-- dump date 20120504_163115 -- class Genbank::misc_feature -- table misc_feature_note -- id note 322159000001 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159000002 Replication initiation factor; Region: Rep_trans; pfam02486 322159000003 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 322159000004 putative dimer interface [polypeptide binding]; other site 322159000005 Replication protein; Region: Rep_1; cl02412 322159000006 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 322159000007 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 322159000008 Walker A motif; other site 322159000009 ATP binding site [chemical binding]; other site 322159000010 Walker B motif; other site 322159000011 arginine finger; other site 322159000012 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 322159000013 DnaA box-binding interface [nucleotide binding]; other site 322159000014 DNA polymerase III subunit beta; Validated; Region: PRK05643 322159000015 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 322159000016 putative DNA binding surface [nucleotide binding]; other site 322159000017 dimer interface [polypeptide binding]; other site 322159000018 beta-clamp/clamp loader binding surface; other site 322159000019 beta-clamp/translesion DNA polymerase binding surface; other site 322159000020 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159000021 Helix-turn-helix domains; Region: HTH; cl00088 322159000022 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159000023 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 322159000024 GTP-binding protein YchF; Reviewed; Region: PRK09601 322159000025 YchF GTPase; Region: YchF; cd01900 322159000026 G1 box; other site 322159000027 GTP/Mg2+ binding site [chemical binding]; other site 322159000028 Switch I region; other site 322159000029 G2 box; other site 322159000030 Switch II region; other site 322159000031 G3 box; other site 322159000032 G4 box; other site 322159000033 G5 box; other site 322159000034 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 322159000035 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 322159000036 putative active site [active] 322159000037 catalytic residue [active] 322159000038 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 322159000039 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 322159000040 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 322159000041 ATP binding site [chemical binding]; other site 322159000042 putative Mg++ binding site [ion binding]; other site 322159000043 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 322159000044 nucleotide binding region [chemical binding]; other site 322159000045 ATP-binding site [chemical binding]; other site 322159000046 TRCF domain; Region: TRCF; cl04088 322159000047 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 322159000048 Septum formation initiator; Region: DivIC; cl11433 322159000049 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 322159000050 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 322159000051 Ligand Binding Site [chemical binding]; other site 322159000052 B3/4 domain; Region: B3_4; cl11458 322159000053 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 322159000054 active site 322159000055 FtsH Extracellular; Region: FtsH_ext; pfam06480 322159000056 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 322159000057 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 322159000058 Walker A motif; other site 322159000059 ATP binding site [chemical binding]; other site 322159000060 Walker B motif; other site 322159000061 arginine finger; other site 322159000062 Peptidase family M41; Region: Peptidase_M41; pfam01434 322159000063 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159000064 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 322159000065 Integrase core domain; Region: rve; cl01316 322159000066 Integrase core domain; Region: rve_3; cl15866 322159000067 rod shape-determining protein MreC; Provisional; Region: PRK13922 322159000068 rod shape-determining protein MreC; Region: MreC; pfam04085 322159000069 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 322159000070 Septum formation initiator; Region: DivIC; cl11433 322159000071 NlpC/P60 family; Region: NLPC_P60; cl11438 322159000072 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 322159000073 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 322159000074 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 322159000075 active site 322159000076 aromatic amino acid aminotransferase; Validated; Region: PRK07309 322159000077 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 322159000078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159000079 homodimer interface [polypeptide binding]; other site 322159000080 catalytic residue [active] 322159000081 Recombination protein O N terminal; Region: RecO_N; cl15812 322159000082 DNA repair protein RecO; Region: reco; TIGR00613 322159000083 Recombination protein O C terminal; Region: RecO_C; pfam02565 322159000084 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 322159000085 Phosphopantetheine attachment site; Region: PP-binding; cl09936 322159000086 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 322159000087 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 322159000088 ATP binding site [chemical binding]; other site 322159000089 active site 322159000090 substrate binding site [chemical binding]; other site 322159000091 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 322159000092 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 322159000093 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 322159000094 dimerization interface [polypeptide binding]; other site 322159000095 ATP binding site [chemical binding]; other site 322159000096 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 322159000097 dimerization interface [polypeptide binding]; other site 322159000098 ATP binding site [chemical binding]; other site 322159000099 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 322159000100 putative active site [active] 322159000101 catalytic triad [active] 322159000102 amidophosphoribosyltransferase; Provisional; Region: PRK07272 322159000103 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 322159000104 active site 322159000105 tetramer interface [polypeptide binding]; other site 322159000106 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 322159000107 active site 322159000108 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 322159000109 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 322159000110 dimerization interface [polypeptide binding]; other site 322159000111 putative ATP binding site [chemical binding]; other site 322159000112 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 322159000113 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 322159000114 active site 322159000115 substrate binding site [chemical binding]; other site 322159000116 cosubstrate binding site; other site 322159000117 catalytic site [active] 322159000118 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 322159000119 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 322159000120 purine monophosphate binding site [chemical binding]; other site 322159000121 dimer interface [polypeptide binding]; other site 322159000122 putative catalytic residues [active] 322159000123 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 322159000124 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 322159000125 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 322159000126 Helix-turn-helix domains; Region: HTH; cl00088 322159000127 Helix-turn-helix domains; Region: HTH; cl00088 322159000128 NlpC/P60 family; Region: NLPC_P60; cl11438 322159000129 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 322159000130 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 322159000131 ATP-grasp domain; Region: ATP-grasp_4; cl03087 322159000132 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 322159000133 AIR carboxylase; Region: AIRC; cl00310 322159000134 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 322159000135 ATP-grasp domain; Region: ATP-grasp_4; cl03087 322159000136 adenylosuccinate lyase; Provisional; Region: PRK07492 322159000137 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 322159000138 tetramer interface [polypeptide binding]; other site 322159000139 active site 322159000140 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 322159000141 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 322159000142 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 322159000143 active site 322159000144 HIGH motif; other site 322159000145 KMSK motif region; other site 322159000146 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 322159000147 tRNA binding surface [nucleotide binding]; other site 322159000148 anticodon binding site; other site 322159000149 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 322159000150 arginine repressor; Region: argR_whole; TIGR01529 322159000151 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 322159000152 Protein of unknown function (DUF964); Region: DUF964; cl01483 322159000153 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 322159000154 MutS domain I; Region: MutS_I; pfam01624 322159000155 MutS domain II; Region: MutS_II; pfam05188 322159000156 MutS family domain IV; Region: MutS_IV; pfam05190 322159000157 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 322159000158 Walker A/P-loop; other site 322159000159 ATP binding site [chemical binding]; other site 322159000160 Q-loop/lid; other site 322159000161 ABC transporter signature motif; other site 322159000162 Walker B; other site 322159000163 D-loop; other site 322159000164 H-loop/switch region; other site 322159000165 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 322159000166 LytTr DNA-binding domain; Region: LytTR; cl04498 322159000167 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 322159000168 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 322159000169 ATP binding site [chemical binding]; other site 322159000170 Mg2+ binding site [ion binding]; other site 322159000171 G-X-G motif; other site 322159000172 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 322159000173 ATP binding site [chemical binding]; other site 322159000174 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 322159000175 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 322159000176 RuvA N terminal domain; Region: RuvA_N; pfam01330 322159000177 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 322159000178 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 322159000179 competence damage-inducible protein A; Provisional; Region: PRK00549 322159000180 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 322159000181 putative MPT binding site; other site 322159000182 Competence-damaged protein; Region: CinA; cl00666 322159000183 recombinase A; Provisional; Region: recA; PRK09354 322159000184 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 322159000185 hexamer interface [polypeptide binding]; other site 322159000186 Walker A motif; other site 322159000187 ATP binding site [chemical binding]; other site 322159000188 Walker B motif; other site 322159000189 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 322159000190 ArsC family; Region: ArsC; pfam03960 322159000191 putative catalytic residues [active] 322159000192 thiol/disulfide switch; other site 322159000193 DNA polymerase III PolC; Validated; Region: polC; PRK00448 322159000194 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 322159000195 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 322159000196 generic binding surface II; other site 322159000197 generic binding surface I; other site 322159000198 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 322159000199 active site 322159000200 substrate binding site [chemical binding]; other site 322159000201 catalytic site [active] 322159000202 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 322159000203 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 322159000204 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 322159000205 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 322159000206 Integrase core domain; Region: rve; cl01316 322159000207 Integrase core domain; Region: rve_3; cl15866 322159000208 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 322159000209 rRNA interaction site [nucleotide binding]; other site 322159000210 S8 interaction site; other site 322159000211 putative laminin-1 binding site; other site 322159000212 elongation factor Ts; Provisional; Region: tsf; PRK09377 322159000213 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 322159000214 Elongation factor TS; Region: EF_TS; pfam00889 322159000215 Elongation factor TS; Region: EF_TS; pfam00889 322159000216 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 322159000217 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 322159000218 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 322159000219 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 322159000220 Walker A motif; other site 322159000221 ATP binding site [chemical binding]; other site 322159000222 Walker B motif; other site 322159000223 arginine finger; other site 322159000224 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 322159000225 Walker A motif; other site 322159000226 ATP binding site [chemical binding]; other site 322159000227 Walker B motif; other site 322159000228 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 322159000229 Helix-turn-helix domains; Region: HTH; cl00088 322159000230 Helix-turn-helix domains; Region: HTH; cl00088 322159000231 Helix-turn-helix domains; Region: HTH; cl00088 322159000232 putative transposase OrfB; Reviewed; Region: PHA02517 322159000233 HTH-like domain; Region: HTH_21; pfam13276 322159000234 Integrase core domain; Region: rve; cl01316 322159000235 Integrase core domain; Region: rve_3; cl15866 322159000236 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 322159000237 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 322159000238 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 322159000239 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 322159000240 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 322159000241 RNase E interface [polypeptide binding]; other site 322159000242 trimer interface [polypeptide binding]; other site 322159000243 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 322159000244 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 322159000245 RNase E interface [polypeptide binding]; other site 322159000246 trimer interface [polypeptide binding]; other site 322159000247 active site 322159000248 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 322159000249 putative nucleic acid binding region [nucleotide binding]; other site 322159000250 G-X-X-G motif; other site 322159000251 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 322159000252 RNA binding site [nucleotide binding]; other site 322159000253 domain interface; other site 322159000254 serine acetyltransferase; Region: PLN02739 322159000255 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 322159000256 trimer interface [polypeptide binding]; other site 322159000257 active site 322159000258 substrate binding site [chemical binding]; other site 322159000259 CoA binding site [chemical binding]; other site 322159000260 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 322159000261 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 322159000262 active site 322159000263 HIGH motif; other site 322159000264 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 322159000265 KMSKS motif; other site 322159000266 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 322159000267 tRNA binding surface [nucleotide binding]; other site 322159000268 anticodon binding site; other site 322159000269 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 322159000270 active site 322159000271 metal binding site [ion binding]; metal-binding site 322159000272 dimerization interface [polypeptide binding]; other site 322159000273 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 322159000274 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 322159000275 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 322159000276 YacP-like NYN domain; Region: NYN_YacP; cl01491 322159000277 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 322159000278 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159000279 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 322159000280 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 322159000281 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 322159000282 23S rRNA interface [nucleotide binding]; other site 322159000283 L3 interface [polypeptide binding]; other site 322159000284 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 322159000285 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 322159000286 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 322159000287 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159000288 Helix-turn-helix domains; Region: HTH; cl00088 322159000289 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159000290 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 322159000291 Integrase core domain; Region: rve; cl01316 322159000292 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_20; cd08519 322159000293 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 322159000294 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 322159000295 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 322159000296 dimer interface [polypeptide binding]; other site 322159000297 conserved gate region; other site 322159000298 putative PBP binding loops; other site 322159000299 ABC-ATPase subunit interface; other site 322159000300 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 322159000301 dimer interface [polypeptide binding]; other site 322159000302 conserved gate region; other site 322159000303 ABC-ATPase subunit interface; other site 322159000304 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 322159000305 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 322159000306 Walker A/P-loop; other site 322159000307 ATP binding site [chemical binding]; other site 322159000308 Q-loop/lid; other site 322159000309 ABC transporter signature motif; other site 322159000310 Walker B; other site 322159000311 D-loop; other site 322159000312 H-loop/switch region; other site 322159000313 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 322159000314 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 322159000315 Walker A/P-loop; other site 322159000316 ATP binding site [chemical binding]; other site 322159000317 Q-loop/lid; other site 322159000318 ABC transporter signature motif; other site 322159000319 Walker B; other site 322159000320 D-loop; other site 322159000321 H-loop/switch region; other site 322159000322 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 322159000323 Transposase domain (DUF772); Region: DUF772; cl15789 322159000324 Transposase domain (DUF772); Region: DUF772; cl15789 322159000325 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 322159000326 Integrase core domain; Region: rve; cl01316 322159000327 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 322159000328 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 322159000329 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 322159000330 DXD motif; other site 322159000331 GPI transamidase subunit PIG-U; Region: PIG-U; cl08428 322159000332 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 322159000333 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 322159000334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159000335 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159000336 Helix-turn-helix domains; Region: HTH; cl00088 322159000337 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159000338 Integrase core domain; Region: rve; cl01316 322159000339 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 322159000340 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 322159000341 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 322159000342 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 322159000343 catalytic core [active] 322159000344 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 322159000345 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 322159000346 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 322159000347 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 322159000348 Helix-turn-helix domains; Region: HTH; cl00088 322159000349 HrcA protein C terminal domain; Region: HrcA; pfam01628 322159000350 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 322159000351 dimer interface [polypeptide binding]; other site 322159000352 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 322159000353 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 322159000354 chaperone protein DnaJ; Provisional; Region: PRK14276 322159000355 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 322159000356 HSP70 interaction site [polypeptide binding]; other site 322159000357 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 322159000358 substrate binding site [polypeptide binding]; other site 322159000359 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 322159000360 Zn binding sites [ion binding]; other site 322159000361 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 322159000362 dimer interface [polypeptide binding]; other site 322159000363 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 322159000364 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 322159000365 dimerization interface 3.5A [polypeptide binding]; other site 322159000366 active site 322159000367 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 322159000368 substrate binding site [chemical binding]; other site 322159000369 dimer interface [polypeptide binding]; other site 322159000370 ATP binding site [chemical binding]; other site 322159000371 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 322159000372 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 322159000373 S-adenosylmethionine binding site [chemical binding]; other site 322159000374 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 322159000375 Mechanosensitive ion channel; Region: MS_channel; pfam00924 322159000376 trigger factor; Provisional; Region: tig; PRK01490 322159000377 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 322159000378 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 322159000379 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 322159000380 CTP synthetase; Validated; Region: pyrG; PRK05380 322159000381 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 322159000382 Catalytic site [active] 322159000383 active site 322159000384 UTP binding site [chemical binding]; other site 322159000385 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 322159000386 active site 322159000387 putative oxyanion hole; other site 322159000388 catalytic triad [active] 322159000389 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 322159000390 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 322159000391 nudix motif; other site 322159000392 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 322159000393 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 322159000394 S-adenosylmethionine binding site [chemical binding]; other site 322159000395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 322159000396 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 322159000397 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK11907 322159000398 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 322159000399 active site 322159000400 metal binding site [ion binding]; metal-binding site 322159000401 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 322159000402 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 322159000403 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 322159000404 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 322159000405 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 322159000406 synthetase active site [active] 322159000407 NTP binding site [chemical binding]; other site 322159000408 metal binding site [ion binding]; metal-binding site 322159000409 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 322159000410 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 322159000411 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 322159000412 putative active site [active] 322159000413 dimerization interface [polypeptide binding]; other site 322159000414 putative tRNAtyr binding site [nucleotide binding]; other site 322159000415 threonine dehydratase; Validated; Region: PRK08639 322159000416 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 322159000417 tetramer interface [polypeptide binding]; other site 322159000418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159000419 catalytic residue [active] 322159000420 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 322159000421 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 322159000422 active site 322159000423 catalytic residues [active] 322159000424 metal binding site [ion binding]; metal-binding site 322159000425 DNA-binding transcriptional activator YeiL; Provisional; Region: PRK10402 322159000426 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 322159000427 ligand binding site [chemical binding]; other site 322159000428 flexible hinge region; other site 322159000429 Helix-turn-helix domains; Region: HTH; cl00088 322159000430 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 322159000431 Major Facilitator Superfamily; Region: MFS_1; pfam07690 322159000432 putative substrate translocation pore; other site 322159000433 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 322159000434 16S/18S rRNA binding site [nucleotide binding]; other site 322159000435 S13e-L30e interaction site [polypeptide binding]; other site 322159000436 25S rRNA binding site [nucleotide binding]; other site 322159000437 VanZ like family; Region: VanZ; cl01971 322159000438 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 322159000439 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159000440 Walker A/P-loop; other site 322159000441 ATP binding site [chemical binding]; other site 322159000442 Q-loop/lid; other site 322159000443 ABC transporter signature motif; other site 322159000444 Walker B; other site 322159000445 D-loop; other site 322159000446 H-loop/switch region; other site 322159000447 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 322159000448 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 322159000449 substrate binding pocket [chemical binding]; other site 322159000450 membrane-bound complex binding site; other site 322159000451 hinge residues; other site 322159000452 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 322159000453 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 322159000454 dimer interface [polypeptide binding]; other site 322159000455 conserved gate region; other site 322159000456 putative PBP binding loops; other site 322159000457 ABC-ATPase subunit interface; other site 322159000458 Bacitracin resistance protein BacA; Region: BacA; cl00858 322159000459 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 322159000460 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 322159000461 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 322159000462 Mg++ binding site [ion binding]; other site 322159000463 putative catalytic motif [active] 322159000464 substrate binding site [chemical binding]; other site 322159000465 FeS assembly ATPase SufC; Region: sufC; TIGR01978 322159000466 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 322159000467 Walker A/P-loop; other site 322159000468 ATP binding site [chemical binding]; other site 322159000469 Q-loop/lid; other site 322159000470 ABC transporter signature motif; other site 322159000471 Walker B; other site 322159000472 D-loop; other site 322159000473 H-loop/switch region; other site 322159000474 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 322159000475 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 322159000476 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 322159000477 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 322159000478 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 322159000479 catalytic residue [active] 322159000480 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 322159000481 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 322159000482 trimerization site [polypeptide binding]; other site 322159000483 active site 322159000484 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 322159000485 FeS assembly protein SufB; Region: sufB; TIGR01980 322159000486 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 322159000487 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 322159000488 Walker A/P-loop; other site 322159000489 ATP binding site [chemical binding]; other site 322159000490 Q-loop/lid; other site 322159000491 ABC transporter signature motif; other site 322159000492 Walker B; other site 322159000493 D-loop; other site 322159000494 H-loop/switch region; other site 322159000495 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 322159000496 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 322159000497 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 322159000498 dimerization interface [polypeptide binding]; other site 322159000499 domain crossover interface; other site 322159000500 redox-dependent activation switch; other site 322159000501 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 322159000502 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 322159000503 FMN binding site [chemical binding]; other site 322159000504 active site 322159000505 catalytic residues [active] 322159000506 substrate binding site [chemical binding]; other site 322159000507 H+ Antiporter protein; Region: 2A0121; TIGR00900 322159000508 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 322159000509 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 322159000510 putative DNA binding site [nucleotide binding]; other site 322159000511 putative Zn2+ binding site [ion binding]; other site 322159000512 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 322159000513 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 322159000514 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 322159000515 ABC-ATPase subunit interface; other site 322159000516 dimer interface [polypeptide binding]; other site 322159000517 putative PBP binding regions; other site 322159000518 Membrane transport protein; Region: Mem_trans; cl09117 322159000519 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 322159000520 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 322159000521 HPr interaction site; other site 322159000522 glycerol kinase (GK) interaction site [polypeptide binding]; other site 322159000523 active site 322159000524 phosphorylation site [posttranslational modification] 322159000525 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 322159000526 putative catalytic site [active] 322159000527 putative metal binding site [ion binding]; other site 322159000528 putative phosphate binding site [ion binding]; other site 322159000529 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 322159000530 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 322159000531 active site 322159000532 dimer interface [polypeptide binding]; other site 322159000533 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 322159000534 dimer interface [polypeptide binding]; other site 322159000535 active site 322159000536 Transcriptional regulator; Region: Transcrip_reg; cl00361 322159000537 Preprotein translocase subunit; Region: YajC; cl00806 322159000538 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 322159000539 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 322159000540 catalytic residue [active] 322159000541 putative FPP diphosphate binding site; other site 322159000542 putative FPP binding hydrophobic cleft; other site 322159000543 dimer interface [polypeptide binding]; other site 322159000544 putative IPP diphosphate binding site; other site 322159000545 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 322159000546 RIP metalloprotease RseP; Region: TIGR00054 322159000547 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 322159000548 active site 322159000549 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 322159000550 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 322159000551 protein binding site [polypeptide binding]; other site 322159000552 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 322159000553 putative substrate binding region [chemical binding]; other site 322159000554 prolyl-tRNA synthetase; Provisional; Region: PRK09194 322159000555 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 322159000556 dimer interface [polypeptide binding]; other site 322159000557 motif 1; other site 322159000558 active site 322159000559 motif 2; other site 322159000560 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 322159000561 putative deacylase active site [active] 322159000562 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 322159000563 active site 322159000564 motif 3; other site 322159000565 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 322159000566 anticodon binding site; other site 322159000567 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 322159000568 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 322159000569 zinc binding site [ion binding]; other site 322159000570 putative ligand binding site [chemical binding]; other site 322159000571 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 322159000572 TM-ABC transporter signature motif; other site 322159000573 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 322159000574 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159000575 Walker A/P-loop; other site 322159000576 ATP binding site [chemical binding]; other site 322159000577 Q-loop/lid; other site 322159000578 ABC transporter signature motif; other site 322159000579 Walker B; other site 322159000580 D-loop; other site 322159000581 H-loop/switch region; other site 322159000582 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 322159000583 oligomerisation interface [polypeptide binding]; other site 322159000584 mobile loop; other site 322159000585 roof hairpin; other site 322159000586 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 322159000587 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 322159000588 ring oligomerisation interface [polypeptide binding]; other site 322159000589 ATP/Mg binding site [chemical binding]; other site 322159000590 stacking interactions; other site 322159000591 hinge regions; other site 322159000592 TM2 domain; Region: TM2; cl00984 322159000593 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 322159000594 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 322159000595 active site 322159000596 Transglycosylase; Region: Transgly; cl07896 322159000597 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 322159000598 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 322159000599 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 322159000600 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 322159000601 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 322159000602 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 322159000603 putative homodimer interface [polypeptide binding]; other site 322159000604 KOW motif; Region: KOW; cl00354 322159000605 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 322159000606 active site 322159000607 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 322159000608 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 322159000609 HIGH motif; other site 322159000610 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 322159000611 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 322159000612 active site 322159000613 KMSKS motif; other site 322159000614 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 322159000615 tRNA binding surface [nucleotide binding]; other site 322159000616 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 322159000617 Helix-turn-helix domains; Region: HTH; cl00088 322159000618 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 322159000619 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 322159000620 active site 322159000621 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 322159000622 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 322159000623 homodimer interface [polypeptide binding]; other site 322159000624 NAD binding pocket [chemical binding]; other site 322159000625 ATP binding pocket [chemical binding]; other site 322159000626 Mg binding site [ion binding]; other site 322159000627 active-site loop [active] 322159000628 Protein of unknown function (DUF805); Region: DUF805; cl01224 322159000629 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 322159000630 trimer interface [polypeptide binding]; other site 322159000631 active site 322159000632 G bulge; other site 322159000633 Transglycosylase; Region: Transgly; cl07896 322159000634 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 322159000635 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 322159000636 Recombination protein U; Region: