MatE; Region: MatE; cl10513 299768003994 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 299768003995 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 299768003996 NADP binding site [chemical binding]; other site 299768003997 active site 299768003998 putative substrate binding site [chemical binding]; other site 299768003999 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 299768004000 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 299768004001 Ligand binding site; other site 299768004002 Putative Catalytic site; other site 299768004003 DXD motif; other site 299768004004 Domain of unknown function DUF59; Region: DUF59; cl00941 299768004005 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 299768004006 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 299768004007 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 299768004008 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 299768004009 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 299768004010 DNA binding residues [nucleotide binding] 299768004011 DNA primase; Validated; Region: dnaG; PRK05667 299768004012 CHC2 zinc finger; Region: zf-CHC2; cl15369 299768004013 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 299768004014 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 299768004015 active site 299768004016 metal binding site [ion binding]; metal-binding site 299768004017 interdomain interaction site; other site 299768004018 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 299768004019 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 299768004020 Helix-turn-helix domains; Region: HTH; cl00088 299768004021 Integrase core domain; Region: rve; cl01316 299768004022 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 299768004023 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 299768004024 substrate binding pocket [chemical binding]; other site 299768004025 membrane-bound complex binding site; other site 299768004026 hinge residues; other site 299768004027 transaminase; Validated; Region: PRK07324 299768004028 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 299768004029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768004030 homodimer interface [polypeptide binding]; other site 299768004031 catalytic residue [active] 299768004032 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 299768004033 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 299768004034 substrate binding pocket [chemical binding]; other site 299768004035 membrane-bound complex binding site; other site 299768004036 hinge residues; other site 299768004037 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 299768004038 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 299768004039 substrate binding pocket [chemical binding]; other site 299768004040 membrane-bound complex binding site; other site 299768004041 hinge residues; other site 299768004042 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 299768004043 putative active site [active] 299768004044 nucleotide binding site [chemical binding]; other site 299768004045 nudix motif; other site 299768004046 putative metal binding site [ion binding]; other site 299768004047 excinuclease ABC subunit B; Provisional; Region: PRK05298 299768004048 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 299768004049 ATP binding site [chemical binding]; other site 299768004050 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 299768004051 nucleotide binding region [chemical binding]; other site 299768004052 ATP-binding site [chemical binding]; other site 299768004053 Ultra-violet resistance protein B; Region: UvrB; pfam12344 299768004054 CAAX protease self-immunity; Region: Abi; cl00558 299768004055 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 299768004056 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 299768004057 substrate binding pocket [chemical binding]; other site 299768004058 membrane-bound complex binding site; other site 299768004059 hinge residues; other site 299768004060 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 299768004061 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 299768004062 substrate binding pocket [chemical binding]; other site 299768004063 membrane-bound complex binding site; other site 299768004064 hinge residues; other site 299768004065 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 299768004066 dimer interface [polypeptide binding]; other site 299768004067 conserved gate region; other site 299768004068 putative PBP binding loops; other site 299768004069 ABC-ATPase subunit interface; other site 299768004070 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 299768004071 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 299768004072 Walker A/P-loop; other site 299768004073 ATP binding site [chemical binding]; other site 299768004074 Q-loop/lid; other site 299768004075 ABC transporter signature motif; other site 299768004076 Walker B; other site 299768004077 D-loop; other site 299768004078 H-loop/switch region; other site 299768004079 GTPase CgtA; Reviewed; Region: obgE; PRK12297 299768004080 GTP1/OBG; Region: GTP1_OBG; pfam01018 299768004081 Obg GTPase; Region: Obg; cd01898 299768004082 G1 box; other site 299768004083 GTP/Mg2+ binding site [chemical binding]; other site 299768004084 Switch I region; other site 299768004085 G2 box; other site 299768004086 G3 box; other site 299768004087 Switch II region; other site 299768004088 G4 box; other site 299768004089 G5 box; other site 299768004090 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 299768004091 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 299768004092 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 299768004093 RNA binding surface [nucleotide binding]; other site 299768004094 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 299768004095 active site 299768004096 uracil binding [chemical binding]; other site 299768004097 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 299768004098 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 299768004099 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 299768004100 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 299768004101 non-specific DNA binding site [nucleotide binding]; other site 299768004102 salt bridge; other site 299768004103 sequence-specific DNA binding site [nucleotide binding]; other site 299768004104 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 299768004105 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 299768004106 FeS/SAM binding site; other site 299768004107 Radical SAM superfamily; Region: Radical_SAM; pfam04055 299768004108 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 299768004109 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 299768004110 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 299768004111 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 299768004112 Walker A/P-loop; other site 299768004113 ATP binding site [chemical binding]; other site 299768004114 Q-loop/lid; other site 299768004115 ABC transporter signature motif; other site 299768004116 Walker B; other site 299768004117 D-loop; other site 299768004118 H-loop/switch region; other site 299768004119 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 299768004120 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 299768004121 CoenzymeA binding site [chemical binding]; other site 299768004122 subunit interaction site [polypeptide binding]; other site 299768004123 PHB binding site; other site 299768004124 EamA-like transporter family; Region: EamA; cl01037 299768004125 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 299768004126 EamA-like transporter family; Region: EamA; cl01037 299768004127 phosphoserine phosphatase SerB; Region: serB; TIGR00338 299768004128 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 299768004129 motif II; other site 299768004130 septation ring formation regulator EzrA; Provisional; Region: PRK04778 299768004131 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 299768004132 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 299768004133 Mg2+ binding site [ion binding]; other site 299768004134 G-X-G motif; other site 299768004135 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 299768004136 anchoring element; other site 299768004137 dimer interface [polypeptide binding]; other site 299768004138 ATP binding site [chemical binding]; other site 299768004139 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 299768004140 active site 299768004141 putative metal-binding site [ion binding]; other site 299768004142 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 299768004143 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 299768004144 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 299768004145 motif II; other site 299768004146 LrgB-like family; Region: LrgB; cl00596 299768004147 LrgA family; Region: LrgA; cl00608 299768004148 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 299768004149 ArsC family; Region: ArsC; pfam03960 299768004150 putative ArsC-like catalytic residues; other site 299768004151 putative TRX-like catalytic residues [active] 299768004152 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 299768004153 DNA binding site [nucleotide binding] 299768004154 active site 299768004155 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 299768004156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768004157 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 299768004158 L-serine binding site [chemical binding]; other site 299768004159 ACT domain interface; other site 299768004160 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 299768004161 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 299768004162 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 299768004163 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 299768004164 catalytic residue [active] 299768004165 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 299768004166 N-acetylmannosamine kinase; Provisional; Region: PRK05082 299768004167 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 299768004168 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 299768004169 dimer interface [polypeptide binding]; other site 299768004170 active site 299768004171 metal binding site [ion binding]; metal-binding site 299768004172 glutathione binding site [chemical binding]; other site 299768004173 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 299768004174 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 299768004175 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 299768004176 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 299768004177 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 299768004178 dimer interface [polypeptide binding]; other site 299768004179 conserved gate region; other site 299768004180 putative PBP binding loops; other site 299768004181 ABC-ATPase subunit interface; other site 299768004182 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 299768004183 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 299768004184 dimer interface [polypeptide binding]; other site 