-- dump date 20120504_163047 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1048332000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1048332000002 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 1048332000003 Walker A motif; other site 1048332000004 ATP binding site [chemical binding]; other site 1048332000005 Walker B motif; other site 1048332000006 arginine finger; other site 1048332000007 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 1048332000008 DnaA box-binding interface [nucleotide binding]; other site 1048332000009 DNA polymerase III subunit beta; Validated; Region: PRK05643 1048332000010 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 1048332000011 putative DNA binding surface [nucleotide binding]; other site 1048332000012 dimer interface [polypeptide binding]; other site 1048332000013 beta-clamp/clamp loader binding surface; other site 1048332000014 beta-clamp/translesion DNA polymerase binding surface; other site 1048332000015 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 1048332000016 GTP-binding protein YchF; Reviewed; Region: PRK09601 1048332000017 YchF GTPase; Region: YchF; cd01900 1048332000018 G1 box; other site 1048332000019 GTP/Mg2+ binding site [chemical binding]; other site 1048332000020 Switch I region; other site 1048332000021 G2 box; other site 1048332000022 Switch II region; other site 1048332000023 G3 box; other site 1048332000024 G4 box; other site 1048332000025 G5 box; other site 1048332000026 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 1048332000027 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 1048332000028 putative active site [active] 1048332000029 catalytic residue [active] 1048332000030 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1048332000031 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 1048332000032 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 1048332000033 ATP binding site [chemical binding]; other site 1048332000034 putative Mg++ binding site [ion binding]; other site 1048332000035 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 1048332000036 nucleotide binding region [chemical binding]; other site 1048332000037 ATP-binding site [chemical binding]; other site 1048332000038 TRCF domain; Region: TRCF; cl04088 1048332000039 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 1048332000040 Septum formation initiator; Region: DivIC; cl11433 1048332000041 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 1048332000042 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1048332000043 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1048332000044 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 1048332000045 Ligand Binding Site [chemical binding]; other site 1048332000046 B3/4 domain; Region: B3_4; cl11458 1048332000047 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048332000048 active site 1048332000049 FtsH Extracellular; Region: FtsH_ext; pfam06480 1048332000050 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1048332000051 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 1048332000052 Walker A motif; other site 1048332000053 ATP binding site [chemical binding]; other site 1048332000054 Walker B motif; other site 1048332000055 arginine finger; other site 1048332000056 Peptidase family M41; Region: Peptidase_M41; pfam01434 1048332000057 rod shape-determining protein MreC; Region: MreC; pfam04085 1048332000058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 1048332000059 Septum formation initiator; Region: DivIC; cl11433 1048332000060 NlpC/P60 family; Region: NLPC_P60; cl11438 1048332000061 putative transposase OrfB; Reviewed; Region: PHA02517 1048332000062 HTH-like domain; Region: HTH_21; pfam13276 1048332000063 Integrase core domain; Region: rve; cl01316 1048332000064 Integrase core domain; Region: rve_3; cl15866 1048332000065 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1048332000066 Helix-turn-helix domains; Region: HTH; cl00088 1048332000067 Helix-turn-helix domains; Region: HTH; cl00088 1048332000068 Helix-turn-helix domains; Region: HTH; cl00088 1048332000069 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 1048332000070 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1048332000071 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048332000072 active site 1048332000073 aromatic amino acid aminotransferase; Validated; Region: PRK07309 1048332000074 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 1048332000075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332000076 homodimer interface [polypeptide binding]; other site 1048332000077 catalytic residue [active] 1048332000078 Recombination protein O N terminal; Region: RecO_N; cl15812 1048332000079 DNA repair protein RecO; Region: reco; TIGR00613 1048332000080 Recombination protein O C terminal; Region: RecO_C; pfam02565 1048332000081 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 1048332000082 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1048332000083 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1048332000084 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1048332000085 ATP binding site [chemical binding]; other site 1048332000086 active site 1048332000087 substrate binding site [chemical binding]; other site 1048332000088 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 1048332000089 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 1048332000090 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 1048332000091 dimerization interface [polypeptide binding]; other site 1048332000092 ATP binding site [chemical binding]; other site 1048332000093 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 1048332000094 dimerization interface [polypeptide binding]; other site 1048332000095 ATP binding site [chemical binding]; other site 1048332000096 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1048332000097 putative active site [active] 1048332000098 catalytic triad [active] 1048332000099 amidophosphoribosyltransferase; Provisional; Region: PRK07272 1048332000100 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 1048332000101 active site 1048332000102 tetramer interface [polypeptide binding]; other site 1048332000103 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048332000104 active site 1048332000105 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1048332000106 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 