RecU; cl01314 322159000637 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 322159000638 cell division protein GpsB; Provisional; Region: PRK14127 322159000639 DivIVA domain; Region: DivI1A_domain; TIGR03544 322159000640 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 322159000641 THUMP domain; Region: THUMP; cl12076 322159000642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159000643 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 322159000644 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 322159000645 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 322159000646 ATP binding site [chemical binding]; other site 322159000647 putative Mg++ binding site [ion binding]; other site 322159000648 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 322159000649 nucleotide binding region [chemical binding]; other site 322159000650 ATP-binding site [chemical binding]; other site 322159000651 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 322159000652 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 322159000653 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 322159000654 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 322159000655 YceG-like family; Region: YceG; pfam02618 322159000656 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 322159000657 dimerization interface [polypeptide binding]; other site 322159000658 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 322159000659 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 322159000660 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 322159000661 Integrase core domain; Region: rve; cl01316 322159000662 Integrase core domain; Region: rve_3; cl15866 322159000663 OxaA-like protein precursor; Provisional; Region: PRK02463 322159000664 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 322159000665 Acylphosphatase; Region: Acylphosphatase; cl00551 322159000666 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 322159000667 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 322159000668 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 322159000669 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 322159000670 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 322159000671 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 322159000672 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 322159000673 active site 322159000674 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 322159000675 substrate binding site [chemical binding]; other site 322159000676 catalytic residues [active] 322159000677 dimer interface [polypeptide binding]; other site 322159000678 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 322159000679 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 322159000680 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 322159000681 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 322159000682 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 322159000683 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 322159000684 active site 322159000685 dimerization interface [polypeptide binding]; other site 322159000686 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 322159000687 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 322159000688 active site 322159000689 metal binding site [ion binding]; metal-binding site 322159000690 homotetramer interface [polypeptide binding]; other site 322159000691 FOG: CBS domain [General function prediction only]; Region: COG0517 322159000692 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 322159000693 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 322159000694 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 322159000695 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 322159000696 DNA binding site [nucleotide binding] 322159000697 Int/Topo IB signature motif; other site 322159000698 active site 322159000699 catalytic residues [active] 322159000700 ScpA/B protein; Region: ScpA_ScpB; cl00598 322159000701 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 322159000702 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 322159000703 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 322159000704 RNA binding surface [nucleotide binding]; other site 322159000705 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 322159000706 active site 322159000707 Haemolytic domain; Region: Haemolytic; cl00506 322159000708 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 322159000709 Cation transport protein; Region: TrkH; cl10514 322159000710 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 322159000711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159000712 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 322159000713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159000714 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 322159000715 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 322159000716 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 322159000717 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 322159000718 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 322159000719 active site 322159000720 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 322159000721 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 322159000722 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 322159000723 alpha-gamma subunit interface [polypeptide binding]; other site 322159000724 beta-gamma subunit interface [polypeptide binding]; other site 322159000725 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 322159000726 gamma-beta subunit interface [polypeptide binding]; other site 322159000727 alpha-beta subunit interface [polypeptide binding]; other site 322159000728 urease subunit alpha; Reviewed; Region: ureC; PRK13207 322159000729 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 322159000730 subunit interactions [polypeptide binding]; other site 322159000731 active site 322159000732 flap region; other site 322159000733 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 322159000734 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 322159000735 dimer interface [polypeptide binding]; other site 322159000736 catalytic residues [active] 322159000737 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 322159000738 UreF; Region: UreF; pfam01730 322159000739 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159000740 UreD urease accessory protein; Region: UreD; cl00530 322159000741 cobalt transport protein CbiM; Provisional; Region: PRK07331 322159000742 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 322159000743 PDGLE domain; Region: PDGLE; cl07986 322159000744 Cobalt transport protein; Region: CbiQ; cl00463 322159000745 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 322159000746 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 322159000747 Walker A/P-loop; other site 322159000748 ATP binding site [chemical binding]; other site 322159000749 Q-loop/lid; other site 322159000750 ABC transporter signature motif; other site 322159000751 Walker B; other site 322159000752 D-loop; other site 322159000753 H-loop/switch region; other site 322159000754 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 322159000755 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 322159000756 substrate binding pocket [chemical binding]; other site 322159000757 membrane-bound complex binding site; other site 322159000758 hinge residues; other site 322159000759 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 322159000760 AMP-binding enzyme; Region: AMP-binding; cl15778 322159000761 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 322159000762 nudix motif; other site 322159000763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159000764 NAD+ binding site [chemical binding]; other site 322159000765 oligomerization interface [polypeptide binding]; other site 322159000766 H+ Antiporter protein; Region: 2A0121; TIGR00900 322159000767 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 322159000768 putative substrate translocation pore; other site 322159000769 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 322159000770 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 322159000771 substrate binding pocket [chemical binding]; other site 322159000772 membrane-bound complex binding site; other site 322159000773 hinge residues; other site 322159000774 NMT1-like family; Region: NMT1_2; cl15260 322159000775 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 322159000776 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 322159000777 Walker A/P-loop; other site 322159000778 ATP binding site [chemical binding]; other site 322159000779 Q-loop/lid; other site 322159000780 ABC transporter signature motif; other site 322159000781 Walker B; other site 322159000782 D-loop; other site 322159000783 H-loop/switch region; other site 322159000784 NIL domain; Region: NIL; cl09633 322159000785 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 322159000786 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 322159000787 Uncharacterized conserved protein [Function unknown]; Region: COG1912 322159000788 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 322159000789 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 322159000790 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 322159000791 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 322159000792 Walker A/P-loop; other site 322159000793 ATP binding site [chemical binding]; other site 322159000794 Q-loop/lid; other site 322159000795 ABC transporter signature motif; other site 322159000796 Walker B; other site 322159000797 D-loop; other site 322159000798 H-loop/switch region; other site 322159000799 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 322159000800 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 322159000801 Walker A/P-loop; other site 322159000802 ATP binding site [chemical binding]; other site 322159000803 Q-loop/lid; other site 322159000804 ABC transporter signature motif; other site 322159000805 Walker B; other site 322159000806 D-loop; other site 322159000807 H-loop/switch region; other site 322159000808 Cobalt transport protein; Region: CbiQ; cl00463 322159000809 transketolase; Reviewed; Region: PRK05899 322159000810 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 322159000811 TPP-binding site [chemical binding]; other site 322159000812 dimer interface [polypeptide binding]; other site 322159000813 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 322159000814 PYR/PP interface [polypeptide binding]; other site 322159000815 dimer interface [polypeptide binding]; other site 322159000816 TPP binding site [chemical binding]; other site 322159000817 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 322159000818 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 322159000819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159000820 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 322159000821 Cation transport protein; Region: TrkH; cl10514 322159000822 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 322159000823 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 322159000824 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 322159000825 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 322159000826 active site 322159000827 phosphorylation site [posttranslational modification] 322159000828 intermolecular recognition site; other site 322159000829 dimerization interface [polypeptide binding]; other site 322159000830 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 322159000831 DNA binding site [nucleotide binding] 322159000832 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 322159000833 ATP cone domain; Region: ATP-cone; pfam03477 322159000834 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 322159000835 primosomal protein DnaI; Reviewed; Region: PRK08939 322159000836 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 322159000837 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 322159000838 Walker A motif; other site 322159000839 ATP binding site [chemical binding]; other site 322159000840 Walker B motif; other site 322159000841 arginine finger; other site 322159000842 GTP-binding protein Der; Reviewed; Region: PRK00093 322159000843 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 322159000844 G1 box; other site 322159000845 GTP/Mg2+ binding site [chemical binding]; other site 322159000846 Switch I region; other site 322159000847 G2 box; other site 322159000848 Switch II region; other site 322159000849 G3 box; other site 322159000850 G4 box; other site 322159000851 G5 box; other site 322159000852 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 322159000853 G1 box; other site 322159000854 GTP/Mg2+ binding site [chemical binding]; other site 322159000855 Switch I region; other site 322159000856 G2 box; other site 322159000857 G3 box; other site 322159000858 Switch II region; other site 322159000859 G4 box; other site 322159000860 G5 box; other site 322159000861 Helix-turn-helix domains; Region: HTH; cl00088 322159000862 Transposase, Mutator family; Region: Transposase_mut; pfam00872 322159000863 MULE transposase domain; Region: MULE; pfam10551 322159000864 seryl-tRNA synthetase; Provisional; Region: PRK05431 322159000865 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 322159000866 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 322159000867 dimer interface [polypeptide binding]; other site 322159000868 active site 322159000869 motif 1; other site 322159000870 motif 2; other site 322159000871 motif 3; other site 322159000872 Domain of unknown function (DUF956); Region: DUF956; cl01917 322159000873 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 322159000874 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 322159000875 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 322159000876 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 322159000877 active pocket/dimerization site; other site 322159000878 active site 322159000879 phosphorylation site [posttranslational modification] 322159000880 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 322159000881 active site 322159000882 phosphorylation site [posttranslational modification] 322159000883 Putative cyclase; Region: Cyclase; cl00814 322159000884 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 322159000885 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 322159000886 active site 322159000887 motif I; other site 322159000888 motif II; other site 322159000889 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 322159000890 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 322159000891 putative acetyltransferase YhhY; Provisional; Region: PRK10140 322159000892 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 322159000893 Coenzyme A binding pocket [chemical binding]; other site 322159000894 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 322159000895 ribosome maturation protein RimP; Reviewed; Region: PRK00092 322159000896 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 322159000897 Sm1 motif; other site 322159000898 predicted subunit interaction site [polypeptide binding]; other site 322159000899 RNA binding pocket [nucleotide binding]; other site 322159000900 Sm2 motif; other site 322159000901 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 322159000902 NusA N-terminal domain; Region: NusA_N; pfam08529 322159000903 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 322159000904 RNA binding site [nucleotide binding]; other site 322159000905 homodimer interface [polypeptide binding]; other site 322159000906 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 322159000907 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 322159000908 G-X-X-G motif; other site 322159000909 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 322159000910 putative RNA binding cleft [nucleotide binding]; other site 322159000911 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 322159000912 translation initiation factor IF-2; Validated; Region: infB; PRK05306 322159000913 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 322159000914 translation initiation factor IF-2; Region: IF-2; TIGR00487 322159000915 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 322159000916 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 322159000917 G1 box; other site 322159000918 putative GEF interaction site [polypeptide binding]; other site 322159000919 GTP/Mg2+ binding site [chemical binding]; other site 322159000920 Switch I region; other site 322159000921 G2 box; other site 322159000922 G3 box; other site 322159000923 Switch II region; other site 322159000924 G4 box; other site 322159000925 G5 box; other site 322159000926 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 322159000927 Translation-initiation factor 2; Region: IF-2; pfam11987 322159000928 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 322159000929 Ribosome-binding factor A; Region: RBFA; cl00542 322159000930 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 322159000931 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 322159000932 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 322159000933 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 322159000934 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 322159000935 MatE; Region: MatE; cl10513 322159000936 stage V sporulation protein B; Region: spore_V_B; TIGR02900 322159000937 cystathionine gamma-synthase; Reviewed; Region: PRK07269 322159000938 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 322159000939 homodimer interface [polypeptide binding]; other site 322159000940 substrate-cofactor binding pocket; other site 322159000941 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159000942 catalytic residue [active] 322159000943 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 322159000944 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 322159000945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159000946 homodimer interface [polypeptide binding]; other site 322159000947 catalytic residue [active] 322159000948 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 322159000949 active site 322159000950 Clp protease; Region: CLP_protease; pfam00574 322159000951 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 322159000952 oligomer interface [polypeptide binding]; other site 322159000953 active site residues [active] 322159000954 Protein of unknown function (DUF964); Region: DUF964; cl01483 322159000955 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 322159000956 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 322159000957 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 322159000958 putative ligand binding site [chemical binding]; other site 322159000959 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 322159000960 TM-ABC transporter signature motif; other site 322159000961 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 322159000962 TM-ABC transporter signature motif; other site 322159000963 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 322159000964 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 322159000965 Walker A/P-loop; other site 322159000966 ATP binding site [chemical binding]; other site 322159000967 Q-loop/lid; other site 322159000968 ABC transporter signature motif; other site 322159000969 Walker B; other site 322159000970 D-loop; other site 322159000971 H-loop/switch region; other site 322159000972 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 322159000973 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 322159000974 Walker A/P-loop; other site 322159000975 ATP binding site [chemical binding]; other site 322159000976 Q-loop/lid; other site 322159000977 ABC transporter signature motif; other site 322159000978 Walker B; other site 322159000979 D-loop; other site 322159000980 H-loop/switch region; other site 322159000981 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 322159000982 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 322159000983 dimer interface [polypeptide binding]; other site 322159000984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159000985 catalytic residue [active] 322159000986 Uncharacterized conserved protein [Function unknown]; Region: COG1739 322159000987 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 322159000988 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 322159000989 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 322159000990 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 322159000991 ATP binding site [chemical binding]; other site 322159000992 putative Mg++ binding site [ion binding]; other site 322159000993 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 322159000994 nucleotide binding region [chemical binding]; other site 322159000995 ATP-binding site [chemical binding]; other site 322159000996 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 322159000997 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 322159000998 active site 322159000999 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 322159001000 30S subunit binding site; other site 322159001001 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 322159001002 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 322159001003 DHHA2 domain; Region: DHHA2; pfam02833 322159001004 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 322159001005 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 322159001006 Protein of unknown function (DUF402); Region: DUF402; cl00979 322159001007 RecX family; Region: RecX; cl00936 322159001008 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 322159001009 TRAM domain; Region: TRAM; cl01282 322159001010 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 322159001011 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 322159001012 S-adenosylmethionine binding site [chemical binding]; other site 322159001013 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 322159001014 dimer interface [polypeptide binding]; other site 322159001015 active site 322159001016 aspartate kinase; Reviewed; Region: PRK09034 322159001017 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 322159001018 putative catalytic residues [active] 322159001019 putative nucleotide binding site [chemical binding]; other site 322159001020 putative aspartate binding site [chemical binding]; other site 322159001021 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 322159001022 allosteric regulatory residue; other site 322159001023 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 322159001024 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 322159001025 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 322159001026 motif II; other site 322159001027 enoyl-CoA hydratase; Provisional; Region: PRK07260 322159001028 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 322159001029 substrate binding site [chemical binding]; other site 322159001030 oxyanion hole (OAH) forming residues; other site 322159001031 trimer interface [polypeptide binding]; other site 322159001032 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 322159001033 Helix-turn-helix domains; Region: HTH; cl00088 322159001034 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 322159001035 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 322159001036 dimer interface [polypeptide binding]; other site 322159001037 active site 322159001038 CoA binding pocket [chemical binding]; other site 322159001039 Phosphopantetheine attachment site; Region: PP-binding; cl09936 322159001040 putative enoyl-(acyl-carrier-protein) reductase II; Region: enACPred_II; TIGR03151 322159001041 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 322159001042 FMN binding site [chemical binding]; other site 322159001043 substrate binding site [chemical binding]; other site 322159001044 putative catalytic residue [active] 322159001045 Acyl transferase domain; Region: Acyl_transf_1; cl08282 322159001046 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 322159001047 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 322159001048 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159001049 NAD(P) binding site [chemical binding]; other site 322159001050 active site 322159001051 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 322159001052 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 322159001053 dimer interface [polypeptide binding]; other site 322159001054 active site 322159001055 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 322159001056 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 322159001057 carboxyltransferase (CT) interaction site; other site 322159001058 biotinylation site [posttranslational modification]; other site 322159001059 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 322159001060 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 322159001061 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 322159001062 ATP-grasp domain; Region: ATP-grasp_4; cl03087 322159001063 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 322159001064 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 322159001065 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 322159001066 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 322159001067 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 322159001068 hypothetical protein; Provisional; Region: PRK00106 322159001069 ATP synthase archaeal, H subunit; Region: AhaH; TIGR02926 322159001070 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 322159001071 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 322159001072 Helix-turn-helix domains; Region: HTH; cl00088 322159001073 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 322159001074 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 322159001075 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 322159001076 putative substrate binding site [chemical binding]; other site 322159001077 putative ATP binding site [chemical binding]; other site 322159001078 glutathione reductase; Validated; Region: PRK06116 322159001079 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 322159001080 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 322159001081 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 322159001082 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 322159001083 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 322159001084 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 322159001085 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 322159001086 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 322159001087 catalytic residue [active] 322159001088 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 322159001089 THUMP domain; Region: THUMP; cl12076 322159001090 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 322159001091 Ligand Binding Site [chemical binding]; other site 322159001092 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 322159001093 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 322159001094 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 322159001095 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 322159001096 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 322159001097 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 322159001098 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 322159001099 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 322159001100 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 322159001101 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 322159001102 dihydrodipicolinate reductase; Provisional; Region: PRK00048 322159001103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159001104 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 322159001105 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 322159001106 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 322159001107 active site 322159001108 NTP binding site [chemical binding]; other site 322159001109 metal binding triad [ion binding]; metal-binding site 322159001110 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 322159001111 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 322159001112 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 322159001113 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159001114 Walker A/P-loop; other site 322159001115 ATP binding site [chemical binding]; other site 322159001116 Q-loop/lid; other site 322159001117 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 322159001118 ABC transporter; Region: ABC_tran_2; pfam12848 322159001119 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 322159001120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159001121 Helix-turn-helix domains; Region: HTH; cl00088 322159001122 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159001123 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 322159001124 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 322159001125 nudix motif; other site 322159001126 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 322159001127 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 322159001128 Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional NadR-like proteins; Region: NMNAT_NadR; cd02167 322159001129 active site 322159001130 (T/H)XGH motif; other site 322159001131 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159001132 glutamate dehydrogenase; Provisional; Region: PRK09414 322159001133 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 322159001134 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 322159001135 NAD(P) binding site [chemical binding]; other site 322159001136 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 322159001137 active site 322159001138 catalytic residues [active] 322159001139 metal binding site [ion binding]; metal-binding site 322159001140 Helix-turn-helix domains; Region: HTH; cl00088 322159001141 transcriptional regulator SlyA; Provisional; Region: PRK03573 322159001142 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 322159001143 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 322159001144 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159001145 Walker A/P-loop; other site 322159001146 ATP binding site [chemical binding]; other site 322159001147 Q-loop/lid; other site 322159001148 ABC transporter signature motif; other site 322159001149 Walker B; other site 322159001150 D-loop; other site 322159001151 H-loop/switch region; other site 322159001152 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 322159001153 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 322159001154 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 322159001155 Walker A/P-loop; other site 322159001156 ATP binding site [chemical binding]; other site 322159001157 Q-loop/lid; other site 322159001158 ABC transporter signature motif; other site 322159001159 Walker B; other site 322159001160 D-loop; other site 322159001161 H-loop/switch region; other site 322159001162 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 322159001163 putative nucleotide binding site [chemical binding]; other site 322159001164 uridine monophosphate binding site [chemical binding]; other site 322159001165 homohexameric interface [polypeptide binding]; other site 322159001166 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 322159001167 hinge region; other site 322159001168 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 322159001169 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 322159001170 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 322159001171 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 322159001172 putative peptidoglycan binding site; other site 322159001173 NlpC/P60 family; Region: NLPC_P60; cl11438 322159001174 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 322159001175 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159001176 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 322159001177 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 322159001178 active site 322159001179 HIGH motif; other site 322159001180 KMSKS motif; other site 322159001181 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 322159001182 tRNA binding surface [nucleotide binding]; other site 322159001183 anticodon binding site; other site 322159001184 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 322159001185 dimer interface [polypeptide binding]; other site 322159001186 putative tRNA-binding site [nucleotide binding]; other site 322159001187 Transcriptional regulator [Transcription]; Region: LysR; COG0583 322159001188 Helix-turn-helix domains; Region: HTH; cl00088 322159001189 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 322159001190 dimerization interface [polypeptide binding]; other site 322159001191 Competence protein CoiA-like family; Region: CoiA; cl11541 322159001192 oligoendopeptidase F; Region: pepF; TIGR00181 322159001193 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 322159001194 active site 322159001195 Zn binding site [ion binding]; other site 322159001196 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 322159001197 S-adenosylmethionine binding site [chemical binding]; other site 322159001198 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 322159001199 SurA N-terminal domain; Region: SurA_N_3; cl07813 322159001200 PPIC-type PPIASE domain; Region: Rotamase; cl08278 322159001201 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 322159001202 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 322159001203 motif 1; other site 322159001204 active site 322159001205 motif 2; other site 322159001206 motif 3; other site 322159001207 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 322159001208 DHHA1 domain; Region: DHHA1; pfam02272 322159001209 Bacterial SH3 domain; Region: SH3_3; cl02551 322159001210 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 322159001211 Bacterial SH3 domain; Region: SH3_3; cl02551 322159001212 Predicted amidohydrolase [General function prediction only]; Region: COG0388 322159001213 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 322159001214 putative active site [active] 322159001215 catalytic triad [active] 322159001216 putative dimer interface [polypeptide binding]; other site 322159001217 transaminase; Reviewed; Region: PRK08068 322159001218 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 322159001219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159001220 homodimer interface [polypeptide binding]; other site 322159001221 catalytic residue [active] 322159001222 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 322159001223 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159001224 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 322159001225 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 322159001226 heterotetramer interface [polypeptide binding]; other site 322159001227 active site pocket [active] 322159001228 cleavage site 322159001229 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 322159001230 nucleotide binding site [chemical binding]; other site 322159001231 N-acetyl-L-glutamate binding site [chemical binding]; other site 322159001232 acetylornithine aminotransferase; Provisional; Region: PRK04260 322159001233 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 322159001234 inhibitor-cofactor binding pocket; inhibition site 322159001235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159001236 catalytic residue [active] 322159001237 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 322159001238 putative active site [active] 322159001239 putative metal binding site [ion binding]; other site 322159001240 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159001241 Helix-turn-helix domains; Region: HTH; cl00088 322159001242 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159001243 homoserine dehydrogenase; Provisional; Region: PRK06349 322159001244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159001245 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 322159001246 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 322159001247 homoserine kinase; Provisional; Region: PRK01212 322159001248 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 322159001249 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 322159001250 Predicted permeases [General function prediction only]; Region: RarD; COG2962 322159001251 EamA-like transporter family; Region: EamA; cl01037 322159001252 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 322159001253 Flavin Reductases; Region: FlaRed; cl00801 322159001254 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 322159001255 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 322159001256 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 322159001257 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 322159001258 active site 322159001259 HIGH motif; other site 322159001260 nucleotide binding site [chemical binding]; other site 322159001261 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 322159001262 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 322159001263 active site 322159001264 KMSKS motif; other site 322159001265 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 322159001266 tRNA binding surface [nucleotide binding]; other site 322159001267 anticodon binding site; other site 322159001268 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 322159001269 ATP synthase