299768004185 conserved gate region; other site 299768004186 putative PBP binding loops; other site 299768004187 ABC-ATPase subunit interface; other site 299768004188 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 299768004189 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 299768004190 Walker A/P-loop; other site 299768004191 ATP binding site [chemical binding]; other site 299768004192 Q-loop/lid; other site 299768004193 ABC transporter signature motif; other site 299768004194 Walker B; other site 299768004195 D-loop; other site 299768004196 H-loop/switch region; other site 299768004197 TOBE domain; Region: TOBE_2; cl01440 299768004198 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 299768004199 FAD binding domain; Region: FAD_binding_4; pfam01565 299768004200 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 299768004201 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 299768004202 catalytic center binding site [active] 299768004203 ATP binding site [chemical binding]; other site 299768004204 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 299768004205 homooctamer interface [polypeptide binding]; other site 299768004206 active site 299768004207 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 299768004208 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 299768004209 active site 299768004210 Na/Ca binding site [ion binding]; other site 299768004211 catalytic site [active] 299768004212 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 299768004213 dihydropteroate synthase; Region: DHPS; TIGR01496 299768004214 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 299768004215 substrate binding pocket [chemical binding]; other site 299768004216 dimer interface [polypeptide binding]; other site 299768004217 inhibitor binding site; inhibition site 299768004218 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 299768004219 homodecamer interface [polypeptide binding]; other site 299768004220 GTP cyclohydrolase I; Provisional; Region: PLN03044 299768004221 active site 299768004222 putative catalytic site residues [active] 299768004223 zinc binding site [ion binding]; other site 299768004224 GTP-CH-I/GFRP interaction surface; other site 299768004225 Amino acid permease; Region: AA_permease_2; pfam13520 299768004226 K+ potassium transporter; Region: K_trans; cl15781 299768004227 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 299768004228 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 299768004229 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 299768004230 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 299768004231 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 299768004232 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 299768004233 tellurite resistance protein TehB; Provisional; Region: PRK12335 299768004234 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 299768004235 S-adenosylmethionine binding site [chemical binding]; other site 299768004236 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 299768004237 active site 299768004238 DNA binding site [nucleotide binding] 299768004239 putative phosphate binding site [ion binding]; other site 299768004240 putative catalytic site [active] 299768004241 metal binding site A [ion binding]; metal-binding site 299768004242 AP binding site [nucleotide binding]; other site 299768004243 metal binding site B [ion binding]; metal-binding site 299768004244 QueT transporter; Region: QueT; cl01932 299768004245 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 299768004246 Transposase domain (DUF772); Region: DUF772; cl15789 299768004247 putative lipid kinase; Reviewed; Region: PRK13055 299768004248 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 299768004249 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 299768004250 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 299768004251 nucleotide binding pocket [chemical binding]; other site 299768004252 K-X-D-G motif; other site 299768004253 catalytic site [active] 299768004254 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 299768004255 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 299768004256 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 299768004257 Dimer interface [polypeptide binding]; other site 299768004258 BRCT sequence motif; other site 299768004259 QueT transporter; Region: QueT; cl01932 299768004260 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 299768004261 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 299768004262 active site 299768004263 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 299768004264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 299768004265 DNA-binding site [nucleotide binding]; DNA binding site 299768004266 DRTGG domain; Region: DRTGG; cl12147 299768004267 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 299768004268 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 299768004269 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 299768004270 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 299768004271 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 299768004272 hinge; other site 299768004273 active site 299768004274 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 299768004275 Competence protein; Region: Competence; cl00471 299768004276 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 299768004277 SLBB domain; Region: SLBB; pfam10531 299768004278 comEA protein; Region: comE; TIGR01259 299768004279 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 299768004280 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 299768004281 putative acyl-acceptor binding pocket; other site 299768004282 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 299768004283 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 299768004284 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 299768004285 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 299768004286 S-adenosylmethionine binding site [chemical binding]; other site 299768004287 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 299768004288 GIY-YIG motif/motif A; other site 299768004289 putative active site [active] 299768004290 putative metal binding site [ion binding]; other site 299768004291 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 299768004292 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 299768004293 ATP binding site [chemical binding]; other site 299768004294 Mg++ binding site [ion binding]; other site 299768004295 motif III; other site 299768004296 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 299768004297 nucleotide binding region [chemical binding]; other site 299768004298 ATP-binding site [chemical binding]; other site 299768004299 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 299768004300 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 299768004301 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 299768004302 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 299768004303 non-specific DNA binding site [nucleotide binding]; other site 299768004304 salt bridge; other site 299768004305 sequence-specific DNA binding site [nucleotide binding]; other site 299768004306 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 299768004307 H+ Antiporter protein; Region: 2A0121; TIGR00900 299768004308 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 299768004309 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 299768004310 G1 box; other site 299768004311 putative GEF interaction site [polypeptide binding]; other site 299768004312 GTP/Mg2+ binding site [chemical binding]; other site 299768004313 Switch I region; other site 299768004314 G2 box; other site 299768004315 G3 box; other site 299768004316 Switch II region; other site 299768004317 G4 box; other site 299768004318 G5 box; other site 299768004319 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 299768004320 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; cl02331 299768004321 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 299768004322 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 299768004323 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 299768004324 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 299768004325 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 299768004326 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 299768004327 substrate binding pocket [chemical binding]; other site 299768004328 membrane-bound complex binding site; other site 299768004329 hinge residues; other site 299768004330 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 299768004331 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 299768004332 Walker A/P-loop; other site 299768004333 ATP binding site [chemical binding]; other site 299768004334 Q-loop/lid; other site 299768004335 ABC transporter signature motif; other site 299768004336 Walker B; other site 299768004337 D-loop; other site 299768004338 H-loop/switch region; other site 299768004339 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 299768004340 dimer interface [polypeptide binding]; other site 299768004341 conserved gate region; other site 299768004342 putative PBP binding loops; other site 299768004343 ABC-ATPase subunit interface; other site 299768004344 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 299768004345 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 299768004346 dimer interface [polypeptide binding]; other site 299768004347 conserved gate region; other site 299768004348 putative PBP binding loops; other site 299768004349 ABC-ATPase subunit interface; other site 299768004350 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 299768004351 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 299768004352 ATP-grasp domain; Region: ATP-grasp_4; cl03087 299768004353 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 299768004354 metal-binding site [ion binding] 299768004355 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 299768004356 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 299768004357 metal-binding site [ion binding] 299768004358 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 299768004359 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 299768004360 Helix-turn-helix domains; Region: HTH; cl00088 299768004361 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 299768004362 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 299768004363 substrate binding site [chemical binding]; other site 299768004364 active site 299768004365 catalytic residues [active] 299768004366 heterodimer interface [polypeptide binding]; other site 299768004367 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 299768004368 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 299768004369 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768004370 catalytic residue [active] 299768004371 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 299768004372 active site 299768004373 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 299768004374 active site 299768004375 ribulose/triose binding site [chemical binding]; other site 299768004376 phosphate binding site [ion binding]; other site 299768004377 substrate (anthranilate) binding pocket [chemical binding]; other site 299768004378 product (indole) binding pocket [chemical binding]; other site 299768004379 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 299768004380 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 299768004381 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 299768004382 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 299768004383 Glutamine amidotransferase class-I; Region: GATase; pfam00117 299768004384 glutamine binding [chemical binding]; other site 299768004385 catalytic triad [active] 299768004386 anthranilate synthase component I; Provisional; Region: PRK13570 299768004387 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 299768004388 chorismate binding enzyme; Region: Chorismate_bind; cl10555 299768004389 Chorismate mutase type II; Region: CM_2; cl00693 299768004390 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 299768004391 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 299768004392 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 299768004393 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 299768004394 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 299768004395 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 299768004396 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 299768004397 DNA binding residues [nucleotide binding] 299768004398 dimer interface [polypeptide binding]; other site 299768004399 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 299768004400 active site 299768004401 substrate binding site [chemical binding]; other site 299768004402 catalytic site [active] 299768004403 Helix-turn-helix domains; Region: HTH; cl00088 299768004404 phosphodiesterase; Provisional; Region: PRK12704 299768004405 Domain of unknown function DUF59; Region: DUF59; cl00941 299768004406 6-phosphogluconate dehydratase; Region: edd; TIGR01196 299768004407 Dehydratase family; Region: ILVD_EDD; cl00340 299768004408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768004409 HI0933-like protein; Region: HI0933_like; pfam03486 299768004410 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768004411 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 299768004412 S-adenosylmethionine binding site [chemical binding]; other site 299768004413 Phosphotransferase enzyme family; Region: APH; pfam01636 299768004414 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 299768004415 active site 299768004416 ATP binding site [chemical binding]; other site 299768004417 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 299768004418 substrate binding site [chemical binding]; other site 299768004419 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 299768004420 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 299768004421 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 299768004422 Walker A/P-loop; other site 299768004423 ATP binding site [chemical binding]; other site 299768004424 Q-loop/lid; other site 299768004425 ABC transporter signature motif; other site 299768004426 Walker B; other site 299768004427 D-loop; other site 299768004428 H-loop/switch region; other site 299768004429 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 299768004430 HIT family signature motif; other site 299768004431 catalytic residue [active] 299768004432 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 299768004433 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 299768004434 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 299768004435 Walker A motif; other site 299768004436 ATP binding site [chemical binding]; other site 299768004437 Walker B motif; other site 299768004438 arginine finger; other site 299768004439 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 299768004440 Walker A motif; other site 299768004441 ATP binding site [chemical binding]; other site 299768004442 Walker B motif; other site 299768004443 arginine finger; other site 299768004444 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 299768004445 hypothetical protein; Provisional; Region: PRK13670 299768004446 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 299768004447 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 299768004448 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 299768004449 S-adenosylmethionine binding site [chemical binding]; other site 299768004450 Oligomerisation domain; Region: Oligomerisation; cl00519 299768004451 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 299768004452 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 299768004453 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 299768004454 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 299768004455 active site 299768004456 (T/H)XGH motif; other site 299768004457 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 299768004458 GTPase YqeH; Provisional; Region: PRK13796 299768004459 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 299768004460 GTP/Mg2+ binding site [chemical binding]; other site 299768004461 G4 box; other site 299768004462 G5 box; other site 299768004463 G1 box; other site 299768004464 Switch I region; other site 299768004465 G2 box; other site 299768004466 G3 box; other site 299768004467 Switch II region; other site 299768004468 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 299768004469 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 299768004470 active site 299768004471 motif I; other site 299768004472 motif II; other site 299768004473 EamA-like transporter family; Region: EamA; cl01037 299768004474 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 299768004475 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 299768004476 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 299768004477 GatB domain; Region: GatB_Yqey; cl11497 299768004478 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 299768004479 Amidase; Region: Amidase; cl11426 299768004480 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 299768004481 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 299768004482 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 299768004483 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 299768004484 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 299768004485 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 299768004486 NMT1-like family; Region: NMT1_2; cl15260 299768004487 Isochorismatase family; Region: Isochorismatase; pfam00857 299768004488 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 299768004489 catalytic triad [active] 299768004490 conserved cis-peptide bond; other site 299768004491 transcriptional repressor CodY; Validated; Region: PRK04158 299768004492 CodY GAF-like domain; Region: CodY; pfam06018 299768004493 Helix-turn-helix domains; Region: HTH; cl00088 299768004494 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 299768004495 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 299768004496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768004497 homodimer interface [polypeptide binding]; other site 299768004498 catalytic residue [active] 299768004499 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 299768004500 Ligand Binding Site [chemical binding]; other site 299768004501 Integrase core domain; Region: rve; cl01316 299768004502 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 299768004503 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 299768004504 FeS/SAM binding site; other site 299768004505 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 299768004506 Domain of unknown function DUF21; Region: DUF21; pfam01595 299768004507 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 299768004508 Transporter associated domain; Region: CorC_HlyC; cl08393 299768004509 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 299768004510 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768004511 Walker A/P-loop; other site 299768004512 ATP binding site [chemical binding]; other site 299768004513 Q-loop/lid; other site 299768004514 ABC transporter signature motif; other site 299768004515 Walker B; other site 299768004516 D-loop; other site 299768004517 H-loop/switch region; other site 299768004518 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 299768004519 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768004520 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 299768004521 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 299768004522 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 299768004523 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 299768004524 protein binding site [polypeptide binding]; other site 299768004525 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 299768004526 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 299768004527 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 299768004528 active site 299768004529 (T/H)XGH motif; other site 299768004530 Predicted methyltransferase [General function prediction only]; Region: COG2520 299768004531 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 299768004532 S-adenosylmethionine binding site [chemical binding]; other site 299768004533 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 299768004534 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768004535 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 299768004536 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 299768004537 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 299768004538 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 299768004539 Walker A/P-loop; other site 299768004540 ATP binding site [chemical binding]; other site 299768004541 Q-loop/lid; other site 299768004542 ABC transporter signature motif; other site 299768004543 Walker B; other site 299768004544 D-loop; other site 299768004545 H-loop/switch region; other site 299768004546 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 299768004547 dimer interface [polypeptide binding]; other site 299768004548 conserved gate region; other site 299768004549 putative PBP binding loops; other site 299768004550 ABC-ATPase subunit interface; other site 299768004551 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 299768004552 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 299768004553 substrate binding pocket [chemical binding]; other site 299768004554 membrane-bound complex binding site; other site 299768004555 hinge residues; other site 299768004556 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 299768004557 active site 299768004558 DNA polymerase IV; Validated; Region: PRK02406 299768004559 DNA binding site [nucleotide binding] 299768004560 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 299768004561 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 299768004562 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 299768004563 active site 299768004564 zinc binding site [ion binding]; other site 299768004565 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 299768004566 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 299768004567 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 