subunit C; Region: ATP-synt_C; cl00466 322159001270 ATP synthase A chain; Region: ATP-synt_A; cl00413 322159001271 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 322159001272 Plant ATP synthase F0; Region: YMF19; cl07975 322159001273 Plant ATP synthase F0; Region: YMF19; cl07975 322159001274 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 322159001275 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 322159001276 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 322159001277 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 322159001278 beta subunit interaction interface [polypeptide binding]; other site 322159001279 Walker A motif; other site 322159001280 ATP binding site [chemical binding]; other site 322159001281 Walker B motif; other site 322159001282 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 322159001283 ATP synthase; Region: ATP-synt; cl00365 322159001284 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 322159001285 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 322159001286 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 322159001287 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 322159001288 alpha subunit interaction interface [polypeptide binding]; other site 322159001289 Walker A motif; other site 322159001290 ATP binding site [chemical binding]; other site 322159001291 Walker B motif; other site 322159001292 inhibitor binding site; inhibition site 322159001293 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 322159001294 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 322159001295 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 322159001296 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 322159001297 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 322159001298 elongation factor Tu; Reviewed; Region: PRK00049 322159001299 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 322159001300 G1 box; other site 322159001301 GEF interaction site [polypeptide binding]; other site 322159001302 GTP/Mg2+ binding site [chemical binding]; other site 322159001303 Switch I region; other site 322159001304 G2 box; other site 322159001305 G3 box; other site 322159001306 Switch II region; other site 322159001307 G4 box; other site 322159001308 G5 box; other site 322159001309 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 322159001310 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 322159001311 Antibiotic Binding Site [chemical binding]; other site 322159001312 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 322159001313 substrate binding site [chemical binding]; other site 322159001314 dimer interface [polypeptide binding]; other site 322159001315 catalytic triad [active] 322159001316 thymidylate kinase; Validated; Region: tmk; PRK00698 322159001317 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 322159001318 TMP-binding site; other site 322159001319 ATP-binding site [chemical binding]; other site 322159001320 DNA polymerase III subunit delta'; Validated; Region: PRK07276 322159001321 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159001322 PSP1 C-terminal conserved region; Region: PSP1; cl00770 322159001323 TSC-22/dip/bun family; Region: TSC22; cl01853 322159001324 Predicted methyltransferases [General function prediction only]; Region: COG0313 322159001325 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 322159001326 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 322159001327 Nitrogen regulatory protein P-II; Region: P-II; cl00412 322159001328 Nitrogen regulatory protein P-II; Region: P-II; smart00938 322159001329 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 322159001330 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 322159001331 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 322159001332 active site 322159001333 motif I; other site 322159001334 motif II; other site 322159001335 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 322159001336 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 322159001337 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 322159001338 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 322159001339 active site 322159001340 dimer interface [polypeptide binding]; other site 322159001341 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 322159001342 dimer interface [polypeptide binding]; other site 322159001343 motif 1; other site 322159001344 active site 322159001345 motif 2; other site 322159001346 motif 3; other site 322159001347 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 322159001348 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 322159001349 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 322159001350 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 322159001351 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 322159001352 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 322159001353 active site 322159001354 putative transposase OrfB; Reviewed; Region: PHA02517 322159001355 HTH-like domain; Region: HTH_21; pfam13276 322159001356 Integrase core domain; Region: rve; cl01316 322159001357 Integrase core domain; Region: rve_3; cl15866 322159001358 Helix-turn-helix domains; Region: HTH; cl00088 322159001359 Helix-turn-helix domains; Region: HTH; cl00088 322159001360 Helix-turn-helix domains; Region: HTH; cl00088 322159001361 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 322159001362 Transcriptional regulator [Transcription]; Region: LysR; COG0583 322159001363 Helix-turn-helix domains; Region: HTH; cl00088 322159001364 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 322159001365 dimerization interface [polypeptide binding]; other site 322159001366 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 322159001367 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 322159001368 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 322159001369 RNA binding surface [nucleotide binding]; other site 322159001370 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 322159001371 active site 322159001372 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 322159001373 active site 322159001374 uracil transporter; Provisional; Region: PRK10720 322159001375 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 322159001376 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 322159001377 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 322159001378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159001379 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 322159001380 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 322159001381 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 322159001382 catalytic site [active] 322159001383 subunit interface [polypeptide binding]; other site 322159001384 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 322159001385 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 322159001386 ATP-grasp domain; Region: ATP-grasp_4; cl03087 322159001387 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 322159001388 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 322159001389 ATP-grasp domain; Region: ATP-grasp_4; cl03087 322159001390 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 322159001391 IMP binding site; other site 322159001392 dimer interface [polypeptide binding]; other site 322159001393 interdomain contacts; other site 322159001394 partial ornithine binding site; other site 322159001395 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159001396 Helix-turn-helix domains; Region: HTH; cl00088 322159001397 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159001398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159001399 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 322159001400 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 322159001401 23S rRNA interface [nucleotide binding]; other site 322159001402 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 322159001403 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 322159001404 core dimer interface [polypeptide binding]; other site 322159001405 L10 interface [polypeptide binding]; other site 322159001406 L11 interface [polypeptide binding]; other site 322159001407 putative EF-Tu interaction site [polypeptide binding]; other site 322159001408 putative EF-G interaction site [polypeptide binding]; other site 322159001409 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 322159001410 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 322159001411 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 322159001412 MucBP domain; Region: MucBP; pfam06458 322159001413 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 322159001414 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 322159001415 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159001416 Walker A/P-loop; other site 322159001417 ATP binding site [chemical binding]; other site 322159001418 Q-loop/lid; other site 322159001419 ABC transporter signature motif; other site 322159001420 Walker B; other site 322159001421 D-loop; other site 322159001422 H-loop/switch region; other site 322159001423 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 322159001424 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 322159001425 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 322159001426 Walker A/P-loop; other site 322159001427 ATP binding site [chemical binding]; other site 322159001428 Q-loop/lid; other site 322159001429 ABC transporter signature motif; other site 322159001430 Walker B; other site 322159001431 D-loop; other site 322159001432 H-loop/switch region; other site 322159001433 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 322159001434 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 322159001435 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 322159001436 active site 322159001437 trimer interface [polypeptide binding]; other site 322159001438 allosteric site; other site 322159001439 active site lid [active] 322159001440 hexamer (dimer of trimers) interface [polypeptide binding]; other site 322159001441 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 322159001442 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 322159001443 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 322159001444 active site 322159001445 phosphorylation site [posttranslational modification] 322159001446 intermolecular recognition site; other site 322159001447 dimerization interface [polypeptide binding]; other site 322159001448 LytTr DNA-binding domain; Region: LytTR; cl04498 322159001449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159001450 ATP binding site [chemical binding]; other site 322159001451 substrate interface [chemical binding]; other site 322159001452 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 322159001453 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159001454 Walker A/P-loop; other site 322159001455 ATP binding site [chemical binding]; other site 322159001456 Q-loop/lid; other site 322159001457 ABC transporter signature motif; other site 322159001458 Walker B; other site 322159001459 D-loop; other site 322159001460 H-loop/switch region; other site 322159001461 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 322159001462 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 322159001463 active site residue [active] 322159001464 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 322159001465 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 322159001466 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 322159001467 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 322159001468 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 322159001469 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 322159001470 active site 322159001471 uracil binding [chemical binding]; other site 322159001472 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 322159001473 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 322159001474 metal binding site [ion binding]; metal-binding site 322159001475 dimer interface [polypeptide binding]; other site 322159001476 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 322159001477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159001478 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 322159001479 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 322159001480 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 322159001481 mevalonate kinase; Region: mevalon_kin; TIGR00549 322159001482 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 322159001483 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 322159001484 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 322159001485 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 322159001486 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 322159001487 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 322159001488 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 322159001489 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 322159001490 homotetramer interface [polypeptide binding]; other site 322159001491 FMN binding site [chemical binding]; other site 322159001492 homodimer contacts [polypeptide binding]; other site 322159001493 putative active site [active] 322159001494 putative substrate binding site [chemical binding]; other site 322159001495 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 322159001496 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 322159001497 Substrate binding site; other site 322159001498 Mg++ binding site; other site 322159001499 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 322159001500 active site 322159001501 substrate binding site [chemical binding]; other site 322159001502 CoA binding site [chemical binding]; other site 322159001503 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 322159001504 dimer interface [polypeptide binding]; other site 322159001505 ADP-ribose binding site [chemical binding]; other site 322159001506 active site 322159001507 nudix motif; other site 322159001508 metal binding site [ion binding]; metal-binding site 322159001509 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 322159001510 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 322159001511 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 322159001512 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 322159001513 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 322159001514 putative ADP-binding pocket [chemical binding]; other site 322159001515 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 322159001516 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 322159001517 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 322159001518 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 322159001519 active site 322159001520 dimer interface [polypeptide binding]; other site 322159001521 motif 1; other site 322159001522 motif 2; other site 322159001523 motif 3; other site 322159001524 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 322159001525 anticodon binding site; other site 322159001526 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 322159001527 Haemolysin-III related; Region: HlyIII; cl03831 322159001528 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 322159001529 homodimer interface [polypeptide binding]; other site 322159001530 NAD binding site [chemical binding]; other site 322159001531 catalytic residues [active] 322159001532 substrate binding pocket [chemical binding]; other site 322159001533 flexible flap; other site 322159001534 '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 322159001535 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 322159001536 dimer interface [polypeptide binding]; other site 322159001537 active site 322159001538 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 322159001539 dimerization interface [polypeptide binding]; other site 322159001540 active site 322159001541 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 322159001542 folate binding site [chemical binding]; other site 322159001543 NADP+ binding site [chemical binding]; other site 322159001544 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 322159001545 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 322159001546 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 322159001547 Walker A motif; other site 322159001548 ATP binding site [chemical binding]; other site 322159001549 Walker B motif; other site 322159001550 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 322159001551 Predicted GTPase [General function prediction only]; Region: COG0218 322159001552 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 322159001553 G1 box; other site 322159001554 GTP/Mg2+ binding site [chemical binding]; other site 322159001555 Switch I region; other site 322159001556 G2 box; other site 322159001557 G3 box; other site 322159001558 Switch II region; other site 322159001559 G4 box; other site 322159001560 G5 box; other site 322159001561 S-methylmethionine transporter; Provisional; Region: PRK11387 322159001562 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 322159001563 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 322159001564 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 322159001565 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 322159001566 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159001567 Helix-turn-helix domains; Region: HTH; cl00088 322159001568 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159001569 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 322159001570 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 322159001571 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 322159001572 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 322159001573 anchoring element; other site 322159001574 dimer interface [polypeptide binding]; other site 322159001575 ATP binding site [chemical binding]; other site 322159001576 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 322159001577 active site 322159001578 putative metal-binding site [ion binding]; other site 322159001579 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 322159001580 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 322159001581 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 322159001582 CAP-like domain; other site 322159001583 active site 322159001584 primary dimer interface [polypeptide binding]; other site 322159001585 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 322159001586 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 322159001587 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 322159001588 homodimer interface [polypeptide binding]; other site 322159001589 substrate-cofactor binding pocket; other site 322159001590 catalytic residue [active] 322159001591 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 322159001592 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 322159001593 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 322159001594 RNA binding site [nucleotide binding]; other site 322159001595 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 322159001596 RNA binding site [nucleotide binding]; other site 322159001597 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 322159001598 RNA binding site [nucleotide binding]; other site 322159001599 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 322159001600 RNA binding site [nucleotide binding]; other site 322159001601 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 322159001602 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 322159001603 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 322159001604 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 322159001605 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 322159001606 nudix motif; other site 322159001607 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 322159001608 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 322159001609 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 322159001610 Walker A motif; other site 322159001611 ATP binding site [chemical binding]; other site 322159001612 Walker B motif; other site 322159001613 arginine finger; other site 322159001614 Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]; Region: UvrB; COG0556 322159001615 UvrB/uvrC motif; Region: UVR; pfam02151 322159001616 ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]; Region: ClpX; COG1219 322159001617 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 322159001618 Walker A motif; other site 322159001619 ATP binding site [chemical binding]; other site 322159001620 Walker B motif; other site 322159001621 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 322159001622 ornithine carbamoyltransferase; Validated; Region: PRK02102 322159001623 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 322159001624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159001625 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 322159001626 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 322159001627 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 322159001628 dimer interface [polypeptide binding]; other site 322159001629 conserved gate region; other site 322159001630 putative PBP binding loops; other site 322159001631 ABC-ATPase subunit interface; other site 322159001632 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 322159001633 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 322159001634 Walker A/P-loop; other site 322159001635 ATP binding site [chemical binding]; other site 322159001636 Q-loop/lid; other site 322159001637 ABC transporter signature motif; other site 322159001638 Walker B; other site 322159001639 D-loop; other site 322159001640 H-loop/switch region; other site 322159001641 FeoA domain; Region: FeoA; cl00838 322159001642 FeoA domain; Region: FeoA; cl00838 322159001643 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 322159001644 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 322159001645 G1 box; other site 322159001646 GTP/Mg2+ binding site [chemical binding]; other site 322159001647 Switch I region; other site 322159001648 G2 box; other site 322159001649 G3 box; other site 322159001650 Switch II region; other site 322159001651 G4 box; other site 322159001652 G5 box; other site 322159001653 Nucleoside recognition; Region: Gate; cl00486 322159001654 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 322159001655 Nucleoside recognition; Region: Gate; cl00486 322159001656 Cupin domain; Region: Cupin_2; cl09118 322159001657 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 322159001658 non-specific DNA binding site [nucleotide binding]; other site 322159001659 salt bridge; other site 322159001660 sequence-specific DNA binding site [nucleotide binding]; other site 322159001661 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 322159001662 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 322159001663 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 322159001664 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 322159001665 homodimer interface [polypeptide binding]; other site 322159001666 NADP binding site [chemical binding]; other site 322159001667 substrate binding site [chemical binding]; other site 322159001668 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 322159001669 putative substrate binding site [chemical binding]; other site 322159001670 putative ATP binding site [chemical binding]; other site 322159001671 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 322159001672 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 322159001673 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 322159001674 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 322159001675 recombination protein RecR; Reviewed; Region: recR; PRK00076 322159001676 RecR protein; Region: RecR; pfam02132 322159001677 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 322159001678 putative active site [active] 322159001679 putative metal-binding site [ion binding]; other site 322159001680 tetramer interface [polypeptide binding]; other site 322159001681 CAT RNA binding domain; Region: CAT_RBD; cl03904 322159001682 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 322159001683 GTPase Era; Reviewed; Region: era; PRK00089 322159001684 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 322159001685 G1 box; other site 322159001686 GTP/Mg2+ binding site [chemical binding]; other site 322159001687 Switch I region; other site 322159001688 G2 box; other site 322159001689 Switch II region; other site 322159001690 G3 box; other site 322159001691 G4 box; other site 322159001692 G5 box; other site 322159001693 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 322159001694 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 322159001695 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 322159001696 DNA binding site [nucleotide binding] 322159001697 catalytic residue [active] 322159001698 H2TH interface [polypeptide binding]; other site 322159001699 putative catalytic residues [active] 322159001700 turnover-facilitating residue; other site 322159001701 intercalation triad [nucleotide binding]; other site 322159001702 8OG recognition residue [nucleotide binding]; other site 322159001703 putative reading head residues; other site 322159001704 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 322159001705 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 322159001706 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 322159001707 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 322159001708 CoA-binding site [chemical binding]; other site 322159001709 ATP-binding [chemical binding]; other site 322159001710 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 322159001711 Preprotein translocase SecG subunit; Region: SecG; cl09123 322159001712 ribonuclease R; Region: RNase_R; TIGR02063 322159001713 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 322159001714 RNB domain; Region: RNB; pfam00773 322159001715 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 322159001716 RNA binding site [nucleotide binding]; other site 322159001717 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 322159001718 SmpB-tmRNA interface; other site 322159001719 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 322159001720 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 322159001721 active site 322159001722 motif I; other site 322159001723 motif II; other site 322159001724 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 322159001725 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 322159001726 active site 322159001727 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 322159001728 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 322159001729 RNA binding site [nucleotide binding]; other site 322159001730 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 322159001731 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 322159001732 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 322159001733 active site 322159001734 catabolite control protein A; Region: ccpA; TIGR01481 322159001735 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 322159001736 DNA binding site [nucleotide binding] 322159001737 domain linker motif; other site 322159001738 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 322159001739 dimerization interface [polypeptide binding]; other site 322159001740 effector binding site; other site 322159001741 Protein of unknown function (DUF419); Region: DUF419; cl15265 322159001742 Glycerate kinase family; Region: Gly_kinase; cl00841 322159001743 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 322159001744 enolase; Provisional; Region: eno; PRK00077 322159001745 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 322159001746 dimer interface [polypeptide binding]; other site 322159001747 metal binding site [ion binding]; metal-binding site 322159001748 substrate binding pocket [chemical binding]; other site 322159001749 Sulfatase; Region: Sulfatase; cl10460 322159001750 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 322159001751 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 322159001752 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 322159001753 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 322159001754 active site 322159001755 catalytic residue [active] 322159001756 dimer interface [polypeptide binding]; other site 322159001757 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 322159001758 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 322159001759 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 322159001760 shikimate binding site; other site 322159001761 NAD(P) binding site [chemical binding]; other site 322159001762 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 322159001763 active site 322159001764 dimer interface [polypeptide binding]; other site 322159001765 metal binding site [ion binding]; metal-binding site 322159001766 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 322159001767 Tetramer interface [polypeptide binding]; other site 322159001768 active site 322159001769 FMN-binding site [chemical binding]; other site 322159001770 prephenate dehydrogenase; Validated; Region: PRK06545 322159001771 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159001772 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 322159001773 Protein of unknown function (DUF964); Region: DUF964; cl01483 322159001774 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 322159001775 tetramer (dimer of dimers) interface [polypeptide binding]; other site 322159001776 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 322159001777 NAD binding site [chemical binding]; other site 322159001778 dimer interface [polypeptide binding]; other site 322159001779 substrate binding site [chemical binding]; other site 322159001780 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 322159001781 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 322159001782 putative active site [active] 322159001783 shikimate kinase; Reviewed; Region: aroK; PRK00131 322159001784 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 322159001785 ADP binding site [chemical binding]; other site 322159001786 magnesium binding site [ion binding]; other site 322159001787 putative shikimate binding site; other site 322159001788 prephenate dehydratase; Provisional; Region: PRK11898 322159001789 Prephenate dehydratase; Region: PDT; pfam00800 322159001790 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 322159001791 putative L-Phe binding site [chemical binding]; other site 322159001792 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 322159001793 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 322159001794 gating phenylalanine in ion channel; other site 322159001795 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 322159001796 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 322159001797 active site 322159001798 Uncharacterized conserved protein [Function unknown]; Region: COG2128 322159001799 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 322159001800 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 322159001801 TRAM domain; Region: TRAM; cl01282 322159001802 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 322159001803 S-adenosylmethionine binding site [chemical binding]; other site 322159001804 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 322159001805 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 322159001806 CRISPR-associated protein Cas9/Csn1, subtype II/NMEMI; Region: cas_Csn1; TIGR01865 322159001807 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 322159001808 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 322159001809 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 322159001810 Predicted permeases [General function prediction only]; Region: COG0701 322159001811 Predicted permease; Region: DUF318; pfam03773 322159001812 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 322159001813 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 322159001814 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 322159001815 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 322159001816 RNA binding site [nucleotide binding]; other site 322159001817 hypothetical protein; Provisional; Region: PRK04351 322159001818 SprT homologues; Region: SprT; cl01182 322159001819 PspC domain; Region: PspC; cl00864 322159001820 HPr kinase/phosphorylase; Provisional; Region: PRK05428 322159001821 DRTGG domain; Region: DRTGG; cl12147 322159001822 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 322159001823 Hpr binding site; other site 322159001824 active site 322159001825 homohexamer subunit interaction site [polypeptide binding]; other site 322159001826 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 322159001827 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 322159001828 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 322159001829 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional; Region: PRK13585 322159001830 Peptidase family U32; Region: Peptidase_U32; cl03113 322159001831 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 322159001832 Peptidase family U32; Region: Peptidase_U32; cl03113 322159001833 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 322159001834 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 322159001835 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 322159001836 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 322159001837 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 322159001838 cofactor binding site; other site 322159001839 DNA binding site [nucleotide binding] 322159001840 substrate interaction site [chemical binding]; other site 322159001841 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 322159001842 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 322159001843 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 322159001844 dimer interface [polypeptide binding]; other site 322159001845 putative anticodon binding site; other site 322159001846 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 322159001847 motif 1; other site 322159001848 active site 322159001849 motif 2; other site 322159001850 motif 3; other site 322159001851 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 322159001852 putative peptidoglycan binding site; other site 322159001853 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 322159001854 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 322159001855 motif II; other site 322159001856 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 322159001857 catalytic core [active] 322159001858 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 322159001859 putative deacylase active site [active] 322159001860 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 322159001861 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 322159001862 active site 322159001863 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 322159001864 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 322159001865 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 322159001866 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 322159001867 ATP binding site [chemical binding]; other site 322159001868 putative Mg++ binding site [ion binding]; other site 322159001869 Bacteriophage abortive infection AbiH; Region: AbiH; pfam14253 322159001870 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 322159001871 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 322159001872 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 322159001873 HsdM N-terminal domain; Region: HsdM_N; pfam12161 322159001874 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 322159001875 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159001876 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 322159001877 LemA family; Region: LemA; cl00742 322159001878 Peptidase family M48; Region: Peptidase_M48; cl12018 322159001879 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 322159001880 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 322159001881 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 322159001882 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 322159001883 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 322159001884 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 322159001885 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 322159001886 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159001887 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 322159001888 Ferritin-like domain; Region: Ferritin; pfam00210 322159001889 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 322159001890 dimerization interface [polypeptide binding]; other site 322159001891 DPS ferroxidase diiron center [ion binding]; other site 322159001892 ion pore; other site 322159001893 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 322159001894 metal binding site 2 [ion binding]; metal-binding site 322159001895 putative DNA binding helix; other site 322159001896 metal binding site 1 [ion binding]; metal-binding site 322159001897 dimer interface [polypeptide binding]; other site 322159001898 structural Zn2+ binding site [ion binding]; other site 322159001899 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 322159001900 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 322159001901 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 322159001902 