299768004568 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 299768004569 DNA binding site [nucleotide binding] 299768004570 Int/Topo IB signature motif; other site 299768004571 active site 299768004572 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; cl00630 299768004573 putative active site [active] 299768004574 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 299768004575 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 299768004576 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 299768004577 Walker A/P-loop; other site 299768004578 ATP binding site [chemical binding]; other site 299768004579 Q-loop/lid; other site 299768004580 ABC transporter signature motif; other site 299768004581 Walker B; other site 299768004582 D-loop; other site 299768004583 H-loop/switch region; other site 299768004584 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 299768004585 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 299768004586 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 299768004587 Helix-turn-helix domains; Region: HTH; cl00088 299768004588 Integrase core domain; Region: rve; cl01316 299768004589 CAAX protease self-immunity; Region: Abi; cl00558 299768004590 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 299768004591 amphipathic channel; other site 299768004592 Asn-Pro-Ala signature motifs; other site 299768004593 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 299768004594 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; cl07696 299768004595 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 299768004596 Helix-turn-helix domains; Region: HTH; cl00088 299768004597 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 299768004598 Helix-turn-helix domains; Region: HTH; cl00088 299768004599 putative transposase OrfB; Reviewed; Region: PHA02517 299768004600 HTH-like domain; Region: HTH_21; pfam13276 299768004601 Integrase core domain; Region: rve; cl01316 299768004602 Integrase core domain; Region: rve_3; cl15866 299768004603 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 299768004604 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 299768004605 active site 299768004606 phosphorylation site [posttranslational modification] 299768004607 intermolecular recognition site; other site 299768004608 dimerization interface [polypeptide binding]; other site 299768004609 LytTr DNA-binding domain; Region: LytTR; cl04498 299768004610 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 299768004611 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 299768004612 COMC family; Region: ComC; pfam03047 299768004613 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 299768004614 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 299768004615 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 299768004616 A sub-family of peptidase family C39. 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; Region: Peptidase_C39B; cd02418 299768004617 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 299768004618 putative active site [active] 299768004619 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 299768004620 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768004621 Walker A/P-loop; other site 299768004622 ATP binding site [chemical binding]; other site 299768004623 Q-loop/lid; other site 299768004624 ABC transporter signature motif; other site 299768004625 Walker B; other site 299768004626 D-loop; other site 299768004627 H-loop/switch region; other site 299768004628 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 299768004629 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 299768004630 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 299768004631 Walker A/P-loop; other site 299768004632 ATP binding site [chemical binding]; other site 299768004633 Q-loop/lid; other site 299768004634 ABC transporter signature motif; other site 299768004635 Walker B; other site 299768004636 D-loop; other site 299768004637 H-loop/switch region; other site 299768004638 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 299768004639 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 299768004640 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768004641 Walker A/P-loop; other site 299768004642 ATP binding site [chemical binding]; other site 299768004643 Q-loop/lid; other site 299768004644 ABC transporter signature motif; other site 299768004645 Walker B; other site 299768004646 D-loop; other site 299768004647 H-loop/switch region; other site 299768004648 VanZ like family; Region: VanZ; cl01971 299768004649 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 299768004650 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 299768004651 FeS/SAM binding site; other site 299768004652 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 299768004653 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 299768004654 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 299768004655 active site 299768004656 metal binding site [ion binding]; metal-binding site 299768004657 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 299768004658 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 299768004659 DEAD-like helicases superfamily; Region: DEXDc; smart00487 299768004660 ATP binding site [chemical binding]; other site 299768004661 Mg++ binding site [ion binding]; other site 299768004662 motif III; other site 299768004663 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 299768004664 nucleotide binding region [chemical binding]; other site 299768004665 ATP-binding site [chemical binding]; other site 299768004666 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 299768004667 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 299768004668 Mg++ binding site [ion binding]; other site 299768004669 putative catalytic motif [active] 299768004670 putative substrate binding site [chemical binding]; other site 299768004671 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 299768004672 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 299768004673 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 299768004674 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 299768004675 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 299768004676 Septum formation initiator; Region: DivIC; cl11433 299768004677 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 299768004678 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768004679 Protein of unknown function (DUF805); Region: DUF805; cl01224 299768004680 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 299768004681 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 299768004682 putative catalytic cysteine [active] 299768004683 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 299768004684 nucleotide binding site [chemical binding]; other site 299768004685 homotetrameric interface [polypeptide binding]; other site 299768004686 putative phosphate binding site [ion binding]; other site 299768004687 putative allosteric binding site; other site 299768004688 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768004689 ABC transporter signature motif; other site 299768004690 Walker B; other site 299768004691 D-loop; other site 299768004692 H-loop/switch region; other site 299768004693 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768004694 Walker A/P-loop; other site 299768004695 ATP binding site [chemical binding]; other site 299768004696 Q-loop/lid; other site 299768004697 Protein of unknown function (DUF554); Region: DUF554; cl00784 299768004698 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 299768004699 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768004700 Family description; Region: UvrD_C_2; cl15862 299768004701 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 299768004702 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 299768004703 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 299768004704 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 299768004705 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 299768004706 active site 299768004707 motif I; other site 299768004708 motif II; other site 299768004709 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 299768004710 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 299768004711 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 299768004712 active site 299768004713 homotetramer interface [polypeptide binding]; other site 299768004714 homodimer interface [polypeptide binding]; other site 299768004715 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 299768004716 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 299768004717 generic binding surface II; other site 299768004718 ssDNA binding site; other site 299768004719 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 299768004720 ATP binding site [chemical binding]; other site 299768004721 putative Mg++ binding site [ion binding]; other site 299768004722 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 299768004723 nucleotide binding region [chemical binding]; other site 299768004724 ATP-binding site [chemical binding]; other site 299768004725 alanine racemase; Reviewed; Region: alr; PRK00053 299768004726 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 299768004727 active site 299768004728 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 299768004729 dimer interface [polypeptide binding]; other site 299768004730 substrate binding site [chemical binding]; other site 299768004731 catalytic residues [active] 299768004732 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 299768004733 NeuB family; Region: NeuB; cl00496 299768004734 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 299768004735 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 299768004736 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 299768004737 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 299768004738 nucleotide binding region [chemical binding]; other site 299768004739 ATP-binding site [chemical binding]; other site 299768004740 SEC-C motif; Region: SEC-C; pfam02810 299768004741 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 299768004742 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 299768004743 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 299768004744 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 299768004745 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 299768004746 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 299768004747 active site turn [active] 299768004748 phosphorylation site [posttranslational modification] 299768004749 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 299768004750 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 299768004751 HPr interaction site; other site 299768004752 glycerol kinase (GK) interaction site [polypeptide binding]; other site 299768004753 active site 299768004754 phosphorylation site [posttranslational modification] 299768004755 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 299768004756 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 299768004757 substrate binding [chemical binding]; other site 