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 322159001903 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 322159001904 G1 box; other site 322159001905 putative GEF interaction site [polypeptide binding]; other site 322159001906 GTP/Mg2+ binding site [chemical binding]; other site 322159001907 Switch I region; other site 322159001908 G2 box; other site 322159001909 G3 box; other site 322159001910 Switch II region; other site 322159001911 G4 box; other site 322159001912 G5 box; other site 322159001913 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 322159001914 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 322159001915 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 322159001916 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 322159001917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159001918 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 322159001919 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 322159001920 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 322159001921 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 322159001922 homodimer interface [polypeptide binding]; other site 322159001923 active site 322159001924 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 322159001925 Cell division protein FtsQ; Region: FtsQ; pfam03799 322159001926 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 322159001927 Cell division protein FtsA; Region: FtsA; cl11496 322159001928 Cell division protein FtsA; Region: FtsA; cl11496 322159001929 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 322159001930 cell division protein FtsZ; Validated; Region: PRK09330 322159001931 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 322159001932 nucleotide binding site [chemical binding]; other site 322159001933 SulA interaction site; other site 322159001934 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 322159001935 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 322159001936 catalytic residue [active] 322159001937 Protein of unknown function (DUF552); Region: DUF552; cl00775 322159001938 YGGT family; Region: YGGT; cl00508 322159001939 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 322159001940 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 322159001941 RNA binding surface [nucleotide binding]; other site 322159001942 DivIVA protein; Region: DivIVA; pfam05103 322159001943 DivIVA domain; Region: DivI1A_domain; TIGR03544 322159001944 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 322159001945 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 322159001946 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 322159001947 active site 322159001948 HIGH motif; other site 322159001949 nucleotide binding site [chemical binding]; other site 322159001950 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 322159001951 active site 322159001952 KMSKS motif; other site 322159001953 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 322159001954 tRNA binding surface [nucleotide binding]; other site 322159001955 anticodon binding site; other site 322159001956 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 322159001957 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 322159001958 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 322159001959 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 322159001960 ApbE family; Region: ApbE; cl00643 322159001961 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 322159001962 DHH family; Region: DHH; pfam01368 322159001963 DHHA1 domain; Region: DHHA1; pfam02272 322159001964 putative S-transferase; Provisional; Region: PRK11752 322159001965 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 322159001966 C-terminal domain interface [polypeptide binding]; other site 322159001967 GSH binding site (G-site) [chemical binding]; other site 322159001968 dimer interface [polypeptide binding]; other site 322159001969 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 322159001970 dimer interface [polypeptide binding]; other site 322159001971 N-terminal domain interface [polypeptide binding]; other site 322159001972 active site 322159001973 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 322159001974 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 322159001975 active site 322159001976 thymidine kinase; Provisional; Region: PRK04296 322159001977 peptide chain release factor 1; Validated; Region: prfA; PRK00591 322159001978 RF-1 domain; Region: RF-1; cl02875 322159001979 RF-1 domain; Region: RF-1; cl02875 322159001980 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 322159001981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159001982 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 322159001983 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 322159001984 dimer interface [polypeptide binding]; other site 322159001985 glycine-pyridoxal phosphate binding site [chemical binding]; other site 322159001986 active site 322159001987 folate binding site [chemical binding]; other site 322159001988 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 322159001989 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 322159001990 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 322159001991 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 322159001992 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159001993 Walker A/P-loop; other site 322159001994 ATP binding site [chemical binding]; other site 322159001995 Q-loop/lid; other site 322159001996 ABC transporter signature motif; other site 322159001997 Walker B; other site 322159001998 D-loop; other site 322159001999 H-loop/switch region; other site 322159002000 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 322159002001 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 322159002002 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 322159002003 Walker A/P-loop; other site 322159002004 ATP binding site [chemical binding]; other site 322159002005 Q-loop/lid; other site 322159002006 ABC transporter signature motif; other site 322159002007 Walker B; other site 322159002008 D-loop; other site 322159002009 H-loop/switch region; other site 322159002010 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 322159002011 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 322159002012 AMP-binding enzyme; Region: AMP-binding; cl15778 322159002013 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 322159002014 Phosphopantetheine attachment site; Region: PP-binding; cl09936 322159002015 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 322159002016 DltD N-terminal region; Region: DltD_N; pfam04915 322159002017 DltD central region; Region: DltD_M; pfam04918 322159002018 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 322159002019 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 322159002020 plasma-membrane calcium-translocating P-type ATPase; Region: ATPase-IIB_Ca; TIGR01517 322159002021 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 322159002022 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 322159002023 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 322159002024 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 322159002025 anthranilate synthase component I; Reviewed; Region: PRK06404 322159002026 chorismate binding enzyme; Region: Chorismate_bind; cl10555 322159002027 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 322159002028 substrate-cofactor binding pocket; other site 322159002029 homodimer interface [polypeptide binding]; other site 322159002030 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159002031 catalytic residue [active] 322159002032 Helix-turn-helix domains; Region: HTH; cl00088 322159002033 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 322159002034 D5 N terminal like; Region: D5_N; cl07360 322159002035 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 322159002036 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 322159002037 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 322159002038 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 322159002039 non-specific DNA binding site [nucleotide binding]; other site 322159002040 salt bridge; other site 322159002041 sequence-specific DNA binding site [nucleotide binding]; other site 322159002042 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 322159002043 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 322159002044 Int/Topo IB signature motif; other site 322159002045 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 322159002046 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 322159002047 THF binding site; other site 322159002048 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 322159002049 substrate binding site [chemical binding]; other site 322159002050 THF binding site; other site 322159002051 zinc-binding site [ion binding]; other site 322159002052 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 322159002053 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 322159002054 FAD binding site [chemical binding]; other site 322159002055 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 322159002056 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 322159002057 active site 322159002058 substrate binding site [chemical binding]; other site 322159002059 metal binding site [ion binding]; metal-binding site 322159002060 Predicted membrane protein [Function unknown]; Region: COG4684 322159002061 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 322159002062 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 322159002063 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 322159002064 Potassium binding sites [ion binding]; other site 322159002065 Cesium cation binding sites [ion binding]; other site 322159002066 Helix-turn-helix domains; Region: HTH; cl00088 322159002067 Helix-turn-helix domains; Region: HTH; cl00088 322159002068 Helix-turn-helix domains; Region: HTH; cl00088 322159002069 putative transposase OrfB; Reviewed; Region: PHA02517 322159002070 HTH-like domain; Region: HTH_21; pfam13276 322159002071 Integrase core domain; Region: rve; cl01316 322159002072 Integrase core domain; Region: rve_3; cl15866 322159002073 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 322159002074 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159002075 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 322159002076 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 322159002077 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 322159002078 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 322159002079 Cl- selectivity filter; other site 322159002080 Cl- binding residues [ion binding]; other site 322159002081 pore gating glutamate residue; other site 322159002082 dimer interface [polypeptide binding]; other site 322159002083 H+/Cl- coupling transport residue; other site 322159002084 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 322159002085 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 322159002086 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 322159002087 putative active site [active] 322159002088 catalytic triad [active] 322159002089 PA_C5a_like: Protease-associated domain containing proteins like Streptococcus pyogenes C5a peptidase. This group contains various PA domain-containing proteins similar to S. pyogenes C5a, including, i) Vpr, a minor extracellular serine protease from...; Region: PA_C5a_like; cd02133 322159002090 PA/protease domain interface [polypeptide binding]; other site 322159002091 putative integrin binding motif; other site 322159002092 Peptidase S8 family domain in Streptococcal C5a peptidases; Region: Peptidases_S8_C5a_Peptidase; cd07475 322159002093 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 322159002094 FlgD Ig-like domain; Region: FlgD_ig; cl15790 322159002095 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 322159002096 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 322159002097 Gram positive anchor; Region: Gram_pos_anchor; cl15427 322159002098 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 322159002099 Helix-turn-helix domains; Region: HTH; cl00088 322159002100 Helix-turn-helix domains; Region: HTH; cl00088 322159002101 Helix-turn-helix domains; Region: HTH; cl00088 322159002102 putative transposase OrfB; Reviewed; Region: PHA02517 322159002103 HTH-like domain; Region: HTH_21; pfam13276 322159002104 Integrase core domain; Region: rve; cl01316 322159002105 Integrase core domain; Region: rve_3; cl15866 322159002106 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159002107 Helix-turn-helix domains; Region: HTH; cl00088 322159002108 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159002109 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 322159002110 pantothenate kinase; Provisional; Region: PRK05439 322159002111 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 322159002112 ATP-binding site [chemical binding]; other site 322159002113 CoA-binding site [chemical binding]; other site 322159002114 Mg2+-binding site [ion binding]; other site 322159002115 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 322159002116 S-adenosylmethionine binding site [chemical binding]; other site 322159002117 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 322159002118 active site 322159002119 catalytic motif [active] 322159002120 Zn binding site [ion binding]; other site 322159002121 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 322159002122 ligand binding site [chemical binding]; other site 322159002123 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 322159002124 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 322159002125 Walker A/P-loop; other site 322159002126 ATP binding site [chemical binding]; other site 322159002127 Q-loop/lid; other site 322159002128 ABC transporter signature motif; other site 322159002129 Walker B; other site 322159002130 D-loop; other site 322159002131 H-loop/switch region; other site 322159002132 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 322159002133 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 322159002134 TM-ABC transporter signature motif; other site 322159002135 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 322159002136 TM-ABC transporter signature motif; other site 322159002137 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 322159002138 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 322159002139 aspartate aminotransferase; Provisional; Region: PRK05764 322159002140 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 322159002141 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159002142 homodimer interface [polypeptide binding]; other site 322159002143 catalytic residue [active] 322159002144 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 322159002145 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 322159002146 putative dimer interface [polypeptide binding]; other site 322159002147 putative anticodon binding site; other site 322159002148 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 322159002149 homodimer interface [polypeptide binding]; other site 322159002150 motif 1; other site 322159002151 motif 2; other site 322159002152 active site 322159002153 motif 3; other site 322159002154 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 322159002155 homotrimer interaction site [polypeptide binding]; other site 322159002156 putative active site [active] 322159002157 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 322159002158 Ligand Binding Site [chemical binding]; other site 322159002159 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 322159002160 active site 322159002161 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 322159002162 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 322159002163 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 322159002164 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 322159002165 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 322159002166 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 322159002167 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 322159002168 dimer interface [polypeptide binding]; other site 322159002169 phosphate binding site [ion binding]; other site 322159002170 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 322159002171 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 322159002172 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 322159002173 DNA-binding site [nucleotide binding]; DNA binding site 322159002174 RNA-binding motif; other site 322159002175 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 322159002176 DNA-binding site [nucleotide binding]; DNA binding site 322159002177 RNA-binding motif; other site 322159002178 Transposase, Mutator family; Region: Transposase_mut; pfam00872 322159002179 MULE transposase domain; Region: MULE; pfam10551 322159002180 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 322159002181 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 322159002182 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 322159002183 Transposase, Mutator family; Region: Transposase_mut; pfam00872 322159002184 MULE transposase domain; Region: MULE; pfam10551 322159002185 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 322159002186 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 322159002187 dimer interface [polypeptide binding]; other site 322159002188 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159002189 catalytic residue [active] 322159002190 cystathionine beta-lyase; Provisional; Region: PRK07671 322159002191 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 322159002192 homodimer interface [polypeptide binding]; other site 322159002193 substrate-cofactor binding pocket; other site 322159002194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159002195 catalytic residue [active] 322159002196 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 322159002197 trimer interface [polypeptide binding]; other site 322159002198 active site 322159002199 substrate binding site [chemical binding]; other site 322159002200 CoA binding site [chemical binding]; other site 322159002201 Transposase, Mutator family; Region: Transposase_mut; pfam00872 322159002202 MULE transposase domain; Region: MULE; pfam10551 322159002203 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 322159002204 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 322159002205 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 322159002206 metal binding site [ion binding]; metal-binding site 322159002207 YodA lipocalin-like domain; Region: YodA; cl01365 322159002208 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 322159002209 Transcriptional regulator [Transcription]; Region: LysR; COG0583 322159002210 Helix-turn-helix domains; Region: HTH; cl00088 322159002211 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 322159002212 dimerization interface [polypeptide binding]; other site 322159002213 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 322159002214 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 322159002215 glutaminase active site [active] 322159002216 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 322159002217 dimer interface [polypeptide binding]; other site 322159002218 active site 322159002219 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 322159002220 dimer interface [polypeptide binding]; other site 322159002221 active site 322159002222 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 322159002223 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 322159002224 PhnA protein; Region: PhnA; pfam03831 322159002225 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 322159002226 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 322159002227 dimer interface [polypeptide binding]; other site 322159002228 conserved gate region; other site 322159002229 ABC-ATPase subunit interface; other site 322159002230 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 322159002231 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159002232 Walker A/P-loop; other site 322159002233 ATP binding site [chemical binding]; other site 322159002234 Q-loop/lid; other site 322159002235 ABC transporter signature motif; other site 322159002236 Walker B; other site 322159002237 D-loop; other site 322159002238 H-loop/switch region; other site 322159002239 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 322159002240 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 322159002241 substrate binding pocket [chemical binding]; other site 322159002242 membrane-bound complex binding site; other site 322159002243 hinge residues; other site 322159002244 GMP synthase; Reviewed; Region: guaA; PRK00074 322159002245 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 322159002246 AMP/PPi binding site [chemical binding]; other site 322159002247 candidate oxyanion hole; other site 322159002248 catalytic triad [active] 322159002249 potential glutamine specificity residues [chemical binding]; other site 322159002250 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 322159002251 ATP Binding subdomain [chemical binding]; other site 322159002252 Dimerization subdomain; other site 322159002253 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 322159002254 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 322159002255 DNA-binding site [nucleotide binding]; DNA binding site 322159002256 UTRA domain; Region: UTRA; cl01230 322159002257 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 322159002258 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 322159002259 signal recognition particle protein; Provisional; Region: PRK10867 322159002260 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 322159002261 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 322159002262 P loop; other site 322159002263 GTP binding site [chemical binding]; other site 322159002264 Signal peptide binding domain; Region: SRP_SPB; pfam02978 322159002265 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 322159002266 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 322159002267 Helix-turn-helix domains; Region: HTH; cl00088 322159002268 3H domain; Region: 3H; pfam02829 322159002269 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 322159002270 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 322159002271 non-specific DNA binding site [nucleotide binding]; other site 322159002272 salt bridge; other site 322159002273 sequence-specific DNA binding site [nucleotide binding]; other site 322159002274 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 322159002275 Catalytic site [active] 322159002276 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 322159002277 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 322159002278 GTP/Mg2+ binding site [chemical binding]; other site 322159002279 G4 box; other site 322159002280 G5 box; other site 322159002281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159002282 G1 box; other site 322159002283 G1 box; other site 322159002284 GTP/Mg2+ binding site [chemical binding]; other site 322159002285 Switch I region; other site 322159002286 G2 box; other site 322159002287 G2 box; other site 322159002288 G3 box; other site 322159002289 G3 box; other site 322159002290 Switch II region; other site 322159002291 Switch II region; other site 322159002292 G5 box; other site 322159002293 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 322159002294 RNA/DNA hybrid binding site [nucleotide binding]; other site 322159002295 active site 322159002296 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 322159002297 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 322159002298 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 322159002299 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 322159002300 DNA topoisomerase I; Validated; Region: PRK05582 322159002301 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 322159002302 active site 322159002303 interdomain interaction site; other site 322159002304 putative metal-binding site [ion binding]; other site 322159002305 nucleotide binding site [chemical binding]; other site 322159002306 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 322159002307 domain I; other site 322159002308 DNA binding groove [nucleotide binding] 322159002309 phosphate binding site [ion binding]; other site 322159002310 domain II; other site 322159002311 domain III; other site 322159002312 nucleotide binding site [chemical binding]; other site 322159002313 catalytic site [active] 322159002314 domain IV; other site 322159002315 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 322159002316 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 322159002317 TraX protein; Region: TraX; cl05434 322159002318 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 322159002319 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 322159002320 active site 322159002321 phosphorylation site [posttranslational modification] 322159002322 intermolecular recognition site; other site 322159002323 dimerization interface [polypeptide binding]; other site 322159002324 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 322159002325 DNA binding site [nucleotide binding] 322159002326 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 322159002327 dimer interface [polypeptide binding]; other site 322159002328 phosphorylation site [posttranslational modification] 322159002329 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 322159002330 ATP binding site [chemical binding]; other site 322159002331 Mg2+ binding site [ion binding]; other site 322159002332 G-X-G motif; other site 322159002333 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 322159002334 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159002335 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 322159002336 active site 322159002337 multimer interface [polypeptide binding]; other site 322159002338 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 322159002339 active site residue [active] 322159002340 GTP-binding protein LepA; Provisional; Region: PRK05433 322159002341 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 322159002342 G1 box; other site 322159002343 putative GEF interaction site [polypeptide binding]; other site 322159002344 GTP/Mg2+ binding site [chemical binding]; other site 322159002345 Switch I region; other site 322159002346 G2 box; other site 322159002347 G3 box; other site 322159002348 Switch II region; other site 322159002349 G4 box; other site 322159002350 G5 box; other site 322159002351 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 322159002352 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 322159002353 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 322159002354 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 322159002355 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 322159002356 non-specific DNA binding site [nucleotide binding]; other site 322159002357 salt bridge; other site 322159002358 sequence-specific DNA binding site [nucleotide binding]; other site 322159002359 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 322159002360 Flagellin N-methylase; Region: FliB; cl00497 322159002361 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 322159002362 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 322159002363 FeS/SAM binding site; other site 322159002364 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 322159002365 Arginase family; Region: Arginase; cl00306 322159002366 acetolactate synthase; Reviewed; Region: PRK08617 322159002367 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 322159002368 PYR/PP interface [polypeptide binding]; other site 322159002369 dimer interface [polypeptide binding]; other site 322159002370 TPP binding site [chemical binding]; other site 322159002371 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 322159002372 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 322159002373 TPP-binding site [chemical binding]; other site 322159002374 dimer interface [polypeptide binding]; other site 322159002375 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 322159002376 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 322159002377 Helix-turn-helix domains; Region: HTH; cl00088 322159002378 Cation efflux family; Region: Cation_efflux; cl00316 322159002379 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 322159002380 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 322159002381 active site 322159002382 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 322159002383 active site 322159002384 N-terminal domain interface [polypeptide binding]; other site 322159002385 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 322159002386 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 322159002387 catalytic Zn binding site [ion binding]; other site 322159002388 NAD(P) binding site [chemical binding]; other site 322159002389 structural Zn binding site [ion binding]; other site 322159002390 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 322159002391 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 322159002392 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 322159002393 motif II; other site 322159002394 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 322159002395 Domain of unknown function (DUF814); Region: DUF814; pfam05670 322159002396 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 322159002397 nudix motif; other site 322159002398 TraX protein; Region: TraX; cl05434 322159002399 DJ-1 family protein; Region: not_thiJ; TIGR01383 322159002400 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 322159002401 conserved cys residue [active] 322159002402 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 322159002403 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 322159002404 FAD binding pocket [chemical binding]; other site 322159002405 FAD binding motif [chemical binding]; other site 322159002406 phosphate binding motif [ion binding]; other site 322159002407 beta-alpha-beta structure motif; other site 322159002408 NAD binding pocket [chemical binding]; other site 322159002409 Iron coordination center [ion binding]; other site 322159002410 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 322159002411 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 322159002412 heterodimer interface [polypeptide binding]; other site 322159002413 active site 322159002414 FMN binding site [chemical binding]; other site 322159002415 homodimer interface [polypeptide binding]; other site 322159002416 substrate binding site [chemical binding]; other site 322159002417 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 322159002418 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 322159002419 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 322159002420 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cl00622 322159002421 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 322159002422 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 322159002423 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl00592 322159002424 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl09873 322159002425 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cl09873 322159002426 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 322159002427 active site 322159002428 dimer interface [polypeptide binding]; other site 322159002429 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 322159002430 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 322159002431 active site 322159002432 amidase; Provisional; Region: PRK06529 322159002433 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 322159002434 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 322159002435 putative substrate translocation pore; other site 322159002436 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 322159002437 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 322159002438 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 322159002439 trmE is a tRNA modification GTPase; Region: trmE; cd04164 322159002440 G1 box; other site 322159002441 GTP/Mg2+ binding site [chemical binding]; other site 322159002442 Switch I region; other site 322159002443 G2 box; other site 322159002444 Switch II region; other site 322159002445 G3 box; other site 322159002446 G4 box; other site 322159002447 G5 box; other site 322159002448 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 322159002449 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 322159002450 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 322159002451 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 322159002452 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159002453 Family description; Region: UvrD_C_2; cl15862 322159002454 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 322159002455 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 322159002456 homodimer interface [polypeptide binding]; other site 322159002457 substrate-cofactor binding pocket; other site 322159002458 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159002459 catalytic residue [active] 322159002460 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 322159002461 dimer interface [polypeptide binding]; other site 322159002462 catalytic triad [active] 322159002463 peroxidatic and resolving cysteines [active] 322159002464 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 322159002465 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 322159002466 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 322159002467 RNA binding site [nucleotide binding]; other site 322159002468 active site 322159002469 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 322159002470 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 322159002471 active site 322159002472 Riboflavin kinase; Region: Flavokinase; cl03312 322159002473 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 322159002474 putative catalytic residues [active] 322159002475 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 322159002476 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 322159002477 active site 322159002478 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 322159002479 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 322159002480 S-adenosylmethionine binding site [chemical binding]; other site 322159002481 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 322159002482 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 322159002483 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 322159002484 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 322159002485 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 322159002486 dimer interface [polypeptide binding]; other site 322159002487 conserved gate region; other site 322159002488 putative PBP binding loops; other site 322159002489 ABC-ATPase subunit interface; other site 322159002490 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 322159002491 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 322159002492 dimer interface [polypeptide binding]; other site 322159002493 conserved gate region; other site 322159002494 putative PBP binding loops; other site 322159002495 ABC-ATPase subunit interface; other site 322159002496 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 322159002497 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 322159002498 Walker A/P-loop; other site 322159002499 ATP binding site [chemical binding]; other site 322159002500 Q-loop/lid; other site 322159002501 ABC transporter signature motif; other site 322159002502 Walker B; other site 322159002503 D-loop; other site 322159002504 H-loop/switch region; other site 322159002505 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 322159002506 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 322159002507 Walker A/P-loop; other site 322159002508 ATP binding site [chemical binding]; other site 322159002509 Q-loop/lid; other site 322159002510 ABC transporter signature motif; other site 322159002511 Walker B; other site 322159002512 D-loop; other site 322159002513 H-loop/switch region; other site 322159002514 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 322159002515 PhoU domain; Region: PhoU; pfam01895 322159002516 PhoU domain; Region: PhoU; pfam01895 322159002517 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 322159002518 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 322159002519 Zn binding site [ion binding]; other site 322159002520 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 322159002521 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 322159002522 DNA binding site [nucleotide binding] 322159002523 Int/Topo IB signature motif; other site 322159002524 active site 322159002525 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 322159002526 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 322159002527 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 322159002528 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 322159002529 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 322159002530 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 322159002531 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 322159002532 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 322159002533 Iron permease FTR1 family; Region: FTR1; cl00475 322159002534 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 322159002535 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 