299768004758 active site 299768004759 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 299768004760 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 299768004761 DNA binding site [nucleotide binding] 299768004762 domain linker motif; other site 299768004763 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 299768004764 Transcription termination factor NusB (N protein-Utilization Substance B). NusB plays a key role in the regulation of ribosomal RNA biosynthesis in eubacteria by modulating the efficiency of transcriptional antitermination. NusB along with other Nus...; Region: Terminator_NusB; cd00619 299768004765 putative RNA binding site [nucleotide binding]; other site 299768004766 Asp23 family; Region: Asp23; cl00574 299768004767 elongation factor P; Validated; Region: PRK00529 299768004768 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 299768004769 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 299768004770 RNA binding site [nucleotide binding]; other site 299768004771 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 299768004772 RNA binding site [nucleotide binding]; other site 299768004773 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 299768004774 catalytic motif [active] 299768004775 Zn binding site [ion binding]; other site 299768004776 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 299768004777 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 299768004778 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 299768004779 active site 299768004780 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768004781 D-loop; other site 299768004782 H-loop/switch region; other site 299768004783 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768004784 Q-loop/lid; other site 299768004785 ABC transporter signature motif; other site 299768004786 Walker B; other site 299768004787 Protein of unknown function (DUF3923); Region: DUF3923; pfam13061 299768004788 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 299768004789 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 299768004790 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 299768004791 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 299768004792 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 299768004793 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 299768004794 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 299768004795 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 299768004796 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 299768004797 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 299768004798 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 299768004799 dimer interface [polypeptide binding]; other site 299768004800 ssDNA binding site [nucleotide binding]; other site 299768004801 tetramer (dimer of dimers) interface [polypeptide binding]; other site 299768004802 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 299768004803 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 299768004804 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 299768004805 minor groove reading motif; other site 299768004806 helix-hairpin-helix signature motif; other site 299768004807 substrate binding pocket [chemical binding]; other site 299768004808 active site 299768004809 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 299768004810 DNA binding and oxoG recognition site [nucleotide binding] 299768004811 DNA polymerase I; Provisional; Region: PRK05755 299768004812 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 299768004813 active site 299768004814 metal binding site 1 [ion binding]; metal-binding site 299768004815 putative 5' ssDNA interaction site; other site 299768004816 metal binding site 3; metal-binding site 299768004817 metal binding site 2 [ion binding]; metal-binding site 299768004818 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 299768004819 putative DNA binding site [nucleotide binding]; other site 299768004820 putative metal binding site [ion binding]; other site 299768004821 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 299768004822 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 299768004823 active site 299768004824 DNA binding site [nucleotide binding] 299768004825 catalytic site [active] 299768004826 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 299768004827 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 299768004828 Walker A/P-loop; other site 299768004829 ATP binding site [chemical binding]; other site 299768004830 Q-loop/lid; other site 299768004831 ABC transporter signature motif; other site 299768004832 Walker B; other site 299768004833 D-loop; other site 299768004834 H-loop/switch region; other site 299768004835 Smr domain; Region: Smr; cl02619 299768004836 Colicin V production protein; Region: Colicin_V; cl00567 299768004837 ribonuclease HIII; Provisional; Region: PRK00996 299768004838 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 299768004839 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 299768004840 RNA/DNA hybrid binding site [nucleotide binding]; other site 299768004841 active site 299768004842 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 299768004843 Catalytic site [active] 299768004844 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 299768004845 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 299768004846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768004847 Family description; Region: UvrD_C_2; cl15862 299768004848 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 299768004849 AzlC protein; Region: AzlC; cl00570 299768004850 UGMP family protein; Validated; Region: PRK09604 299768004851 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 299768004852 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 299768004853 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 299768004854 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 299768004855 Coenzyme A binding pocket [chemical binding]; other site 299768004856 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 299768004857 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 299768004858 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 299768004859 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 299768004860 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 299768004861 NlpC/P60 family; Region: NLPC_P60; cl11438 299768004862 glutamine synthetase, type I; Region: GlnA; TIGR00653 299768004863 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 299768004864 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 299768004865 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 299768004866 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 299768004867 DNA binding residues [nucleotide binding] 299768004868 putative dimer interface [polypeptide binding]; other site 299768004869 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 299768004870 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768004871 Transposase; Region: DDE_Tnp_ISL3; pfam01610 299768004872 Phosphoglycerate kinase; Region: PGK; pfam00162 299768004873 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 299768004874 substrate binding site [chemical binding]; other site 299768004875 hinge regions; other site 299768004876 ADP binding site [chemical binding]; other site 299768004877 catalytic site [active] 299768004878 Transposase IS200 like; Region: Y1_Tnp; cl00848 299768004879 Helix-turn-helix domains; Region: HTH; cl00088 299768004880 HTH-like domain; Region: HTH_21; pfam13276 299768004881 Integrase core domain; Region: rve; cl01316 299768004882 Integrase core domain; Region: rve_3; cl15866 299768004883 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768004884 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 299768004885 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 299768004886 elongation factor G; Reviewed; Region: PRK00007 299768004887 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 299768004888 G1 box; other site 299768004889 putative GEF interaction site [polypeptide binding]; other site 299768004890 GTP/Mg2+ binding site [chemical binding]; other site 299768004891 Switch I region; other site 299768004892 G2 box; other site 299768004893 G3 box; other site 299768004894 Switch II region; other site 299768004895 G4 box; other site 299768004896 G5 box; other site 299768004897 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 299768004898 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 299768004899 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 299768004900 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 299768004901 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 299768004902 S17 interaction site [polypeptide binding]; other site 299768004903 S8 interaction site; other site 299768004904 16S rRNA interaction site [nucleotide binding]; other site 299768004905 streptomycin interaction site [chemical binding]; other site 299768004906 23S rRNA interaction site [nucleotide binding]; other site 299768004907 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 299768004908 pur operon repressor; Provisional; Region: PRK09213 299768004909 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 299768004910 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 299768004911 active site 299768004912 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 299768004913 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 299768004914 generic binding surface II; other site 299768004915 generic binding surface I; other site 299768004916 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 299768004917 Zn2+ binding site [ion binding]; other site 299768004918 Mg2+ binding site [ion binding]; other site 299768004919 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 299768004920 RmuC family; Region: RmuC; pfam02646 299768004921 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 299768004922 Thiamine pyrophosphokinase; Region: TPK; cd07995 299768004923 active site 299768004924 dimerization interface [polypeptide binding]; other site 299768004925 thiamine binding site [chemical binding]; other site 299768004926 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 299768004927 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 299768004928 substrate binding site [chemical binding]; other site 299768004929 hexamer interface [polypeptide binding]; other site 299768004930 metal binding site [ion binding]; metal-binding site 299768004931 GTPase RsgA; Reviewed; Region: PRK00098 299768004932 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 299768004933 RNA binding site [nucleotide binding]; other site 299768004934 homodimer interface [polypeptide binding]; other site 299768004935 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 299768004936 GTPase/Zn-binding domain interface [polypeptide binding]; other site 299768004937 GTP/Mg2+ binding site [chemical binding]; other site 299768004938 G4 box; other site 299768004939 G1 box; other site 299768004940 Switch I region; other site 299768004941 G2 box; other site 299768004942 G3 box; other site 299768004943 Switch II region; other site 299768004944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768004945 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 299768004946 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 299768004947 putative active site [active] 299768004948 putative metal binding site [ion binding]; other site 299768004949 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 299768004950 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 299768004951 active site 299768004952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768004953 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 299768004954 catalytic residues [active] 299768004955 Macro domain, Unknown family 1. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose polymerases)...; Region: Macro_1; cd02906 299768004956 putative ADP-ribose binding site [chemical binding]; other site 299768004957 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 299768004958 catalytic residues [active] 299768004959 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 299768004960 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 299768004961 Transposase IS200 like; Region: Y1_Tnp; cl00848 299768004962 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 299768004963 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 299768004964 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 299768004965 G-X-X-G motif; other site 299768004966 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 299768004967 RxxxH motif; other site 299768004968 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 299768004969 Ribonuclease P; Region: Ribonuclease_P; cl00457 299768004970 argininosuccinate lyase; Provisional; Region: PRK00855 299768004971 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 299768004972 active sites [active] 299768004973 tetramer interface [polypeptide binding]; other site 299768004974 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 299768004975 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 299768004976 ANP binding site [chemical binding]; other site 299768004977 Substrate Binding Site II [chemical binding]; other site 299768004978 Substrate Binding Site I [chemical binding]; other site 299768004979 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 299768004980 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 299768004981 active site 299768004982 HIGH motif; other site 299768004983 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 299768004984 active site 299768004985 KMSKS motif; other site 299768004986 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 299768004987 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 299768004988 mRNA/rRNA interface [nucleotide binding]; other site 299768004989 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 299768004990 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 299768004991 23S rRNA interface [nucleotide binding]; other site 299768004992 L7/L12 interface [polypeptide binding]; other site 299768004993 putative thiostrepton binding site; other site 299768004994 L25 interface [polypeptide binding]; other site 299768004995 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 299768004996 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeD; cd03379 299768004997 active site clefts [active] 299768004998 zinc binding site [ion binding]; other site 299768004999 dimer interface [polypeptide binding]; other site 299768005000 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 299768005001 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 299768005002 DNA repair protein RadA; Provisional; Region: PRK11823 299768005003 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768005004 Walker A motif; other site 299768005005 ATP binding site [chemical binding]; other site 299768005006 Walker B motif; other site 299768005007 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 299768005008 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 299768005009 trimer interface [polypeptide binding]; other site 299768005010 active site 299768005011 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 299768005012 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 299768005013 Uncharacterized conserved protein [Function unknown]; Region: COG2461 299768005014 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 299768005015 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 299768005016 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 299768005017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768005018 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 299768005019 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 299768005020 active site 299768005021 tetramer interface; other site 299768005022 Rhomboid family; Region: Rhomboid; cl11446 299768005023 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 299768005024 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 299768005025 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 299768005026 metal binding site [ion binding]; metal-binding site 299768005027 putative dimer interface [polypeptide binding]; other site 299768005028 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 299768005029 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 299768005030 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 299768005031 trimer interface [polypeptide binding]; other site 299768005032 active site 299768005033 substrate binding site [chemical binding]; other site 299768005034 CoA binding site [chemical binding]; other site 299768005035 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 299768005036 motif II; other site 299768005037 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 299768005038 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 299768005039 S-adenosylmethionine binding site [chemical binding]; other site 299768005040 class IIb bacteriocin, lactobin A/cerein 7B family; Region: bact_IIb_cerein; TIGR03949 299768005041 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 299768005042 nucleoside/Zn binding site; other site 299768005043 dimer interface [polypeptide binding]; other site 299768005044 catalytic motif [active] 299768005045 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 299768005046 dimer interface [polypeptide binding]; other site 299768005047 ssDNA binding site [nucleotide binding]; other site 299768005048 tetramer (dimer of dimers) interface [polypeptide binding]; other site 299768005049 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 299768005050 CPxP motif; other site 299768005051 Sulphur transport; Region: Sulf_transp; cl01018 299768005052 putative inner membrane protein; Provisional; Region: PRK11099 299768005053 Sulphur transport; Region: Sulf_transp; cl01018 299768005054 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 299768005055 putative tRNA-binding site [nucleotide binding]; other site 299768005056 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 299768005057 catalytic residues [active] 299768005058 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 299768005059 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 299768005060 oligomer interface [polypeptide binding]; other site 299768005061 active site 299768005062 metal binding site [ion binding]; metal-binding site 299768005063 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 299768005064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768005065 CAAX protease self-immunity; Region: Abi; cl00558 299768005066 CAAX protease self-immunity; Region: Abi; cl00558 299768005067 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 299768005068 non-specific DNA binding site [nucleotide binding]; other site 299768005069 salt bridge; other site 299768005070 sequence-specific DNA binding site [nucleotide binding]; other site 299768005071 Acetokinase family; Region: Acetate_kinase; cl01029 299768005072 propionate/acetate kinase; Provisional; Region: PRK12379 299768005073 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 299768005074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768005075 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 299768005076 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 299768005077 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 299768005078 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 299768005079 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 299768005080 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 299768005081 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 299768005082 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768005083 Walker A motif; other site 299768005084 ATP binding site [chemical binding]; other site 299768005085 Walker B motif; other site 299768005086 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 299768005087 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 299768005088 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 299768005089 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 299768005090 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 299768005091 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 299768005092 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 299768005093 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 299768005094 G-loop; other site 299768005095 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 299768005096 DNA binding site [nucleotide binding] 299768005097 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 299768005098 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 299768005099 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 299768005100 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 299768005101 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 299768005102 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 299768005103 RPB1 interaction site [polypeptide binding]; other site 299768005104 RPB10 interaction site [polypeptide binding]; other site 299768005105 RPB11 interaction site [polypeptide binding]; other site 299768005106 RPB3 interaction site [polypeptide binding]; other site 299768005107 RPB12 interaction site [polypeptide binding]; other site 299768005108 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 299768005109 Transglycosylase; Region: Transgly; cl07896 299768005110 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 299768005111 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 299768005112 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 299768005113 active site 299768005114 HIGH motif; other site 299768005115 dimer interface [polypeptide binding]; other site 299768005116 KMSKS motif; other site 299768005117 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 299768005118 RNA binding surface [nucleotide binding]; other site 299768005119 ketol-acid reductoisomerase; Provisional; Region: PRK05479 299768005120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768005121 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 299768005122 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 299768005123 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 299768005124 putative valine binding site [chemical