322159002536 Imelysin; Region: Peptidase_M75; cl09159 322159002537 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 322159002538 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 322159002539 putative ligand binding residues [chemical binding]; other site 322159002540 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 322159002541 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 322159002542 Walker A/P-loop; other site 322159002543 ATP binding site [chemical binding]; other site 322159002544 Q-loop/lid; other site 322159002545 ABC transporter signature motif; other site 322159002546 Walker B; other site 322159002547 D-loop; other site 322159002548 H-loop/switch region; other site 322159002549 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 322159002550 ABC-ATPase subunit interface; other site 322159002551 dimer interface [polypeptide binding]; other site 322159002552 putative PBP binding regions; other site 322159002553 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 322159002554 ABC-ATPase subunit interface; other site 322159002555 dimer interface [polypeptide binding]; other site 322159002556 putative PBP binding regions; other site 322159002557 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 322159002558 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 322159002559 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 322159002560 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 322159002561 E3 interaction surface; other site 322159002562 lipoyl attachment site [posttranslational modification]; other site 322159002563 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 322159002564 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 322159002565 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 322159002566 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 322159002567 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 322159002568 E3 interaction surface; other site 322159002569 lipoyl attachment site [posttranslational modification]; other site 322159002570 e3 binding domain; Region: E3_binding; pfam02817 322159002571 e3 binding domain; Region: E3_binding; pfam02817 322159002572 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 322159002573 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 322159002574 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 322159002575 alpha subunit interface [polypeptide binding]; other site 322159002576 TPP binding site [chemical binding]; other site 322159002577 heterodimer interface [polypeptide binding]; other site 322159002578 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 322159002579 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 322159002580 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 322159002581 tetramer interface [polypeptide binding]; other site 322159002582 TPP-binding site [chemical binding]; other site 322159002583 heterodimer interface [polypeptide binding]; other site 322159002584 phosphorylation loop region [posttranslational modification] 322159002585 dihydroorotase; Validated; Region: pyrC; PRK09357 322159002586 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 322159002587 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 322159002588 active site 322159002589 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 322159002590 ligand binding site [chemical binding]; other site 322159002591 active site 322159002592 UGI interface [polypeptide binding]; other site 322159002593 catalytic site [active] 322159002594 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 322159002595 Cation efflux family; Region: Cation_efflux; cl00316 322159002596 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 322159002597 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 322159002598 active site 322159002599 nucleophile elbow; other site 322159002600 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 322159002601 active site 322159002602 oxyanion hole [active] 322159002603 catalytic triad [active] 322159002604 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 322159002605 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 322159002606 ATP binding site [chemical binding]; other site 322159002607 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 322159002608 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 322159002609 Domain of unknown function DUF20; Region: UPF0118; cl00465 322159002610 VanZ like family; Region: VanZ; cl01971 322159002611 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 322159002612 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 322159002613 Helix-turn-helix domains; Region: HTH; cl00088 322159002614 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159002615 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 322159002616 MatE; Region: MatE; cl10513 322159002617 putative glycosyl transferase; Provisional; Region: PRK10073 322159002618 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 322159002619 active site 322159002620 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 322159002621 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 322159002622 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 322159002623 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 322159002624 Probable Catalytic site; other site 322159002625 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 322159002626 This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1); Region: GT1_CapH_like; cd03812 322159002627 putative ADP-binding pocket [chemical binding]; other site 322159002628 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 322159002629 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 322159002630 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 322159002631 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159002632 Bacterial sugar transferase; Region: Bac_transf; cl00939 322159002633 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 322159002634 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159002635 Chain length determinant protein; Region: Wzz; cl15801 322159002636 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 322159002637 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 322159002638 DNA polymerase processivity factor; Region: DNA_PPF; pfam02916 322159002639 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 322159002640 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 322159002641 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 322159002642 Sulfatase; Region: Sulfatase; cl10460 322159002643 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 322159002644 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 322159002645 tetramer (dimer of dimers) interface [polypeptide binding]; other site 322159002646 active site 322159002647 dimer interface [polypeptide binding]; other site 322159002648 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 322159002649 putative uracil binding site [chemical binding]; other site 322159002650 putative active site [active] 322159002651 dipeptidase PepV; Reviewed; Region: PRK07318 322159002652 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 322159002653 active site 322159002654 metal binding site [ion binding]; metal-binding site 322159002655 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 322159002656 active site 1 [active] 322159002657 dimer interface [polypeptide binding]; other site 322159002658 hexamer interface [polypeptide binding]; other site 322159002659 active site 2 [active] 322159002660 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 322159002661 23S rRNA binding site [nucleotide binding]; other site 322159002662 L21 binding site [polypeptide binding]; other site 322159002663 L13 binding site [polypeptide binding]; other site 322159002664 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 322159002665 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 322159002666 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 322159002667 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 322159002668 cytidylate kinase; Provisional; Region: cmk; PRK00023 322159002669 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 322159002670 CMP-binding site; other site 322159002671 The sites determining sugar specificity; other site 322159002672 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 322159002673 peptidase T; Region: peptidase-T; TIGR01882 322159002674 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 322159002675 metal binding site [ion binding]; metal-binding site 322159002676 dimer interface [polypeptide binding]; other site 322159002677 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 322159002678 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 322159002679 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 322159002680 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 322159002681 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 322159002682 putative active site [active] 322159002683 nucleotide binding site [chemical binding]; other site 322159002684 nudix motif; other site 322159002685 putative metal binding site [ion binding]; other site 322159002686 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 322159002687 FtsX-like permease family; Region: FtsX; cl15850 322159002688 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 322159002689 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159002690 Walker A/P-loop; other site 322159002691 ATP binding site [chemical binding]; other site 322159002692 Q-loop/lid; other site 322159002693 ABC transporter signature motif; other site 322159002694 Walker B; other site 322159002695 D-loop; other site 322159002696 H-loop/switch region; other site 322159002697 peptide chain release factor 2; Validated; Region: prfB; PRK00578 322159002698 RF-1 domain; Region: RF-1; cl02875 322159002699 RF-1 domain; Region: RF-1; cl02875 322159002700 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 322159002701 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 322159002702 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 322159002703 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 322159002704 dimer interface [polypeptide binding]; other site 322159002705 FMN binding site [chemical binding]; other site 322159002706 NADPH bind site [chemical binding]; other site 322159002707 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 322159002708 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 322159002709 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 322159002710 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 322159002711 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 322159002712 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 322159002713 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 322159002714 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 322159002715 Coenzyme A binding pocket [chemical binding]; other site 322159002716 sugar phosphate phosphatase; Provisional; Region: PRK10513 322159002717 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 322159002718 active site 322159002719 motif I; other site 322159002720 motif II; other site 322159002721 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 322159002722 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 322159002723 Protein of unknown function (DUF454); Region: DUF454; cl01063 322159002724 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 322159002725 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 322159002726 dimerization interface [polypeptide binding]; other site 322159002727 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 322159002728 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 322159002729 putative active site [active] 322159002730 heme pocket [chemical binding]; other site 322159002731 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 322159002732 dimer interface [polypeptide binding]; other site 322159002733 phosphorylation site [posttranslational modification] 322159002734 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 322159002735 ATP binding site [chemical binding]; other site 322159002736 Mg2+ binding site [ion binding]; other site 322159002737 G-X-G motif; other site 322159002738 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 322159002739 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 322159002740 active site 322159002741 phosphorylation site [posttranslational modification] 322159002742 intermolecular recognition site; other site 322159002743 dimerization interface [polypeptide binding]; other site 322159002744 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 322159002745 DNA binding site [nucleotide binding] 322159002746 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 322159002747 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 322159002748 Walker A/P-loop; other site 322159002749 ATP binding site [chemical binding]; other site 322159002750 Q-loop/lid; other site 322159002751 ABC transporter signature motif; other site 322159002752 Walker B; other site 322159002753 D-loop; other site 322159002754 H-loop/switch region; other site 322159002755 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 322159002756 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 322159002757 substrate binding pocket [chemical binding]; other site 322159002758 membrane-bound complex binding site; other site 322159002759 hinge residues; other site 322159002760 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 322159002761 dimer interface [polypeptide binding]; other site 322159002762 conserved gate region; other site 322159002763 putative PBP binding loops; other site 322159002764 ABC-ATPase subunit interface; other site 322159002765 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 322159002766 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 322159002767 dimer interface [polypeptide binding]; other site 322159002768 conserved gate region; other site 322159002769 putative PBP binding loops; other site 322159002770 ABC-ATPase subunit interface; other site 322159002771 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 322159002772 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 322159002773 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 322159002774 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 322159002775 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 322159002776 hinge; other site 322159002777 active site 322159002778 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 322159002779 UDP-glucose 4-epimerase; Region: PLN02240 322159002780 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 322159002781 NAD binding site [chemical binding]; other site 322159002782 homodimer interface [polypeptide binding]; other site 322159002783 active site 322159002784 substrate binding site [chemical binding]; other site 322159002785 CotH protein; Region: CotH; pfam08757 322159002786 Predicted membrane protein [Function unknown]; Region: COG4267 322159002787 Predicted membrane protein [Function unknown]; Region: COG4267 322159002788 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_3; cd03813 322159002789 Uncharacterized protein conserved in bacteria (DUF2194); Region: DUF2194; pfam09960 322159002790 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG4878; cd10924 322159002791 NodB motif; other site 322159002792 putative active site [active] 322159002793 putative catalytic site [active] 322159002794 putative Zn binding site [ion binding]; other site 322159002795 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 322159002796 S-adenosylmethionine synthetase; Validated; Region: PRK05250 322159002797 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 322159002798 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 322159002799 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 322159002800 Helix-turn-helix domains; Region: HTH; cl00088 322159002801 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 322159002802 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 322159002803 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 322159002804 Protein of unknown function (DUF3272); Region: DUF3272; pfam11676 322159002805 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 322159002806 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 322159002807 Walker A motif; other site 322159002808 ATP binding site [chemical binding]; other site 322159002809 Walker B motif; other site 322159002810 arginine finger; other site 322159002811 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 322159002812 GAF domain; Region: GAF; cl15785 322159002813 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159002814 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 322159002815 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 322159002816 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 322159002817 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 322159002818 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 322159002819 putative Cl- selectivity filter; other site 322159002820 putative pore gating glutamate residue; other site 322159002821 Chorismate mutase type II; Region: CM_2; cl00693 322159002822 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 322159002823 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 322159002824 Cl- selectivity filter; other site 322159002825 Cl- binding residues [ion binding]; other site 322159002826 pore gating glutamate residue; other site 322159002827 dimer interface [polypeptide binding]; other site 322159002828 H+/Cl- coupling transport residue; other site 322159002829 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 322159002830 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 322159002831 Predicted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5549 322159002832 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 322159002833 active site 322159002834 Predicted esterase [General function prediction only]; Region: COG0627 322159002835 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 322159002836 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 322159002837 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 322159002838 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 322159002839 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 322159002840 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159002841 Walker A/P-loop; other site 322159002842 ATP binding site [chemical binding]; other site 322159002843 Q-loop/lid; other site 322159002844 ABC transporter signature motif; other site 322159002845 Walker B; other site 322159002846 D-loop; other site 322159002847 H-loop/switch region; other site 322159002848 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 322159002849 TM-ABC transporter signature motif; other site 322159002850 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 322159002851 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 322159002852 zinc binding site [ion binding]; other site 322159002853 putative ligand binding site [chemical binding]; other site 322159002854 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159002855 Helix-turn-helix domains; Region: HTH; cl00088 322159002856 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159002857 pyruvate kinase; Provisional; Region: PRK05826 322159002858 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 322159002859 domain interfaces; other site 322159002860 active site 322159002861 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 322159002862 active site 322159002863 ADP/pyrophosphate binding site [chemical binding]; other site 322159002864 dimerization interface [polypeptide binding]; other site 322159002865 allosteric effector site; other site 322159002866 fructose-1,6-bisphosphate binding site; other site 322159002867 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 322159002868 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 322159002869 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 322159002870 generic binding surface II; other site 322159002871 generic binding surface I; other site 322159002872 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 322159002873 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 322159002874 substrate binding site [chemical binding]; other site 322159002875 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 322159002876 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 322159002877 substrate binding site [chemical binding]; other site 322159002878 ligand binding site [chemical binding]; other site 322159002879 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 322159002880 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 322159002881 tartrate dehydrogenase; Provisional; Region: PRK08194 322159002882 2-isopropylmalate synthase; Validated; Region: PRK00915 322159002883 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 322159002884 active site 322159002885 catalytic residues [active] 322159002886 metal binding site [ion binding]; metal-binding site 322159002887 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 322159002888 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 322159002889 catalytic core [active] 322159002890 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 322159002891 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 322159002892 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 322159002893 active site 322159002894 FMN binding site [chemical binding]; other site 322159002895 substrate binding site [chemical binding]; other site 322159002896 catalytic residues [active] 322159002897 homodimer interface [polypeptide binding]; other site 322159002898 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 322159002899 IHF dimer interface [polypeptide binding]; other site 322159002900 IHF - DNA interface [nucleotide binding]; other site 322159002901 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 322159002902 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 322159002903 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 322159002904 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 322159002905 Walker A/P-loop; other site 322159002906 ATP binding site [chemical binding]; other site 322159002907 Q-loop/lid; other site 322159002908 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 322159002909 ABC transporter signature motif; other site 322159002910 Walker B; other site 322159002911 D-loop; other site 322159002912 H-loop/switch region; other site 322159002913 Arginine repressor [Transcription]; Region: ArgR; COG1438 322159002914 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 322159002915 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 322159002916 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 322159002917 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 322159002918 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 322159002919 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 322159002920 substrate binding pocket [chemical binding]; other site 322159002921 chain length determination region; other site 322159002922 substrate-Mg2+ binding site; other site 322159002923 catalytic residues [active] 322159002924 aspartate-rich region 1; other site 322159002925 active site lid residues [active] 322159002926 aspartate-rich region 2; other site 322159002927 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 322159002928 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 322159002929 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 322159002930 generic binding surface II; other site 322159002931 generic binding surface I; other site 322159002932 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 322159002933 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 322159002934 minor groove reading motif; other site 322159002935 helix-hairpin-helix signature motif; other site 322159002936 substrate binding pocket [chemical binding]; other site 322159002937 active site 322159002938 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 322159002939 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 322159002940 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 322159002941 Homoserine O-succinyltransferase; Region: HTS; pfam04204 322159002942 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 322159002943 proposed active site lysine [active] 322159002944 conserved cys residue [active] 322159002945 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 322159002946 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 322159002947 active site 322159002948 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 322159002949 DHH family; Region: DHH; pfam01368 322159002950 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 322159002951 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 322159002952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159002953 NAD(P) binding site [chemical binding]; other site 322159002954 active site 322159002955 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 322159002956 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 322159002957 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 322159002958 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 322159002959 HflX GTPase family; Region: HflX; cd01878 322159002960 G1 box; other site 322159002961 GTP/Mg2+ binding site [chemical binding]; other site 322159002962 Switch I region; other site 322159002963 G2 box; other site 322159002964 G3 box; other site 322159002965 Switch II region; other site 322159002966 G4 box; other site 322159002967 G5 box; other site 322159002968 Transposase domain (DUF772); Region: DUF772; cl15789 322159002969 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 322159002970 Transposase domain (DUF772); Region: DUF772; cl15789 322159002971 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 322159002972 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 322159002973 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 322159002974 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 322159002975 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 322159002976 substrate binding site [chemical binding]; other site 322159002977 glutamase interaction surface [polypeptide binding]; other site 322159002978 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 322159002979 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 322159002980 catalytic residues [active] 322159002981 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 322159002982 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 322159002983 putative active site [active] 322159002984 oxyanion strand; other site 322159002985 catalytic triad [active] 322159002986 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 322159002987 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 322159002988 putative active site pocket [active] 322159002989 4-fold oligomerization interface [polypeptide binding]; other site 322159002990 metal binding residues [ion binding]; metal-binding site 322159002991 3-fold/trimer interface [polypeptide binding]; other site 322159002992 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 322159002993 histidinol dehydrogenase; Region: hisD; TIGR00069 322159002994 NAD binding site [chemical binding]; other site 322159002995 dimerization interface [polypeptide binding]; other site 322159002996 product binding site; other site 322159002997 substrate binding site [chemical binding]; other site 322159002998 zinc binding site [ion binding]; other site 322159002999 catalytic residues [active] 322159003000 ATP phosphoribosyltransferase; Region: HisG; cl15266 322159003001 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 322159003002 dimer interface [polypeptide binding]; other site 322159003003 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 322159003004 motif 1; other site 322159003005 active site 322159003006 motif 2; other site 322159003007 motif 3; other site 322159003008 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 322159003009 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 322159003010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159003011 homodimer interface [polypeptide binding]; other site 322159003012 catalytic residue [active] 322159003013 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 322159003014 hypothetical protein; Provisional; Region: PRK07329 322159003015 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 322159003016 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 322159003017 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 322159003018 active site 322159003019 motif I; other site 322159003020 motif II; other site 322159003021 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 322159003022 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 322159003023 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 322159003024 active site 322159003025 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 322159003026 active site 2 [active] 322159003027 active site 1 [active] 322159003028 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 322159003029 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 322159003030 FeS/SAM binding site; other site 322159003031 HemN C-terminal domain; Region: HemN_C; pfam06969 322159003032 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 322159003033 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 322159003034 NAD binding site [chemical binding]; other site 322159003035 substrate binding site [chemical binding]; other site 322159003036 homodimer interface [polypeptide binding]; other site 322159003037 active site 322159003038 Cupin domain; Region: Cupin_2; cl09118 322159003039 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 322159003040 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 322159003041 substrate binding site; other site 322159003042 tetramer interface; other site 322159003043 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 322159003044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159003045 Uncharacterized conserved protein [Function unknown]; Region: COG0327 322159003046 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 322159003047 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159003048 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 322159003049 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 322159003050 active site 322159003051 substrate binding site [chemical binding]; other site 322159003052 metal binding site [ion binding]; metal-binding site 322159003053 YbbR-like protein; Region: YbbR; pfam07949 322159003054 YbbR-like protein; Region: YbbR; pfam07949 322159003055 TIGR00159 family protein; Region: TIGR00159 322159003056 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 322159003057 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 322159003058 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 322159003059 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 322159003060 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 322159003061 catalytic triad [active] 322159003062 Predicted integral membrane protein [Function unknown]; Region: COG0392 322159003063 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 322159003064 Uncharacterized conserved protein [Function unknown]; Region: COG2898 322159003065 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 322159003066 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 322159003067 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 322159003068 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 322159003069 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159003070 Q-loop/lid; other site 322159003071 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 322159003072 ABC transporter signature motif; other site 322159003073 Walker B; other site 322159003074 D-loop; other site 322159003075 ABC transporter; Region: ABC_tran_2; pfam12848 322159003076 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 322159003077 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 322159003078 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 322159003079 Sugar specificity; other site 322159003080 Pyrimidine base specificity; other site 322159003081 ATP-binding site [chemical binding]; other site 322159003082 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159003083 DEAD-like helicases superfamily; Region: DEXDc; smart00487 322159003084 ATP binding site [chemical binding]; other site 322159003085 putative Mg++ binding site [ion binding]; other site 322159003086 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 322159003087 nucleotide binding region [chemical binding]; other site 322159003088 ATP-binding site [chemical binding]; other site 322159003089 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 322159003090 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 322159003091 tetrameric interface [polypeptide binding]; other site 322159003092 activator binding site; other site 322159003093 NADP binding site [chemical binding]; other site 322159003094 substrate binding site [chemical binding]; other site 322159003095 catalytic residues [active] 322159003096 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 322159003097 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 322159003098 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 322159003099 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 322159003100 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 322159003101 dimerization domain swap beta strand [polypeptide binding]; other site 322159003102 regulatory protein interface [polypeptide binding]; other site 322159003103 active site 322159003104 regulatory phosphorylation site [posttranslational modification]; other site 322159003105 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 322159003106 isocitrate dehydrogenase; Validated; Region: PRK06451 322159003107 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 322159003108 dimer interface [polypeptide binding]; other site 322159003109 Citrate synthase; Region: Citrate_synt; pfam00285 322159003110 active site 322159003111 citrylCoA binding site [chemical binding]; other site 322159003112 oxalacetate/citrate binding site [chemical binding]; other site 322159003113 coenzyme A binding site [chemical binding]; other site 322159003114 catalytic triad [active] 322159003115 aconitate hydratase; Validated; Region: PRK09277 322159003116 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 322159003117 substrate binding site [chemical binding]; other site 322159003118 ligand binding site [chemical binding]; other site 322159003119 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 322159003120 substrate binding site [chemical binding]; other site 322159003121 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 322159003122 catalytic residues [active] 322159003123 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 322159003124 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 322159003125 Class I ribonucleotide reductase; Region: RNR_I; cd01679 322159003126 active site 322159003127 dimer interface [polypeptide binding]; other site 322159003128 catalytic residues [active] 322159003129 effector binding site; other site 322159003130 R2 peptide binding site; other site 322159003131 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 322159003132 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 322159003133 dimer interface [polypeptide binding]; other site 322159003134 putative radical transfer pathway; other site 322159003135 diiron center [ion binding]; other site 322159003136 tyrosyl radical; other site 322159003137 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 322159003138 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_1; cd08352 322159003139 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 322159003140 putative metal binding site [ion binding]; other site 322159003141 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the...; Region: Sortase_A_1; cd06165 322159003142 active site 322159003143 catalytic site [active] 322159003144 DNA gyrase subunit A; Validated; Region: PRK05560 322159003145 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 322159003146 CAP-like domain; other site 322159003147 active site 322159003148 primary dimer interface [polypeptide binding]; other site 322159003149 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 322159003150 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 322159003151 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 322159003152 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 322159003153 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 322159003154 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 322159003155 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 322159003156 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 322159003157 tetramer (dimer of dimers) interface [polypeptide binding]; other site 322159003158 NAD binding site [chemical binding]; other site 322159003159 dimer interface [polypeptide binding]; other site 322159003160 substrate binding site [chemical binding]; other site 322159003161 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 322159003162 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 322159003163 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 322159003164 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 