binding]; other site 299768005125 dimer interface [polypeptide binding]; other site 299768005126 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 299768005127 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 299768005128 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 299768005129 PYR/PP interface [polypeptide binding]; other site 299768005130 dimer interface [polypeptide binding]; other site 299768005131 TPP binding site [chemical binding]; other site 299768005132 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 299768005133 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 299768005134 TPP-binding site [chemical binding]; other site 299768005135 dimer interface [polypeptide binding]; other site 299768005136 Dehydratase family; Region: ILVD_EDD; cl00340 299768005137 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 299768005138 DAK2 domain; Region: Dak2; cl03685 299768005139 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 299768005140 Asp23 family; Region: Asp23; cl00574 299768005141 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 299768005142 MatE; Region: MatE; cl10513 299768005143 MatE; Region: MatE; cl10513 299768005144 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 299768005145 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 299768005146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 299768005147 catalytic residue [active] 299768005148 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 299768005149 metal binding site [ion binding]; metal-binding site 299768005150 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 299768005151 active site 299768005152 NAD binding site [chemical binding]; other site 299768005153 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 299768005154 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 299768005155 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 299768005156 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 299768005157 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 299768005158 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 299768005159 active site 299768005160 Zn binding site [ion binding]; other site 299768005161 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 299768005162 maltodextrin glucosidase; Provisional; Region: PRK10785 299768005163 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 299768005164 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 299768005165 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 299768005166 HPr interaction site; other site 299768005167 glycerol kinase (GK) interaction site [polypeptide binding]; other site 299768005168 active site 299768005169 phosphorylation site [posttranslational modification] 299768005170 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 299768005171 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 299768005172 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 299768005173 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 299768005174 DNA-binding site [nucleotide binding]; DNA binding site 299768005175 UTRA domain; Region: UTRA; cl01230 299768005176 Protein of unknown function (DUF436); Region: DUF436; cl01860 299768005177 Integrase core domain; Region: rve; cl01316 299768005178 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 299768005179 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 299768005180 hypothetical protein; Provisional; Region: PRK08185 299768005181 intersubunit interface [polypeptide binding]; other site 299768005182 active site 299768005183 zinc binding site [ion binding]; other site 299768005184 Na+ binding site [ion binding]; other site 299768005185 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 299768005186 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 299768005187 Helix-turn-helix domains; Region: HTH; cl00088 299768005188 Integrase core domain; Region: rve; cl01316 299768005189 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 299768005190 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 299768005191 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 299768005192 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 299768005193 alphaNTD homodimer interface [polypeptide binding]; other site 299768005194 alphaNTD - beta interaction site [polypeptide binding]; other site 299768005195 alphaNTD - beta' interaction site [polypeptide binding]; other site 299768005196 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 299768005197 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 299768005198 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 299768005199 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 299768005200 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 299768005201 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 299768005202 rRNA binding site [nucleotide binding]; other site 299768005203 predicted 30S ribosome binding site; other site 299768005204 adenylate kinase; Reviewed; Region: adk; PRK00279 299768005205 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 299768005206 AMP-binding site [chemical binding]; other site 299768005207 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 299768005208 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 299768005209 SecY translocase; Region: SecY; pfam00344 299768005210 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 299768005211 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 299768005212 23S rRNA binding site [nucleotide binding]; other site 299768005213 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 299768005214 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 299768005215 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 299768005216 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 299768005217 23S rRNA interface [nucleotide binding]; other site 299768005218 L21e interface [polypeptide binding]; other site 299768005219 5S rRNA interface [nucleotide binding]; other site 299768005220 L27 interface [polypeptide binding]; other site 299768005221 L5 interface [polypeptide binding]; other site 299768005222 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 299768005223 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 299768005224 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 299768005225 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 299768005226 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 299768005227 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 299768005228 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 299768005229 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 299768005230 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 299768005231 KOW motif; Region: KOW; cl00354 299768005232 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 299768005233 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 299768005234 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 299768005235 23S rRNA interface [nucleotide binding]; other site 299768005236 putative translocon interaction site; other site 299768005237 signal recognition particle (SRP54) interaction site; other site 299768005238 L23 interface [polypeptide binding]; other site 299768005239 trigger factor interaction site; other site 299768005240 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 299768005241 23S rRNA interface [nucleotide binding]; other site 299768005242 5S rRNA interface [nucleotide binding]; other site 299768005243 putative antibiotic binding site [chemical binding]; other site 299768005244 L25 interface [polypeptide binding]; other site 299768005245 L27 interface [polypeptide binding]; other site 299768005246 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 299768005247 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 299768005248 G-X-X-G motif; other site 299768005249 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 299768005250 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 299768005251 putative translocon binding site; other site 299768005252 protein-rRNA interface [nucleotide binding]; other site 299768005253 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 299768005254 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 299768005255 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 299768005256 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 299768005257 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 299768005258 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 299768005259 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 299768005260 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 299768005261 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 299768005262 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 299768005263 Walker A motif; other site 299768005264 ATP binding site [chemical binding]; other site 299768005265 Walker B motif; other site 299768005266 arginine finger; other site 299768005267 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 299768005268 OpgC protein; Region: OpgC_C; cl00792 299768005269 Acyltransferase family; Region: Acyl_transf_3; pfam01757 299768005270 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 299768005271 catalytic triad [active] 299768005272 catalytic triad [active] 299768005273 oxyanion hole [active] 299768005274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 299768005275 Low molecular weight phosphatase family; Region: LMWPc; cd00115 299768005276 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 299768005277 active site 299768005278 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 299768005279 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 299768005280 GDP-binding site [chemical binding]; other site 299768005281 ACT binding site; other site 299768005282 IMP binding site; other site 299768005283 topology modulation protein; Provisional; Region: PRK07261 299768005284 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768005285 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 299768005286 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 299768005287 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 299768005288 ATP binding site [chemical binding]; other site 299768005289 substrate interface [chemical binding]; other site 299768005290 Transposase, Mutator family; Region: Transposase_mut; pfam00872 299768005291 Transposase, Mutator family; Region: Transposase_mut; pfam00872 299768005292 MULE transposase domain; Region: MULE; pfam10551 299768005293 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 299768005294 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 299768005295 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 299768005296 active site 299768005297 ATP binding site [chemical binding]; other site 299768005298 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 299768005299 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 299768005300 Walker A/P-loop; other site 299768005301 ATP binding site [chemical binding]; other site 299768005302 Q-loop/lid; other site 299768005303 ABC transporter signature motif; other site 299768005304 Walker B; other site 