322159003165 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 322159003166 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 322159003167 ABC transporter; Region: ABC_tran_2; pfam12848 322159003168 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 322159003169 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 322159003170 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 322159003171 DNA-binding site [nucleotide binding]; DNA binding site 322159003172 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 322159003173 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159003174 homodimer interface [polypeptide binding]; other site 322159003175 catalytic residue [active] 322159003176 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 322159003177 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 322159003178 putative tRNA-binding site [nucleotide binding]; other site 322159003179 B3/4 domain; Region: B3_4; cl11458 322159003180 tRNA synthetase B5 domain; Region: B5; cl08394 322159003181 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 322159003182 dimer interface [polypeptide binding]; other site 322159003183 motif 1; other site 322159003184 motif 3; other site 322159003185 motif 2; other site 322159003186 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 322159003187 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 322159003188 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 322159003189 Coenzyme A binding pocket [chemical binding]; other site 322159003190 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 322159003191 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 322159003192 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 322159003193 dimer interface [polypeptide binding]; other site 322159003194 motif 1; other site 322159003195 active site 322159003196 motif 2; other site 322159003197 motif 3; other site 322159003198 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 322159003199 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 322159003200 Walker A/P-loop; other site 322159003201 ATP binding site [chemical binding]; other site 322159003202 Q-loop/lid; other site 322159003203 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 322159003204 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 322159003205 dimer interface [polypeptide binding]; other site 322159003206 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 322159003207 ABC transporter signature motif; other site 322159003208 Walker B; other site 322159003209 D-loop; other site 322159003210 H-loop/switch region; other site 322159003211 ribonuclease III; Reviewed; Region: rnc; PRK00102 322159003212 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 322159003213 dimerization interface [polypeptide binding]; other site 322159003214 active site 322159003215 metal binding site [ion binding]; metal-binding site 322159003216 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 322159003217 dsRNA binding site [nucleotide binding]; other site 322159003218 dihydrodipicolinate synthase; Region: dapA; TIGR00674 322159003219 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 322159003220 dimer interface [polypeptide binding]; other site 322159003221 active site 322159003222 catalytic residue [active] 322159003223 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 322159003224 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159003225 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 322159003226 A new structural DNA glycosylase; Region: AlkD_like; cl11434 322159003227 active site 322159003228 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 322159003229 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 322159003230 Coenzyme A binding pocket [chemical binding]; other site 322159003231 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 322159003232 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 322159003233 putative active site [active] 322159003234 catalytic site [active] 322159003235 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 322159003236 putative active site [active] 322159003237 catalytic site [active] 322159003238 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 322159003239 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 322159003240 GIY-YIG motif/motif A; other site 322159003241 active site 322159003242 catalytic site [active] 322159003243 putative DNA binding site [nucleotide binding]; other site 322159003244 metal binding site [ion binding]; metal-binding site 322159003245 UvrB/uvrC motif; Region: UVR; pfam02151 322159003246 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 322159003247 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 322159003248 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 322159003249 active site 322159003250 motif I; other site 322159003251 motif II; other site 322159003252 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 322159003253 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 322159003254 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 322159003255 putative L-serine binding site [chemical binding]; other site 322159003256 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 322159003257 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 322159003258 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 322159003259 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 322159003260 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 322159003261 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 322159003262 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 322159003263 active site 322159003264 phosphorylation site [posttranslational modification] 322159003265 intermolecular recognition site; other site 322159003266 dimerization interface [polypeptide binding]; other site 322159003267 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 322159003268 DNA binding residues [nucleotide binding] 322159003269 dimerization interface [polypeptide binding]; other site 322159003270 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 322159003271 Histidine kinase; Region: HisKA_3; pfam07730 322159003272 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 322159003273 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 322159003274 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 322159003275 Walker A/P-loop; other site 322159003276 ATP binding site [chemical binding]; other site 322159003277 Q-loop/lid; other site 322159003278 ABC transporter signature motif; other site 322159003279 Walker B; other site 322159003280 D-loop; other site 322159003281 H-loop/switch region; other site 322159003282 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159003283 substrate interface [chemical binding]; other site 322159003284 ATP binding site [chemical binding]; other site 322159003285 Oligoendopeptidase F [Amino acid transport and metabolism]; Region: COG1164 322159003286 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 322159003287 Zn binding site [ion binding]; other site 322159003288 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 322159003289 non-specific DNA binding site [nucleotide binding]; other site 322159003290 salt bridge; other site 322159003291 sequence-specific DNA binding site [nucleotide binding]; other site 322159003292 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 322159003293 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 322159003294 nudix motif; other site 322159003295 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 322159003296 putative metal binding residues [ion binding]; other site 322159003297 Flagellin N-methylase; Region: FliB; cl00497 322159003298 FtsX-like permease family; Region: FtsX; cl15850 322159003299 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 322159003300 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 322159003301 Walker A/P-loop; other site 322159003302 ATP binding site [chemical binding]; other site 322159003303 Q-loop/lid; other site 322159003304 ABC transporter signature motif; other site 322159003305 Walker B; other site 322159003306 D-loop; other site 322159003307 H-loop/switch region; other site 322159003308 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 322159003309 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 322159003310 ATP binding site [chemical binding]; other site 322159003311 Mg2+ binding site [ion binding]; other site 322159003312 G-X-G motif; other site 322159003313 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 322159003314 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 322159003315 active site 322159003316 phosphorylation site [posttranslational modification] 322159003317 intermolecular recognition site; other site 322159003318 dimerization interface [polypeptide binding]; other site 322159003319 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 322159003320 DNA binding site [nucleotide binding] 322159003321 multidrug efflux protein; Reviewed; Region: PRK01766 322159003322 MatE; Region: MatE; cl10513 322159003323 MatE; Region: MatE; cl10513 322159003324 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 322159003325 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 322159003326 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 322159003327 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 322159003328 CsbD-like; Region: CsbD; cl15799 322159003329 amino acid transporter; Region: 2A0306; TIGR00909 322159003330 Spore germination protein; Region: Spore_permease; cl15802 322159003331 Spore germination protein; Region: Spore_permease; cl15802 322159003332 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 322159003333 dimer interface [polypeptide binding]; other site 322159003334 FMN binding site [chemical binding]; other site 322159003335 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 322159003336 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 322159003337 putative metal binding site [ion binding]; other site 322159003338 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 322159003339 active site 322159003340 Predicted transcriptional regulator [Transcription]; Region: COG1959 322159003341 Helix-turn-helix domains; Region: HTH; cl00088 322159003342 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 322159003343 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 322159003344 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 322159003345 dimer interface [polypeptide binding]; other site 322159003346 FMN binding site [chemical binding]; other site 322159003347 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 322159003348 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 322159003349 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 322159003350 active site 322159003351 catalytic tetrad [active] 322159003352 Abortive infection C-terminus; Region: Abi_C; pfam14355 322159003353 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 322159003354 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 322159003355 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 322159003356 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 322159003357 ATP binding site [chemical binding]; other site 322159003358 putative Mg++ binding site [ion binding]; other site 322159003359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159003360 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 322159003361 hypothetical protein; Provisional; Region: PRK13663 322159003362 Fibronectin-binding repeat; Region: SSURE; pfam11966 322159003363 DNA polymerase IV; Reviewed; Region: PRK03103 322159003364 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 322159003365 active site 322159003366 DNA binding site [nucleotide binding] 322159003367 LysE type translocator; Region: LysE; cl00565 322159003368 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 322159003369 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 322159003370 active site 322159003371 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 322159003372 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 322159003373 Ligand binding site; other site 322159003374 metal-binding site 322159003375 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 322159003376 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 322159003377 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 322159003378 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 322159003379 Walker A/P-loop; other site 322159003380 ATP binding site [chemical binding]; other site 322159003381 Q-loop/lid; other site 322159003382 ABC transporter signature motif; other site 322159003383 Walker B; other site 322159003384 D-loop; other site 322159003385 H-loop/switch region; other site 322159003386 putative efflux protein, MATE family; Region: matE; TIGR00797 322159003387 KxxxW cyclic peptide radical SAM maturase; Region: rSAM_pep_cyc; TIGR04080 322159003388 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 322159003389 FeS/SAM binding site; other site 322159003390 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 322159003391 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 322159003392 non-specific DNA binding site [nucleotide binding]; other site 322159003393 salt bridge; other site 322159003394 sequence-specific DNA binding site [nucleotide binding]; other site 322159003395 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 322159003396 putative transposase OrfB; Reviewed; Region: PHA02517 322159003397 HTH-like domain; Region: HTH_21; pfam13276 322159003398 Integrase core domain; Region: rve; cl01316 322159003399 Integrase core domain; Region: rve_3; cl15866 322159003400 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 322159003401 Helix-turn-helix domains; Region: HTH; cl00088 322159003402 Helix-turn-helix domains; Region: HTH; cl00088 322159003403 exonuclease SbcC; Region: sbcc; TIGR00618 322159003404 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 322159003405 Walker A/P-loop; other site 322159003406 ATP binding site [chemical binding]; other site 322159003407 Q-loop/lid; other site 322159003408 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 322159003409 ABC transporter signature motif; other site 322159003410 Walker B; other site 322159003411 D-loop; other site 322159003412 H-loop/switch region; other site 322159003413 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 322159003414 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 322159003415 active site 322159003416 metal binding site [ion binding]; metal-binding site 322159003417 DNA binding site [nucleotide binding] 322159003418 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 322159003419 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 322159003420 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 322159003421 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 322159003422 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 322159003423 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 322159003424 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 322159003425 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 322159003426 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 322159003427 HPr interaction site; other site 322159003428 glycerol kinase (GK) interaction site [polypeptide binding]; other site 322159003429 active site 322159003430 phosphorylation site [posttranslational modification] 322159003431 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 322159003432 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 322159003433 active site 322159003434 catalytic residues [active] 322159003435 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 322159003436 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 322159003437 NAD binding site [chemical binding]; other site 322159003438 homodimer interface [polypeptide binding]; other site 322159003439 active site 322159003440 substrate binding site [chemical binding]; other site 322159003441 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 322159003442 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 322159003443 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 322159003444 galactokinase; Provisional; Region: PRK05322 322159003445 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 322159003446 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 322159003447 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 322159003448 DNA-binding transcriptional repressor EbgR; Provisional; Region: PRK10339 322159003449 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 322159003450 DNA binding site [nucleotide binding] 322159003451 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 322159003452 putative dimerization interface [polypeptide binding]; other site 322159003453 putative ligand binding site [chemical binding]; other site 322159003454 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 322159003455 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 322159003456 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 322159003457 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 322159003458 ATP-grasp domain; Region: ATP-grasp_4; cl03087 322159003459 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 322159003460 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159003461 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 322159003462 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 322159003463 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 322159003464 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 322159003465 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 322159003466 RimM N-terminal domain; Region: RimM; pfam01782 322159003467 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 322159003468 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 322159003469 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 322159003470 active site 322159003471 phosphorylation site [posttranslational modification] 322159003472 intermolecular recognition site; other site 322159003473 dimerization interface [polypeptide binding]; other site 322159003474 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 322159003475 DNA binding residues [nucleotide binding] 322159003476 dimerization interface [polypeptide binding]; other site 322159003477 Predicted membrane protein [Function unknown]; Region: COG4758 322159003478 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 322159003479 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 322159003480 Catalytic domain of Protein Kinases; Region: PKc; cd00180 322159003481 active site 322159003482 ATP binding site [chemical binding]; other site 322159003483 substrate binding site [chemical binding]; other site 322159003484 activation loop (A-loop); other site 322159003485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 322159003486 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 322159003487 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 322159003488 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 322159003489 active site 322159003490 16S rRNA methyltransferase B; Provisional; Region: PRK14902 322159003491 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 322159003492 putative RNA binding site [nucleotide binding]; other site 322159003493 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 322159003494 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 322159003495 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 322159003496 putative active site [active] 322159003497 substrate binding site [chemical binding]; other site 322159003498 putative cosubstrate binding site; other site 322159003499 catalytic site [active] 322159003500 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 322159003501 substrate binding site [chemical binding]; other site 322159003502 primosome assembly protein PriA; Validated; Region: PRK05580 322159003503 primosome assembly protein PriA; Validated; Region: PRK05580 322159003504 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 322159003505 ATP binding site [chemical binding]; other site 322159003506 putative Mg++ binding site [ion binding]; other site 322159003507 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 322159003508 nucleotide binding region [chemical binding]; other site 322159003509 ATP-binding site [chemical binding]; other site 322159003510 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 322159003511 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 322159003512 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 322159003513 catalytic site [active] 322159003514 G-X2-G-X-G-K; other site 322159003515 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 322159003516 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 322159003517 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 322159003518 P loop; other site 322159003519 GTP binding site [chemical binding]; other site 322159003520 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 322159003521 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 322159003522 active site 322159003523 motif I; other site 322159003524 motif II; other site 322159003525 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 322159003526 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 322159003527 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 322159003528 active site 322159003529 motif I; other site 322159003530 motif II; other site 322159003531 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 322159003532 Predicted transcriptional regulators [Transcription]; Region: COG1725 322159003533 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 322159003534 DNA-binding site [nucleotide binding]; DNA binding site 322159003535 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 322159003536 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 322159003537 Walker A/P-loop; other site 322159003538 ATP binding site [chemical binding]; other site 322159003539 Q-loop/lid; other site 322159003540 ABC transporter signature motif; other site 322159003541 Walker B; other site 322159003542 D-loop; other site 322159003543 H-loop/switch region; other site 322159003544 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 322159003545 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 322159003546 Walker A/P-loop; other site 322159003547 ATP binding site [chemical binding]; other site 322159003548 Q-loop/lid; other site 322159003549 ABC transporter signature motif; other site 322159003550 Walker B; other site 322159003551 D-loop; other site 322159003552 H-loop/switch region; other site 322159003553 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 322159003554 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 322159003555 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 322159003556 Walker A/P-loop; other site 322159003557 ATP binding site [chemical binding]; other site 322159003558 Q-loop/lid; other site 322159003559 ABC transporter signature motif; other site 322159003560 Walker B; other site 322159003561 D-loop; other site 322159003562 H-loop/switch region; other site 322159003563 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 322159003564 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 322159003565 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 322159003566 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 322159003567 dimer interface [polypeptide binding]; other site 322159003568 conserved gate region; other site 322159003569 putative PBP binding loops; other site 322159003570 ABC-ATPase subunit interface; other site 322159003571 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 322159003572 dimer interface [polypeptide binding]; other site 322159003573 conserved gate region; other site 322159003574 putative PBP binding loops; other site 322159003575 ABC-ATPase subunit interface; other site 322159003576 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 322159003577 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 322159003578 peptide binding site [polypeptide binding]; other site 322159003579 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159003580 Helix-turn-helix domains; Region: HTH; cl00088 322159003581 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159003582 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 322159003583 peptide binding site [polypeptide binding]; other site 322159003584 Helix-turn-helix domains; Region: HTH; cl00088 322159003585 putative transposase OrfB; Reviewed; Region: PHA02517 322159003586 HTH-like domain; Region: HTH_21; pfam13276 322159003587 Integrase core domain; Region: rve; cl01316 322159003588 Integrase core domain; Region: rve_3; cl15866 322159003589 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 322159003590 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 322159003591 putative substrate translocation pore; other site 322159003592 Integrase core domain; Region: rve; cl01316 322159003593 Integrase core domain; Region: rve_3; cl15866 322159003594 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 322159003595 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 322159003596 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 322159003597 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 322159003598 active site 322159003599 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 322159003600 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 322159003601 synthetase active site [active] 322159003602 NTP binding site [chemical binding]; other site 322159003603 metal binding site [ion binding]; metal-binding site 322159003604 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 322159003605 putative active site [active] 322159003606 putative metal binding residues [ion binding]; other site 322159003607 signature motif; other site 322159003608 putative triphosphate binding site [ion binding]; other site 322159003609 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 322159003610 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 322159003611 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 322159003612 active site 322159003613 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 322159003614 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 322159003615 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 322159003616 catalytic residue [active] 322159003617 Putative amino acid metabolism; Region: DUF1831; pfam08866 322159003618 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 322159003619 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 322159003620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159003621 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 322159003622 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 322159003623 catalytic triad [active] 322159003624 hypothetical protein; Reviewed; Region: PRK00024 322159003625 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 322159003626 MPN+ (JAMM) motif; other site 322159003627 Zinc-binding site [ion binding]; other site 322159003628 Predicted membrane protein [Function unknown]; Region: COG4713 322159003629 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 322159003630 Rhamnan synthesis protein F; Region: RgpF; cl01529 322159003631 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 322159003632 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 322159003633 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 322159003634 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 322159003635 Walker A/P-loop; other site 322159003636 ATP binding site [chemical binding]; other site 322159003637 Q-loop/lid; other site 322159003638 ABC transporter signature motif; other site 322159003639 Walker B; other site 322159003640 D-loop; other site 322159003641 H-loop/switch region; other site 322159003642 ABC-2 type transporter; Region: ABC2_membrane; cl11417 322159003643 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 322159003644 Probable Catalytic site; other site 322159003645 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 322159003646 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 322159003647 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 322159003648 active site 322159003649 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 322159003650 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 322159003651 Ligand binding site; other site 322159003652 Putative Catalytic site; other site 322159003653 DXD motif; other site 322159003654 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 322159003655 active site 322159003656 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 322159003657 active site 322159003658 MatE; Region: MatE; cl10513 322159003659 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 322159003660 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 322159003661 NADP binding site [chemical binding]; other site 322159003662 active site 322159003663 putative substrate binding site [chemical binding]; other site 322159003664 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 322159003665 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 322159003666 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 322159003667 Ligand binding site; other site 322159003668 Putative Catalytic site; other site 322159003669 DXD motif; other site 322159003670 Domain of unknown function DUF59; Region: DUF59; cl00941 322159003671 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 322159003672 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 322159003673 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 322159003674 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 322159003675 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 322159003676 DNA binding residues [nucleotide binding] 322159003677 DNA primase; Validated; Region: dnaG; PRK05667 322159003678 CHC2 zinc finger; Region: zf-CHC2; cl15369 322159003679 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 322159003680 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 322159003681 active site 322159003682 metal binding site [ion binding]; metal-binding site 322159003683 interdomain interaction site; other site 322159003684 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 322159003685 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 322159003686 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 322159003687 substrate binding pocket [chemical binding]; other site 322159003688 membrane-bound complex binding site; other site 322159003689 hinge residues; other site 322159003690 transaminase; Validated; Region: PRK07324 322159003691 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 322159003692 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159003693 homodimer interface [polypeptide binding]; other site 322159003694 catalytic residue [active] 322159003695 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 322159003696 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 322159003697 substrate binding pocket [chemical binding]; other site 322159003698 membrane-bound complex binding site; other site 322159003699 hinge residues; other site 322159003700 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 322159003701 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 322159003702 substrate binding pocket [chemical binding]; other site 322159003703 membrane-bound complex binding site; other site 322159003704 hinge residues; other site 322159003705 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 322159003706 putative active site [active] 322159003707 nucleotide binding site [chemical binding]; other site 322159003708 nudix motif; other site 322159003709 putative metal binding site [ion binding]; other site 322159003710 excinuclease ABC subunit B; Provisional; Region: PRK05298 322159003711 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 322159003712 ATP binding site [chemical binding]; other site 322159003713 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 322159003714 nucleotide binding region [chemical binding]; other site 322159003715 ATP-binding site [chemical binding]; other site 322159003716 Ultra-violet resistance protein B; Region: UvrB; pfam12344 322159003717 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 322159003718 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 322159003719 substrate binding pocket [chemical binding]; other site 322159003720 membrane-bound complex binding site; other site 322159003721 hinge residues; other site 322159003722 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 322159003723 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 322159003724 substrate binding pocket [chemical binding]; other site 322159003725 membrane-bound complex binding site; other site 322159003726 hinge residues; other site 322159003727 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 322159003728 dimer interface [polypeptide binding]; other site 322159003729 conserved gate region; other site 322159003730 putative PBP binding loops; other site 322159003731 ABC-ATPase subunit interface; other site 322159003732 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 322159003733 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 322159003734 Walker A/P-loop; other site 322159003735 ATP binding site [chemical binding]; other site 322159003736 Q-loop/lid; other site 322159003737 ABC transporter signature motif; other site 322159003738 Walker B; other site 322159003739 D-loop; other site 322159003740 H-loop/switch region; other site 322159003741 GTPase CgtA; Reviewed; Region: obgE; PRK12297 322159003742 GTP1/OBG; Region: GTP1_OBG; pfam01018 322159003743 Obg GTPase; Region: Obg; cd01898 322159003744 G1 box; other site 322159003745 GTP/Mg2+ binding site [chemical binding]; other site 322159003746 Switch I region; other site 322159003747 G2 box; other site 322159003748 G3 box; other site 322159003749 Switch II region; other site 322159003750 G4 box; other site 322159003751 G5 box; other site 322159003752 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 322159003753 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 322159003754 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 322159003755 RNA binding surface [nucleotide binding]; other site 322159003756 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 322159003757 active site 322159003758 uracil binding [chemical binding]; other site 322159003759 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 322159003760 CoenzymeA binding site [chemical binding]; other site 322159003761 subunit interaction site [polypeptide binding]; other site 322159003762 PHB binding site; other site 322159003763 OsmC-like protein; Region: OsmC; cl00767 322159003764 EamA-like transporter family; Region: EamA; cl01037 322159003765 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 322159003766 EamA-like transporter family; Region: EamA; cl01037 322159003767 CRISPR/Cas system-associated protein Csn2; Region: Csn2; cd09758 322159003768 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09638 322159003769 CRISPR/Cas system-associated protein Cas1; Region: Cas1_II; cd09720 322159003770 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 322159003771 CRISPR/Cas system-associated protein Cas9; Region: Csn1; cd09643 322159003772 phosphoserine phosphatase SerB; Region: serB; TIGR00338 322159003773 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 322159003774 motif II; other site 322159003775 septation ring formation regulator EzrA; Provisional; Region: PRK04778 322159003776 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 322159003777 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 322159003778 Mg2+ binding site [ion binding]; other site 322159003779 G-X-G motif; other site 322159003780 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 322159003781 anchoring element; other site 322159003782 dimer interface [polypeptide binding]; other site 322159003783 ATP binding site [chemical binding]; other site 322159003784 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 322159003785 active site 322159003786 putative metal-binding site [ion binding]; other site 322159003787 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 322159003788 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 322159003789 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 322159003790 motif II; other site 322159003791 LrgB-like family; Region: LrgB; cl00596 322159003792 LrgA family; Region: LrgA; cl00608 322159003793 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 322159003794 ArsC family; Region: ArsC; pfam03960 322159003795 putative ArsC-like catalytic residues; other site 322159003796 putative TRX-like catalytic residues [active] 322159003797 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 322159003798 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159003799 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 322159003800 L-serine binding site [chemical binding]; other site 322159003801 ACT domain interface; other site 322159003802 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 322159003803 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 322159003804 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 322159003805 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 322159003806 catalytic residue [active] 322159003807 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 322159003808 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 322159003809 dimer interface [polypeptide binding]; other site 322159003810 active site 322159003811 metal binding site [ion binding]; metal-binding site 322159003812 glutathione binding site [chemical binding]; other site 322159003813 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 322159003814 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 322159003815 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 322159003816 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 322159003817 dimer interface [polypeptide binding]; other site 322159003818 conserved gate region; other site 322159003819 putative PBP binding loops; other site 322159003820 ABC-ATPase subunit interface; other site 322159003821 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 322159003822 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 322159003823 dimer interface [polypeptide binding]; other site 322159003824 conserved gate region; other site 322159003825 putative PBP binding loops; other site 322159003826 ABC-ATPase subunit interface; other site 322159003827 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 322159003828 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 322159003829 Walker A/P-loop; other site 322159003830 ATP binding site [chemical binding]; other site 322159003831 Q-loop/lid; other site 322159003832 ABC transporter signature motif; other site 322159003833 Walker B; other site 322159003834 D-loop; other site 322159003835 H-loop/switch region; other site 322159003836 TOBE domain; Region: TOBE_2; cl01440 322159003837 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 322159003838 FAD binding domain; Region: FAD_binding_4; pfam01565 322159003839 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 322159003840 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 322159003841 catalytic center binding site [active] 322159003842 ATP binding site [chemical binding]; other site 322159003843 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 322159003844 homooctamer interface [polypeptide binding]; other site 322159003845 active site 322159003846 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 322159003847 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 322159003848 active site 322159003849 Na/Ca binding site [ion binding]; other site 322159003850 catalytic site [active] 322159003851 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 322159003852 Amino acid permease; Region: AA_permease_2; pfam13520 322159003853 K+ potassium transporter; Region: K_trans; cl15781 322159003854 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 322159003855 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 322159003856 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 322159003857 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 322159003858 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 322159003859 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 322159003860 tellurite resistance protein TehB; Provisional; Region: PRK12335 322159003861 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 322159003862 S-adenosylmethionine binding site [chemical binding]; other site 322159003863 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 322159003864 active site 322159003865 DNA binding site [nucleotide binding] 322159003866 putative phosphate binding site [ion binding]; other site 322159003867 putative catalytic site [active] 322159003868 metal binding site A [ion binding]; metal-binding site 322159003869 AP binding site [nucleotide binding]; other site 322159003870 metal binding site B [ion binding]; metal-binding site 322159003871 QueT transporter; Region: QueT; cl01932 322159003872 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 322159003873 Transposase domain (DUF772); Region: DUF772; cl15789 322159003874 putative lipid kinase; Reviewed; Region: PRK13055 322159003875 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 322159003876 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 322159003877 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 322159003878 nucleotide binding pocket [chemical binding]; other site 322159003879 K-X-D-G motif; other site 322159003880 catalytic site [active] 322159003881 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 322159003882 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 322159003883 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 322159003884 Dimer interface [polypeptide binding]; other site 322159003885 BRCT sequence motif; other site 322159003886 QueT transporter; Region: QueT; cl01932 322159003887 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 322159003888 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 322159003889 active site 322159003890 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 322159003891 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 322159003892 DNA-binding site [nucleotide binding]; DNA binding site 322159003893 DRTGG domain; Region: DRTGG; cl12147 322159003894 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 322159003895 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 322159003896 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 322159003897 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 322159003898 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 322159003899 hinge; other site 322159003900 active site 322159003901 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 322159003902 Competence protein; Region: Competence; cl00471 322159003903 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 322159003904 SLBB domain; Region: SLBB; pfam10531 322159003905 comEA protein; Region: comE; TIGR01259 322159003906 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 322159003907 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 322159003908 putative acyl-acceptor binding pocket; other site 322159003909 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 322159003910 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 322159003911 S-adenosylmethionine binding site [chemical binding]; other site 322159003912 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 322159003913 GIY-YIG motif/motif A; other site 322159003914 putative active site [active] 322159003915 putative metal binding site [ion binding]; other site 322159003916 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 322159003917 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 322159003918 ATP binding site [chemical binding]; other site 322159003919 Mg++ binding site [ion binding]; other site 322159003920 motif III; other site 322159003921 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 322159003922 nucleotide binding region [chemical binding]; other site 322159003923 ATP-binding site [chemical binding]; other site 322159003924 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 322159003925 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 322159003926 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 322159003927 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 322159003928 non-specific DNA binding site [nucleotide binding]; other site 322159003929 salt bridge; other site 322159003930 sequence-specific DNA binding site [nucleotide binding]; other site 322159003931 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 322159003932 H+ Antiporter protein; Region: 2A0121; TIGR00900 322159003933 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 322159003934 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 322159003935 G1 box; other site 322159003936 putative GEF interaction site [polypeptide binding]; other site 322159003937 GTP/Mg2+ binding site [chemical binding]; other site 322159003938 Switch I region; other site 322159003939 G2 box; other site 322159003940 G3 box; other site 322159003941 Switch II region; other site 322159003942 G4 box; other site 322159003943 G5 box; other site 322159003944 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 322159003945 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; cl02331 322159003946 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 322159003947 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 322159003948 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 322159003949 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 322159003950 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 322159003951 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 322159003952 substrate binding pocket [chemical binding]; other site 322159003953 membrane-bound complex binding site; other site 322159003954 hinge residues; other site 322159003955 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 322159003956 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 322159003957 Walker A/P-loop; other site 322159003958 ATP binding site [chemical binding]; other site 322159003959 Q-loop/lid; other site 322159003960 ABC transporter signature motif; other site 322159003961 Walker B; other site 322159003962 D-loop; other site 322159003963 H-loop/switch region; other site 322159003964 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 322159003965 dimer interface [polypeptide binding]; other site 322159003966 conserved gate region; other site 322159003967 putative PBP binding loops; other site 322159003968 ABC-ATPase subunit interface; other site 322159003969 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 322159003970 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 322159003971 dimer interface [polypeptide binding]; other site 322159003972 conserved gate region; other site 322159003973 putative PBP binding loops; other site 322159003974 ABC-ATPase subunit interface; other site 322159003975 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159003976 Helix-turn-helix domains; Region: HTH; cl00088 322159003977 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159003978 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 322159003979 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 322159003980 ATP-grasp domain; Region: ATP-grasp_4; cl03087 322159003981 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 322159003982 metal-binding site [ion binding] 322159003983 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 322159003984 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 322159003985 metal-binding site [ion binding] 322159003986 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 322159003987 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 322159003988 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 322159003989 Helix-turn-helix domains; Region: HTH; cl00088 322159003990 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 322159003991 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 322159003992 substrate binding site [chemical binding]; other site 322159003993 active site 322159003994 catalytic residues [active] 322159003995 heterodimer interface [polypeptide binding]; other site 322159003996 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 322159003997 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 322159003998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159003999 catalytic residue [active] 322159004000 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 322159004001 active site 322159004002 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 322159004003 active site 322159004004 ribulose/triose binding site [chemical binding]; other site 322159004005 phosphate binding site [ion binding]; other site 322159004006 substrate (anthranilate) binding pocket [chemical binding]; other site 322159004007 product (indole) binding pocket [chemical binding]; other site 322159004008 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 322159004009 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 322159004010 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 322159004011 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 322159004012 Glutamine amidotransferase class-I; Region: GATase; pfam00117 322159004013 glutamine binding [chemical binding]; other site 322159004014 catalytic triad [active] 322159004015 anthranilate synthase component I; Provisional; Region: PRK13570 322159004016 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 322159004017 chorismate binding enzyme; Region: Chorismate_bind; cl10555 322159004018 Chorismate mutase type II; Region: CM_2; cl00693 322159004019 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159004020 Helix-turn-helix domains; Region: HTH; cl00088 322159004021 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159004022 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 322159004023 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 322159004024 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 322159004025 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 322159004026 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 322159004027 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 322159004028 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 322159004029 DNA binding residues [nucleotide binding] 322159004030 dimer interface [polypeptide binding]; other site 322159004031 Helix-turn-helix domains; Region: HTH; cl00088 322159004032 phosphodiesterase; Provisional; Region: PRK12704 322159004033 Domain of unknown function DUF59; Region: DUF59; cl00941 322159004034 6-phosphogluconate dehydratase; Region: edd; TIGR01196 322159004035 Dehydratase family; Region: ILVD_EDD; cl00340 322159004036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159004037 HI0933-like protein; Region: HI0933_like; pfam03486 322159004038 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159004039 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 322159004040 S-adenosylmethionine binding site [chemical binding]; other site 322159004041 Phosphotransferase enzyme family; Region: APH; pfam01636 322159004042 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 322159004043 active site 322159004044 ATP binding site [chemical binding]; other site 322159004045 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 322159004046 substrate binding site [chemical binding]; other site 322159004047 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 322159004048 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 322159004049 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 322159004050 Walker A/P-loop; other site 322159004051 ATP binding site [chemical binding]; other site 322159004052 Q-loop/lid; other site 322159004053 ABC transporter signature motif; other site 322159004054 Walker B; other site 322159004055 D-loop; other site 322159004056 H-loop/switch region; other site 322159004057 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 322159004058 HIT family signature motif; other site 322159004059 catalytic residue [active] 322159004060 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 322159004061 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 322159004062 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 322159004063 Walker A motif; other site 322159004064 ATP binding site [chemical binding]; other site 322159004065 Walker B motif; other site 322159004066 arginine finger; other site 322159004067 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 322159004068 Walker A motif; other site 322159004069 ATP binding site [chemical binding]; other site 322159004070 Walker B motif; other site 322159004071 arginine finger; other site 322159004072 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 322159004073 hypothetical protein; Provisional; Region: PRK13670 322159004074 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 322159004075 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 322159004076 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 322159004077 S-adenosylmethionine binding site [chemical binding]; other site 322159004078 Oligomerisation domain; Region: Oligomerisation; cl00519 322159004079 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 322159004080 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 322159004081 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 322159004082 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 322159004083 active site 322159004084 (T/H)XGH motif; other site 322159004085 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 322159004086 GTPase YqeH; Provisional; Region: PRK13796 322159004087 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 322159004088 GTP/Mg2+ binding site [chemical binding]; other site 322159004089 G4 box; other site 322159004090 G5 box; other site 322159004091 G1 box; other site 322159004092 Switch I region; other site 322159004093 G2 box; other site 322159004094 G3 box; other site 322159004095 Switch II region; other site 322159004096 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 322159004097 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 322159004098 active site 322159004099 motif I; other site 322159004100 motif II; other site 322159004101 EamA-like transporter family; Region: EamA; cl01037 322159004102 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 322159004103 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 322159004104 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 322159004105 GatB domain; Region: GatB_Yqey; cl11497 322159004106 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 322159004107 Amidase; Region: Amidase; cl11426 322159004108 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 322159004109 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 322159004110 NMT1-like family; Region: NMT1_2; cl15260 322159004111 Isochorismatase family; Region: Isochorismatase; pfam00857 322159004112 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 322159004113 catalytic triad [active] 322159004114 conserved cis-peptide bond; other site 322159004115 transcriptional repressor CodY; Validated; Region: PRK04158 322159004116 CodY GAF-like domain; Region: CodY; pfam06018 322159004117 Helix-turn-helix domains; Region: HTH; cl00088 322159004118 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 322159004119 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 322159004120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159004121 homodimer interface [polypeptide binding]; other site 322159004122 catalytic residue [active] 322159004123 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 322159004124 Ligand Binding Site [chemical binding]; other site 322159004125 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 322159004126 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 322159004127 FeS/SAM binding site; other site 322159004128 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 322159004129 Domain of unknown function DUF21; Region: DUF21; pfam01595 322159004130 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 322159004131 Transporter associated domain; Region: CorC_HlyC; cl08393 322159004132 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 322159004133 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159004134 Walker A/P-loop; other site 322159004135 ATP binding site [chemical binding]; other site 322159004136 Q-loop/lid; other site 322159004137 ABC transporter signature motif; other site 322159004138 Walker B; other site 322159004139 D-loop; other site 322159004140 H-loop/switch region; other site 322159004141 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 322159004142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159004143 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 322159004144 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 322159004145 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 322159004146 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 322159004147 protein binding site [polypeptide binding]; other site 322159004148 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 322159004149 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 322159004150 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 322159004151 active site 322159004152 (T/H)XGH motif; other site 322159004153 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 322159004154 S-adenosylmethionine binding site [chemical binding]; other site 322159004155 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 322159004156 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159004157 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 322159004158 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 322159004159 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 322159004160 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 322159004161 Walker A/P-loop; other site 322159004162 ATP binding site [chemical binding]; other site 322159004163 Q-loop/lid; other site 322159004164 ABC transporter signature motif; other site 322159004165 Walker B; other site 322159004166 D-loop; other site 322159004167 H-loop/switch region; other site 322159004168 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 322159004169 dimer interface [polypeptide binding]; other site 322159004170 conserved gate region; other site 322159004171 putative PBP binding loops; other site 322159004172 ABC-ATPase subunit interface; other site 322159004173 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 322159004174 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 322159004175 substrate binding pocket [chemical binding]; other site 322159004176 membrane-bound complex binding site; other site 322159004177 hinge residues; other site 322159004178 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 322159004179 active site 322159004180 DNA polymerase IV; Validated; Region: PRK02406 322159004181 DNA binding site [nucleotide binding] 322159004182 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 322159004183 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 322159004184 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 322159004185 active site 322159004186 zinc binding site [ion binding]; other site 322159004187 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 322159004188 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 322159004189 Coenzyme A binding pocket [chemical binding]; other site 322159004190 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 322159004191 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 322159004192 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 322159004193 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 322159004194 Walker A/P-loop; other site 322159004195 ATP binding site [chemical binding]; other site 322159004196 Q-loop/lid; other site 322159004197 ABC transporter signature motif; other site 322159004198 Walker B; other site 322159004199 D-loop; other site 322159004200 H-loop/switch region; other site 322159004201 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 322159004202 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 322159004203 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 322159004204 amphipathic channel; other site 322159004205 Asn-Pro-Ala signature motifs; other site 322159004206 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 322159004207 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; cl07696 322159004208 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 322159004209 Enterocin A Immunity; Region: EntA_Immun; pfam08951 322159004210 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 322159004211 catalytic residues [active] 322159004212 Bacteriocin class II with double-glycine leader peptide; Region: Bacteriocin_IIc; pfam10439 322159004213 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 322159004214 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 322159004215 active site 322159004216 phosphorylation site [posttranslational modification] 322159004217 intermolecular recognition site; other site 322159004218 dimerization interface [polypeptide binding]; other site 322159004219 LytTr DNA-binding domain; Region: LytTR; cl04498 322159004220 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 322159004221 COMC family; Region: ComC; pfam03047 322159004222 bacteriocin secretion accessory protein; Region: bacteriocin_acc; TIGR01000 322159004223 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 322159004224 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 322159004225 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 322159004226 putative active site [active] 322159004227 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 322159004228 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159004229 Walker A/P-loop; other site 322159004230 ATP binding site [chemical binding]; other site 322159004231 Q-loop/lid; other site 322159004232 ABC transporter signature motif; other site 322159004233 Walker B; other site 322159004234 D-loop; other site 322159004235 H-loop/switch region; other site 322159004236 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 322159004237 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 322159004238 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 322159004239 Walker A/P-loop; other site 322159004240 ATP binding site [chemical binding]; other site 322159004241 Q-loop/lid; other site 322159004242 ABC transporter signature motif; other site 322159004243 Walker B; other site 322159004244 D-loop; other site 322159004245 H-loop/switch region; other site 322159004246 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 322159004247 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 322159004248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159004249 Walker A/P-loop; other site 322159004250 ATP binding site [chemical binding]; other site 322159004251 Q-loop/lid; other site 322159004252 ABC transporter signature motif; other site 322159004253 Walker B; other site 322159004254 D-loop; other site 322159004255 H-loop/switch region; other site 322159004256 VanZ like family; Region: VanZ; cl01971 322159004257 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 322159004258 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 322159004259 FeS/SAM binding site; other site 322159004260 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 322159004261 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 322159004262 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 322159004263 active site 322159004264 metal binding site [ion binding]; metal-binding site 322159004265 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 322159004266 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 322159004267 DEAD-like helicases superfamily; Region: DEXDc; smart00487 322159004268 ATP binding site [chemical binding]; other site 322159004269 Mg++ binding site [ion binding]; other site 322159004270 motif III; other site 322159004271 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 322159004272 nucleotide binding region [chemical binding]; other site 322159004273 ATP-binding site [chemical binding]; other site 322159004274 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 322159004275 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 322159004276 Mg++ binding site [ion binding]; other site 322159004277 putative catalytic motif [active] 322159004278 putative substrate binding site [chemical binding]; other site 322159004279 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 322159004280 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 322159004281 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 322159004282 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 322159004283 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 322159004284 Septum formation initiator; Region: DivIC; cl11433 322159004285 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 322159004286 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159004287 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 322159004288 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 322159004289 putative catalytic cysteine [active] 322159004290 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 322159004291 nucleotide binding site [chemical binding]; other site 322159004292 homotetrameric interface [polypeptide binding]; other site 322159004293 putative phosphate binding site [ion binding]; other site 322159004294 putative allosteric binding site; other site 322159004295 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 322159004296 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 322159004297 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 322159004298 Walker A/P-loop; other site 322159004299 ATP binding site [chemical binding]; other site 322159004300 Q-loop/lid; other site 322159004301 ABC transporter signature motif; other site 322159004302 Walker B; other site 322159004303 D-loop; other site 322159004304 H-loop/switch region; other site 322159004305 Protein of unknown function (DUF554); Region: DUF554; cl00784 322159004306 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 322159004307 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159004308 Family description; Region: UvrD_C_2; cl15862 322159004309 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 322159004310 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 322159004311 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 322159004312 LytTr DNA-binding domain; Region: LytTR; cl04498 322159004313 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 322159004314 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 322159004315 active site 322159004316 motif I; other site 322159004317 motif II; other site 322159004318 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 322159004319 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 322159004320 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 322159004321 active site 322159004322 homodimer interface [polypeptide binding]; other site 322159004323 homotetramer interface [polypeptide binding]; other site 322159004324 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159004325 Helix-turn-helix domains; Region: HTH; cl00088 322159004326 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159004327 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 322159004328 non-specific DNA binding site [nucleotide binding]; other site 322159004329 salt bridge; other site 322159004330 sequence-specific DNA binding site [nucleotide binding]; other site 322159004331 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 322159004332 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 322159004333 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159004334 Walker A/P-loop; other site 322159004335 ATP binding site [chemical binding]; other site 322159004336 Q-loop/lid; other site 322159004337 ABC transporter signature motif; other site 322159004338 Walker B; other site 322159004339 D-loop; other site 322159004340 H-loop/switch region; other site 322159004341 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 322159004342 Abi-like protein; Region: Abi_2; cl01988 322159004343 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 322159004344 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 322159004345 generic binding surface II; other site 322159004346 ssDNA binding site; other site 322159004347 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 322159004348 ATP binding site [chemical binding]; other site 322159004349 putative Mg++ binding site [ion binding]; other site 322159004350 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 322159004351 nucleotide binding region [chemical binding]; other site 322159004352 ATP-binding site [chemical binding]; other site 322159004353 alanine racemase; Reviewed; Region: alr; PRK00053 322159004354 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 322159004355 active site 322159004356 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 322159004357 dimer interface [polypeptide binding]; other site 322159004358 substrate binding site [chemical binding]; other site 322159004359 catalytic residues [active] 322159004360 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 322159004361 NeuB family; Region: NeuB; cl00496 322159004362 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 322159004363 NeuB family; Region: NeuB; cl00496 322159004364 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 322159004365 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 322159004366 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 322159004367 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 322159004368 nucleotide binding region [chemical binding]; other site 322159004369 ATP-binding site [chemical binding]; other site 322159004370 SEC-C motif; Region: SEC-C; pfam02810 322159004371 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 322159004372 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 322159004373 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 322159004374 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 322159004375 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 322159004376 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 322159004377 active site turn [active] 322159004378 phosphorylation site [posttranslational modification] 322159004379 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 322159004380 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 322159004381 HPr interaction site; other site 322159004382 glycerol kinase (GK) interaction site [polypeptide binding]; other site 322159004383 active site 322159004384 phosphorylation site [posttranslational modification] 322159004385 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 322159004386 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 322159004387 substrate binding [chemical binding]; other site 322159004388 active site 322159004389 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 322159004390 Transcriptional regulators [Transcription]; Region: PurR; COG1609 322159004391 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 322159004392 DNA binding site [nucleotide binding] 322159004393 domain linker motif; other site 322159004394 Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs; Region: PBP1_Qymf_like; cd06291 322159004395 dimerization interface [polypeptide binding]; other site 322159004396 ligand binding site [chemical binding]; other site 322159004397 sodium binding site [ion binding]; other site 322159004398 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 322159004399 putative RNA binding site [nucleotide binding]; other site 322159004400 Asp23 family; Region: Asp23; cl00574 322159004401 elongation factor P; Validated; Region: PRK00529 322159004402 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 322159004403 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 322159004404 RNA binding site [nucleotide binding]; other site 322159004405 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 322159004406 RNA binding site [nucleotide binding]; other site 322159004407 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 322159004408 catalytic motif [active] 322159004409 Zn binding site [ion binding]; other site 322159004410 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 322159004411 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 322159004412 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 322159004413 active site 322159004414 Protein of unknown function (DUF3923); Region: DUF3923; pfam13061 322159004415 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 322159004416 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 322159004417 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 322159004418 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 322159004419 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 322159004420 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 322159004421 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 322159004422 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 322159004423 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 322159004424 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 322159004425 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 322159004426 dimer interface [polypeptide binding]; other site 322159004427 ssDNA binding site [nucleotide binding]; other site 322159004428 tetramer (dimer of dimers) interface [polypeptide binding]; other site 322159004429 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 322159004430 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 322159004431 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 322159004432 minor groove reading motif; other site 322159004433 helix-hairpin-helix signature motif; other site 322159004434 substrate binding pocket [chemical binding]; other site 322159004435 active site 322159004436 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 322159004437 DNA binding and oxoG recognition site [nucleotide binding] 322159004438 DNA polymerase I; Provisional; Region: PRK05755 322159004439 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 322159004440 active site 322159004441 metal binding site 1 [ion binding]; metal-binding site 322159004442 putative 5' ssDNA interaction site; other site 322159004443 metal binding site 3; metal-binding site 322159004444 metal binding site 2 [ion binding]; metal-binding site 322159004445 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 322159004446 putative DNA binding site [nucleotide binding]; other site 322159004447 putative metal binding site [ion binding]; other site 