299768005305 D-loop; other site 299768005306 H-loop/switch region; other site 299768005307 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 299768005308 anaerobic sulfatase-maturase; Provisional; Region: PRK13758 299768005309 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 299768005310 FeS/SAM binding site; other site 299768005311 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 299768005312 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768005313 Walker A/P-loop; other site 299768005314 ATP binding site [chemical binding]; other site 299768005315 Q-loop/lid; other site 299768005316 ABC transporter signature motif; other site 299768005317 Walker B; other site 299768005318 D-loop; other site 299768005319 H-loop/switch region; other site 299768005320 Replication initiation factor; Region: Rep_trans; pfam02486 299768005321 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 299768005322 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 299768005323 Int/Topo IB signature motif; other site 299768005324 recombination factor protein RarA; Reviewed; Region: PRK13342 299768005325 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 299768005326 Walker A motif; other site 299768005327 ATP binding site [chemical binding]; other site 299768005328 Walker B motif; other site 299768005329 arginine finger; other site 299768005330 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 299768005331 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 299768005332 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 299768005333 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 299768005334 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 299768005335 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 299768005336 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 299768005337 ATP cone domain; Region: ATP-cone; pfam03477 299768005338 Class III ribonucleotide reductase; Region: RNR_III; cd01675 299768005339 effector binding site; other site 299768005340 active site 299768005341 Zn binding site [ion binding]; other site 299768005342 glycine loop; other site 299768005343 Predicted acetyltransferase [General function prediction only]; Region: COG3981 299768005344 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 299768005345 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 299768005346 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 299768005347 FeS/SAM binding site; other site 299768005348 Protein of unknown function (DUF328); Region: DUF328; cl01143 299768005349 Uncharacterized conserved protein [Function unknown]; Region: COG1284 299768005350 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 299768005351 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 299768005352 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 299768005353 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 299768005354 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 299768005355 dimer interface [polypeptide binding]; other site 299768005356 anticodon binding site; other site 299768005357 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 299768005358 homodimer interface [polypeptide binding]; other site 299768005359 motif 1; other site 299768005360 active site 299768005361 motif 2; other site 299768005362 GAD domain; Region: GAD; pfam02938 299768005363 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 299768005364 motif 3; other site 299768005365 HI0933-like protein; Region: HI0933_like; pfam03486 299768005366 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 299768005367 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 299768005368 dimer interface [polypeptide binding]; other site 299768005369 motif 1; other site 299768005370 active site 299768005371 motif 2; other site 299768005372 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 299768005373 anticodon binding site; other site 299768005374 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 299768005375 substrate binding site [chemical binding]; other site 299768005376 zinc-binding site [ion binding]; other site 299768005377 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 299768005378 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 299768005379 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 299768005380 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 299768005381 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 299768005382 Domain of unknown function (DUF389); Region: DUF389; cl00781 299768005383 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 299768005384 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 299768005385 Asp23 family; Region: Asp23; cl00574 299768005386 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 299768005387 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 299768005388 putative active site [active] 299768005389 putative CoA binding site [chemical binding]; other site 299768005390 nudix motif; other site 299768005391 metal binding site [ion binding]; metal-binding site 299768005392 Helix-turn-helix domains; Region: HTH; cl00088 299768005393 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 299768005394 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 299768005395 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 299768005396 Predicted membrane protein [Function unknown]; Region: COG1511 299768005397 ABC-2 type transporter; Region: ABC2_membrane; cl11417 299768005398 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 299768005399 Helix-turn-helix domains; Region: HTH; cl00088 299768005400 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 299768005401 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 299768005402 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 299768005403 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 299768005404 RNA binding surface [nucleotide binding]; other site 299768005405 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 299768005406 replicative DNA helicase; Provisional; Region: PRK05748 299768005407 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 299768005408 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 299768005409 Walker A motif; other site 299768005410 ATP binding site [chemical binding]; other site 299768005411 Walker B motif; other site 299768005412 DNA binding loops [nucleotide binding] 299768005413 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 299768005414 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 299768005415 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 299768005416 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 299768005417 DHH family; Region: DHH; pfam01368 299768005418 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 299768005419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 299768005420 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 299768005421 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 299768005422 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 299768005423 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 299768005424 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 299768005425 putative peptidoglycan binding site; other site 299768005426 Cobalt transport protein; Region: CbiQ; cl00463 299768005427 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 299768005428 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 299768005429 Walker A/P-loop; other site 299768005430 ATP binding site [chemical binding]; other site 299768005431 Q-loop/lid; other site 299768005432 ABC transporter signature motif; other site 299768005433 Walker B; other site 299768005434 D-loop; other site 299768005435 H-loop/switch region; other site 299768005436 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 299768005437 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 299768005438 Walker A/P-loop; other site 299768005439 ATP binding site [chemical binding]; other site 299768005440 Q-loop/lid; other site 299768005441 ABC transporter signature motif; other site 299768005442 Walker B; other site 299768005443 D-loop; other site 299768005444 H-loop/switch region; other site 299768005445 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 299768005446 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 299768005447 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 299768005448 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 299768005449 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 299768005450 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 299768005451 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 299768005452 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 299768005453 recombination protein F; Reviewed; Region: recF; PRK00064 299768005454 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 299768005455 Walker A/P-loop; other site 299768005456 ATP binding site [chemical binding]; other site 299768005457 Q-loop/lid; other site 299768005458 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 299768005459 ABC transporter signature motif; other site 299768005460 Walker B; other site 299768005461 D-loop; other site 299768005462 H-loop/switch region; other site 299768005463 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 299768005464 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 299768005465 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 299768005466 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 299768005467 active site 299768005468 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 299768005469 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 299768005470 active site 299768005471 HIGH motif; other site 299768005472 dimer interface [polypeptide binding]; other site 299768005473 KMSKS motif; other site 299768005474 Uncharacterized conserved protein [Function unknown]; Region: COG1284 299768005475 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 299768005476 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 299768005477 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 299768005478 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 299768005479 Walker A/P-loop; other site 299768005480 ATP binding site [chemical binding]; other site 299768005481 Q-loop/lid; other site 299768005482 ABC transporter signature motif; other site 299768005483 Walker B; other site 299768005484 D-loop; other site 299768005485 H-loop/switch region; other site 299768005486 ABC transporter; Region: ABC_tran_2; pfam12848 299768005487 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 299768005488 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 299768005489 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 299768005490 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 299768005491 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 299768005492 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 299768005493 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 299768005494 protein binding site [polypeptide binding]; other site 299768005495 ParB-like partition proteins; Region: parB_part; TIGR00180 299768005496 ParB-like nuclease domain; Region: ParBc; cl02129