322159004448 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 322159004449 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 322159004450 active site 322159004451 DNA binding site [nucleotide binding] 322159004452 catalytic site [active] 322159004453 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 322159004454 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 322159004455 Walker A/P-loop; other site 322159004456 ATP binding site [chemical binding]; other site 322159004457 Q-loop/lid; other site 322159004458 ABC transporter signature motif; other site 322159004459 Walker B; other site 322159004460 D-loop; other site 322159004461 H-loop/switch region; other site 322159004462 Smr domain; Region: Smr; cl02619 322159004463 Colicin V production protein; Region: Colicin_V; cl00567 322159004464 ribonuclease HIII; Provisional; Region: PRK00996 322159004465 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 322159004466 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 322159004467 RNA/DNA hybrid binding site [nucleotide binding]; other site 322159004468 active site 322159004469 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 322159004470 Catalytic site [active] 322159004471 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 322159004472 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 322159004473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159004474 Family description; Region: UvrD_C_2; cl15862 322159004475 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 322159004476 AzlC protein; Region: AzlC; cl00570 322159004477 UGMP family protein; Validated; Region: PRK09604 322159004478 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 322159004479 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 322159004480 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 322159004481 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 322159004482 Coenzyme A binding pocket [chemical binding]; other site 322159004483 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 322159004484 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 322159004485 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 322159004486 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 322159004487 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 322159004488 glutamine synthetase, type I; Region: GlnA; TIGR00653 322159004489 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 322159004490 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 322159004491 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 322159004492 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 322159004493 DNA binding residues [nucleotide binding] 322159004494 putative dimer interface [polypeptide binding]; other site 322159004495 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 322159004496 Phosphoglycerate kinase; Region: PGK; pfam00162 322159004497 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 322159004498 substrate binding site [chemical binding]; other site 322159004499 hinge regions; other site 322159004500 ADP binding site [chemical binding]; other site 322159004501 catalytic site [active] 322159004502 Transposase IS200 like; Region: Y1_Tnp; cl00848 322159004503 Helix-turn-helix domains; Region: HTH; cl00088 322159004504 HTH-like domain; Region: HTH_21; pfam13276 322159004505 Integrase core domain; Region: rve; cl01316 322159004506 Integrase core domain; Region: rve_3; cl15866 322159004507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159004508 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 322159004509 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 322159004510 elongation factor G; Reviewed; Region: PRK00007 322159004511 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 322159004512 G1 box; other site 322159004513 putative GEF interaction site [polypeptide binding]; other site 322159004514 GTP/Mg2+ binding site [chemical binding]; other site 322159004515 Switch I region; other site 322159004516 G2 box; other site 322159004517 G3 box; other site 322159004518 Switch II region; other site 322159004519 G4 box; other site 322159004520 G5 box; other site 322159004521 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 322159004522 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 322159004523 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 322159004524 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 322159004525 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 322159004526 S17 interaction site [polypeptide binding]; other site 322159004527 S8 interaction site; other site 322159004528 16S rRNA interaction site [nucleotide binding]; other site 322159004529 streptomycin interaction site [chemical binding]; other site 322159004530 23S rRNA interaction site [nucleotide binding]; other site 322159004531 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 322159004532 pur operon repressor; Provisional; Region: PRK09213 322159004533 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 322159004534 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 322159004535 active site 322159004536 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 322159004537 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 322159004538 generic binding surface II; other site 322159004539 generic binding surface I; other site 322159004540 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 322159004541 Zn2+ binding site [ion binding]; other site 322159004542 Mg2+ binding site [ion binding]; other site 322159004543 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 322159004544 RmuC family; Region: RmuC; pfam02646 322159004545 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 322159004546 Thiamine pyrophosphokinase; Region: TPK; cd07995 322159004547 active site 322159004548 dimerization interface [polypeptide binding]; other site 322159004549 thiamine binding site [chemical binding]; other site 322159004550 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 322159004551 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 322159004552 substrate binding site [chemical binding]; other site 322159004553 hexamer interface [polypeptide binding]; other site 322159004554 metal binding site [ion binding]; metal-binding site 322159004555 GTPase RsgA; Reviewed; Region: PRK00098 322159004556 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 322159004557 RNA binding site [nucleotide binding]; other site 322159004558 homodimer interface [polypeptide binding]; other site 322159004559 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 322159004560 GTPase/Zn-binding domain interface [polypeptide binding]; other site 322159004561 GTP/Mg2+ binding site [chemical binding]; other site 322159004562 G4 box; other site 322159004563 G1 box; other site 322159004564 Switch I region; other site 322159004565 G2 box; other site 322159004566 G3 box; other site 322159004567 Switch II region; other site 322159004568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159004569 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 322159004570 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 322159004571 putative active site [active] 322159004572 putative metal binding site [ion binding]; other site 322159004573 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 322159004574 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 322159004575 active site 322159004576 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 322159004577 catalytic residues [active] 322159004578 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 322159004579 putative ADP-ribose binding site [chemical binding]; other site 322159004580 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 322159004581 catalytic residues [active] 322159004582 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 322159004583 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 322159004584 Transposase IS200 like; Region: Y1_Tnp; cl00848 322159004585 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 322159004586 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 322159004587 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 322159004588 G-X-X-G motif; other site 322159004589 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 322159004590 RxxxH motif; other site 322159004591 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 322159004592 Ribonuclease P; Region: Ribonuclease_P; cl00457 322159004593 argininosuccinate lyase; Provisional; Region: PRK00855 322159004594 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 322159004595 active sites [active] 322159004596 tetramer interface [polypeptide binding]; other site 322159004597 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 322159004598 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 322159004599 ANP binding site [chemical binding]; other site 322159004600 Substrate Binding Site II [chemical binding]; other site 322159004601 Substrate Binding Site I [chemical binding]; other site 322159004602 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 322159004603 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 322159004604 active site 322159004605 HIGH motif; other site 322159004606 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 322159004607 active site 322159004608 KMSKS motif; other site 322159004609 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 322159004610 mRNA/rRNA interface [nucleotide binding]; other site 322159004611 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 322159004612 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 322159004613 23S rRNA interface [nucleotide binding]; other site 322159004614 L7/L12 interface [polypeptide binding]; other site 322159004615 putative thiostrepton binding site; other site 322159004616 L25 interface [polypeptide binding]; other site 322159004617 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 322159004618 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 322159004619 active site clefts [active] 322159004620 zinc binding site [ion binding]; other site 322159004621 dimer interface [polypeptide binding]; other site 322159004622 DNA repair protein RadA; Provisional; Region: PRK11823 322159004623 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159004624 Walker A motif; other site 322159004625 ATP binding site [chemical binding]; other site 322159004626 Walker B motif; other site 322159004627 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 322159004628 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 322159004629 trimer interface [polypeptide binding]; other site 322159004630 active site 322159004631 Uncharacterized conserved protein [Function unknown]; Region: COG2461 322159004632 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 322159004633 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 322159004634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159004635 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 322159004636 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 322159004637 active site 322159004638 tetramer interface; other site 322159004639 Rhomboid family; Region: Rhomboid; cl11446 322159004640 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 322159004641 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 322159004642 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 322159004643 metal binding site [ion binding]; metal-binding site 322159004644 putative dimer interface [polypeptide binding]; other site 322159004645 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 322159004646 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 322159004647 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 322159004648 trimer interface [polypeptide binding]; other site 322159004649 active site 322159004650 substrate binding site [chemical binding]; other site 322159004651 CoA binding site [chemical binding]; other site 322159004652 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 322159004653 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 322159004654 S-adenosylmethionine binding site [chemical binding]; other site 322159004655 class IIb bacteriocin, lactobin A/cerein 7B family; Region: bact_IIb_cerein; TIGR03949 322159004656 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 322159004657 nucleoside/Zn binding site; other site 322159004658 dimer interface [polypeptide binding]; other site 322159004659 catalytic motif [active] 322159004660 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 322159004661 dimer interface [polypeptide binding]; other site 322159004662 ssDNA binding site [nucleotide binding]; other site 322159004663 tetramer (dimer of dimers) interface [polypeptide binding]; other site 322159004664 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 322159004665 CPxP motif; other site 322159004666 Sulphur transport; Region: Sulf_transp; cl01018 322159004667 putative inner membrane protein; Provisional; Region: PRK11099 322159004668 Sulphur transport; Region: Sulf_transp; cl01018 322159004669 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 322159004670 putative tRNA-binding site [nucleotide binding]; other site 322159004671 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 322159004672 catalytic residues [active] 322159004673 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 322159004674 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 322159004675 oligomer interface [polypeptide binding]; other site 322159004676 active site 322159004677 metal binding site [ion binding]; metal-binding site 322159004678 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 322159004679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159004680 CAAX protease self-immunity; Region: Abi; cl00558 322159004681 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 322159004682 non-specific DNA binding site [nucleotide binding]; other site 322159004683 salt bridge; other site 322159004684 sequence-specific DNA binding site [nucleotide binding]; other site 322159004685 Acetokinase family; Region: Acetate_kinase; cl01029 322159004686 propionate/acetate kinase; Provisional; Region: PRK12379 322159004687 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 322159004688 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159004689 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 322159004690 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 322159004691 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 322159004692 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 322159004693 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159004694 Walker A motif; other site 322159004695 ATP binding site [chemical binding]; other site 322159004696 Walker B motif; other site 322159004697 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 322159004698 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 322159004699 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 322159004700 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 322159004701 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 322159004702 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 322159004703 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 322159004704 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 322159004705 G-loop; other site 322159004706 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 322159004707 DNA binding site [nucleotide binding] 322159004708 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 322159004709 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 322159004710 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 322159004711 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 322159004712 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 322159004713 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 322159004714 RPB1 interaction site [polypeptide binding]; other site 322159004715 RPB10 interaction site [polypeptide binding]; other site 322159004716 RPB11 interaction site [polypeptide binding]; other site 322159004717 RPB3 interaction site [polypeptide binding]; other site 322159004718 RPB12 interaction site [polypeptide binding]; other site 322159004719 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 322159004720 Transglycosylase; Region: Transgly; cl07896 322159004721 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 322159004722 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 322159004723 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 322159004724 active site 322159004725 HIGH motif; other site 322159004726 dimer interface [polypeptide binding]; other site 322159004727 KMSKS motif; other site 322159004728 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 322159004729 RNA binding surface [nucleotide binding]; other site 322159004730 ketol-acid reductoisomerase; Provisional; Region: PRK05479 322159004731 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159004732 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 322159004733 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 322159004734 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 322159004735 putative valine binding site [chemical binding]; other site 322159004736 dimer interface [polypeptide binding]; other site 322159004737 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 322159004738 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 322159004739 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 322159004740 PYR/PP interface [polypeptide binding]; other site 322159004741 dimer interface [polypeptide binding]; other site 322159004742 TPP binding site [chemical binding]; other site 322159004743 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 322159004744 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 322159004745 TPP-binding site [chemical binding]; other site 322159004746 dimer interface [polypeptide binding]; other site 322159004747 Dehydratase family; Region: ILVD_EDD; cl00340 322159004748 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159004749 Helix-turn-helix domains; Region: HTH; cl00088 322159004750 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159004751 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 322159004752 DAK2 domain; Region: Dak2; cl03685 322159004753 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 322159004754 Asp23 family; Region: Asp23; cl00574 322159004755 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 322159004756 MatE; Region: MatE; cl10513 322159004757 MatE; Region: MatE; cl10513 322159004758 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 322159004759 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 322159004760 pyridoxal 5'-phosphate binding site [chemical binding]; other site 322159004761 catalytic residue [active] 322159004762 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 322159004763 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 322159004764 active site 322159004765 Zn binding site [ion binding]; other site 322159004766 Protein of unknown function (DUF436); Region: DUF436; cl01860 322159004767 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 322159004768 Integrase core domain; Region: rve; cl01316 322159004769 EcsC protein family; Region: EcsC; pfam12787 322159004770 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 322159004771 hypothetical protein; Provisional; Region: PRK08185 322159004772 intersubunit interface [polypeptide binding]; other site 322159004773 active site 322159004774 zinc binding site [ion binding]; other site 322159004775 Na+ binding site [ion binding]; other site 322159004776 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 322159004777 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 322159004778 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 322159004779 alphaNTD homodimer interface [polypeptide binding]; other site 322159004780 alphaNTD - beta interaction site [polypeptide binding]; other site 322159004781 alphaNTD - beta' interaction site [polypeptide binding]; other site 322159004782 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 322159004783 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 322159004784 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 322159004785 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 322159004786 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 322159004787 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 322159004788 rRNA binding site [nucleotide binding]; other site 322159004789 predicted 30S ribosome binding site; other site 322159004790 adenylate kinase; Reviewed; Region: adk; PRK00279 322159004791 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 322159004792 AMP-binding site [chemical binding]; other site 322159004793 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 322159004794 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 322159004795 SecY translocase; Region: SecY; pfam00344 322159004796 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 322159004797 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 322159004798 23S rRNA binding site [nucleotide binding]; other site 322159004799 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 322159004800 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 322159004801 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 322159004802 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 322159004803 5S rRNA interface [nucleotide binding]; other site 322159004804 L27 interface [polypeptide binding]; other site 322159004805 23S rRNA interface [nucleotide binding]; other site 322159004806 L5 interface [polypeptide binding]; other site 322159004807 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 322159004808 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 322159004809 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 322159004810 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 322159004811 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 322159004812 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 322159004813 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 322159004814 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 322159004815 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 322159004816 KOW motif; Region: KOW; cl00354 322159004817 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 322159004818 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 322159004819 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 322159004820 23S rRNA interface [nucleotide binding]; other site 322159004821 putative translocon interaction site; other site 322159004822 signal recognition particle (SRP54) interaction site; other site 322159004823 L23 interface [polypeptide binding]; other site 322159004824 trigger factor interaction site; other site 322159004825 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 322159004826 23S rRNA interface [nucleotide binding]; other site 322159004827 5S rRNA interface [nucleotide binding]; other site 322159004828 putative antibiotic binding site [chemical binding]; other site 322159004829 L25 interface [polypeptide binding]; other site 322159004830 L27 interface [polypeptide binding]; other site 322159004831 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 322159004832 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 322159004833 G-X-X-G motif; other site 322159004834 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 322159004835 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 322159004836 putative translocon binding site; other site 322159004837 protein-rRNA interface [nucleotide binding]; other site 322159004838 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 322159004839 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 322159004840 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 322159004841 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 322159004842 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 322159004843 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 322159004844 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 322159004845 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 322159004846 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 322159004847 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 322159004848 Walker A motif; other site 322159004849 ATP binding site [chemical binding]; other site 322159004850 Walker B motif; other site 322159004851 arginine finger; other site 322159004852 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 322159004853 OpgC protein; Region: OpgC_C; cl00792 322159004854 Acyltransferase family; Region: Acyl_transf_3; pfam01757 322159004855 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 322159004856 catalytic triad [active] 322159004857 catalytic triad [active] 322159004858 oxyanion hole [active] 322159004859 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 322159004860 Low molecular weight phosphatase family; Region: LMWPc; cd00115 322159004861 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 322159004862 active site 322159004863 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 322159004864 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 322159004865 GDP-binding site [chemical binding]; other site 322159004866 ACT binding site; other site 322159004867 IMP binding site; other site 322159004868 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159004869 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 322159004870 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 322159004871 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 322159004872 ATP binding site [chemical binding]; other site 322159004873 substrate interface [chemical binding]; other site 322159004874 similar to hypothetical protein; not curated 322159004875 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 322159004876 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 322159004877 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 322159004878 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 322159004879 active site 322159004880 ATP binding site [chemical binding]; other site 322159004881 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 322159004882 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 322159004883 Walker A/P-loop; other site 322159004884 ATP binding site [chemical binding]; other site 322159004885 Q-loop/lid; other site 322159004886 ABC transporter signature motif; other site 322159004887 Walker B; other site 322159004888 D-loop; other site 322159004889 H-loop/switch region; other site 322159004890 Cys-rich peptide radical SAM maturase CcpM; Region: rSAM_ocin_clost; TIGR04068 322159004891 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 322159004892 FeS/SAM binding site; other site 322159004893 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 322159004894 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159004895 Walker A/P-loop; other site 322159004896 ATP binding site [chemical binding]; other site 322159004897 Q-loop/lid; other site 322159004898 ABC transporter signature motif; other site 322159004899 Walker B; other site 322159004900 D-loop; other site 322159004901 H-loop/switch region; other site 322159004902 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 322159004903 non-specific DNA binding site [nucleotide binding]; other site 322159004904 salt bridge; other site 322159004905 sequence-specific DNA binding site [nucleotide binding]; other site 322159004906 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 322159004907 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 322159004908 Int/Topo IB signature motif; other site 322159004909 recombination factor protein RarA; Reviewed; Region: PRK13342 322159004910 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 322159004911 Walker A motif; other site 322159004912 ATP binding site [chemical binding]; other site 322159004913 Walker B motif; other site 322159004914 arginine finger; other site 322159004915 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 322159004916 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 322159004917 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 322159004918 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 322159004919 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 322159004920 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 322159004921 Helix-turn-helix domains; Region: HTH; cl00088 322159004922 Transposase; Region: DDE_Tnp_ISL3; pfam01610 322159004923 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 322159004924 Uncharacterized membrane protein (DUF2298); Region: DUF2298; cl02250 322159004925 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 322159004926 ATP cone domain; Region: ATP-cone; pfam03477 322159004927 Class III ribonucleotide reductase; Region: RNR_III; cd01675 322159004928 effector binding site; other site 322159004929 active site 322159004930 Zn binding site [ion binding]; other site 322159004931 glycine loop; other site 322159004932 Predicted acetyltransferase [General function prediction only]; Region: COG3981 322159004933 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 322159004934 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 322159004935 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 322159004936 FeS/SAM binding site; other site 322159004937 Protein of unknown function (DUF328); Region: DUF328; cl01143 322159004938 Uncharacterized conserved protein [Function unknown]; Region: COG1284 322159004939 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 322159004940 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 322159004941 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 322159004942 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 322159004943 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 322159004944 dimer interface [polypeptide binding]; other site 322159004945 anticodon binding site; other site 322159004946 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 322159004947 homodimer interface [polypeptide binding]; other site 322159004948 motif 1; other site 322159004949 active site 322159004950 motif 2; other site 322159004951 GAD domain; Region: GAD; pfam02938 322159004952 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 322159004953 motif 3; other site 322159004954 HI0933-like protein; Region: HI0933_like; pfam03486 322159004955 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 322159004956 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 322159004957 dimer interface [polypeptide binding]; other site 322159004958 motif 1; other site 322159004959 active site 322159004960 motif 2; other site 322159004961 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 322159004962 anticodon binding site; other site 322159004963 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 322159004964 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 322159004965 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 322159004966 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 322159004967 Asp23 family; Region: Asp23; cl00574 322159004968 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 322159004969 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 322159004970 nudix motif; other site 322159004971 putative active site [active] 322159004972 metal binding site [ion binding]; metal-binding site 322159004973 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 322159004974 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 322159004975 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 322159004976 Predicted membrane protein [Function unknown]; Region: COG1511 322159004977 ABC-2 type transporter; Region: ABC2_membrane; cl11417 322159004978 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 322159004979 Helix-turn-helix domains; Region: HTH; cl00088 322159004980 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 322159004981 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 322159004982 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 322159004983 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 322159004984 RNA binding surface [nucleotide binding]; other site 322159004985 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 322159004986 replicative DNA helicase; Provisional; Region: PRK05748 322159004987 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 322159004988 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 322159004989 Walker A motif; other site 322159004990 ATP binding site [chemical binding]; other site 322159004991 Walker B motif; other site 322159004992 DNA binding loops [nucleotide binding] 322159004993 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 322159004994 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 322159004995 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 322159004996 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 322159004997 DHH family; Region: DHH; pfam01368 322159004998 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 322159004999 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 322159005000 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 322159005001 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 322159005002 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 322159005003 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 322159005004 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 322159005005 putative peptidoglycan binding site; other site 322159005006 Cobalt transport protein; Region: CbiQ; cl00463 322159005007 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 322159005008 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 322159005009 Walker A/P-loop; other site 322159005010 ATP binding site [chemical binding]; other site 322159005011 Q-loop/lid; other site 322159005012 ABC transporter signature motif; other site 322159005013 Walker B; other site 322159005014 D-loop; other site 322159005015 H-loop/switch region; other site 322159005016 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 322159005017 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 322159005018 Walker A/P-loop; other site 322159005019 ATP binding site [chemical binding]; other site 322159005020 Q-loop/lid; other site 322159005021 ABC transporter signature motif; other site 322159005022 Walker B; other site 322159005023 D-loop; other site 322159005024 H-loop/switch region; other site 322159005025 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 322159005026 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 322159005027 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 322159005028 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 322159005029 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 322159005030 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 322159005031 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 322159005032 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 322159005033 recombination protein F; Reviewed; Region: recF; PRK00064 322159005034 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 322159005035 Walker A/P-loop; other site 322159005036 ATP binding site [chemical binding]; other site 322159005037 Q-loop/lid; other site 322159005038 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 322159005039 ABC transporter signature motif; other site 322159005040 Walker B; other site 322159005041 D-loop; other site 322159005042 H-loop/switch region; other site 322159005043 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 322159005044 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 322159005045 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 322159005046 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 322159005047 active site 322159005048 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 322159005049 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 322159005050 active site 322159005051 HIGH motif; other site 322159005052 dimer interface [polypeptide binding]; other site 322159005053 KMSKS motif; other site 322159005054 Uncharacterized conserved protein [Function unknown]; Region: COG1284 322159005055 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 322159005056 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 322159005057 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 322159005058 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 322159005059 Walker A/P-loop; other site 322159005060 ATP binding site [chemical binding]; other site 322159005061 Q-loop/lid; other site 322159005062 ABC transporter signature motif; other site 322159005063 Walker B; other site 322159005064 D-loop; other site 322159005065 H-loop/switch region; other site 322159005066 ABC transporter; Region: ABC_tran_2; pfam12848 322159005067 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 322159005068 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 322159005069 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 322159005070 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 322159005071 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 322159005072 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 322159005073 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 322159005074 protein binding site [polypeptide binding]; other site 322159005075 ParB-like partition proteins; Region: parB_part; TIGR00180 322159005076 ParB-like nuclease domain; Region: ParBc; cl02129