1048332000107 dimerization interface [polypeptide binding]; other site 1048332000108 putative ATP binding site [chemical binding]; other site 1048332000109 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1048332000110 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1048332000111 active site 1048332000112 substrate binding site [chemical binding]; other site 1048332000113 cosubstrate binding site; other site 1048332000114 catalytic site [active] 1048332000115 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1048332000116 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 1048332000117 purine monophosphate binding site [chemical binding]; other site 1048332000118 dimer interface [polypeptide binding]; other site 1048332000119 putative catalytic residues [active] 1048332000120 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1048332000121 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1048332000122 Predicted ATPases [General function prediction only]; Region: COG1106 1048332000123 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1048332000124 active site 1048332000125 ATP binding site [chemical binding]; other site 1048332000126 substrate binding site [chemical binding]; other site 1048332000127 activation loop (A-loop); other site 1048332000128 NlpC/P60 family; Region: NLPC_P60; cl11438 1048332000129 DNA-directed RNA polymerase subunit E'; Provisional; Region: PRK08563 1048332000130 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 1048332000131 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1048332000132 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1048332000133 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1048332000134 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1048332000135 AIR carboxylase; Region: AIRC; cl00310 1048332000136 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1048332000137 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1048332000138 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 1048332000139 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332000140 adenylosuccinate lyase; Provisional; Region: PRK07492 1048332000141 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1048332000142 tetramer interface [polypeptide binding]; other site 1048332000143 active site 1048332000144 class IIb bacteriocin, lactobin A/cerein 7B family; Region: bact_IIb_cerein; TIGR03949 1048332000145 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 1048332000146 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 1048332000147 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1048332000148 active site 1048332000149 HIGH motif; other site 1048332000150 KMSK motif region; other site 1048332000151 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1048332000152 tRNA binding surface [nucleotide binding]; other site 1048332000153 anticodon binding site; other site 1048332000154 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1048332000155 arginine repressor; Region: argR_whole; TIGR01529 1048332000156 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1048332000157 Protein of unknown function (DUF964); Region: DUF964; cl01483 1048332000158 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1048332000159 MutS domain I; Region: MutS_I; pfam01624 1048332000160 MutS domain II; Region: MutS_II; pfam05188 1048332000161 MutS family domain IV; Region: MutS_IV; pfam05190 1048332000162 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 1048332000163 Walker A/P-loop; other site 1048332000164 ATP binding site [chemical binding]; other site 1048332000165 Q-loop/lid; other site 1048332000166 ABC transporter signature motif; other site 1048332000167 Walker B; other site 1048332000168 D-loop; other site 1048332000169 H-loop/switch region; other site 1048332000170 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 1048332000171 LytTr DNA-binding domain; Region: LytTR; cl04498 1048332000172 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1048332000173 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 1048332000174 ATP binding site [chemical binding]; other site 1048332000175 Mg2+ binding site [ion binding]; other site 1048332000176 G-X-G motif; other site 1048332000177 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 1048332000178 ATP binding site [chemical binding]; other site 1048332000179 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 1048332000180 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1048332000181 RuvA N terminal domain; Region: RuvA_N; pfam01330 1048332000182 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1048332000183 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1048332000184 competence damage-inducible protein A; Provisional; Region: PRK00549 1048332000185 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 1048332000186 putative MPT binding site; other site 1048332000187 Competence-damaged protein; Region: CinA; cl00666 1048332000188 recombinase A; Provisional; Region: recA; PRK09354 1048332000189 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 1048332000190 hexamer interface [polypeptide binding]; other site 1048332000191 Walker A motif; other site 1048332000192 ATP binding site [chemical binding]; other site 1048332000193 Walker B motif; other site 1048332000194 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 1048332000195 ArsC family; Region: ArsC; pfam03960 1048332000196 putative catalytic residues [active] 1048332000197 thiol/disulfide switch; other site 1048332000198 DNA polymerase III PolC; Validated; Region: polC; PRK00448 1048332000199 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 1048332000200 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 1048332000201 generic binding surface II; other site 1048332000202 generic binding surface I; other site 1048332000203 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1048332000204 active site 1048332000205 substrate binding site [chemical binding]; other site 1048332000206 catalytic site [active] 1048332000207 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1048332000208 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1048332000209 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 1048332000210 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1048332000211 Helix-turn-helix domains; Region: HTH; cl00088 1048332000212 Helix-turn-helix domains; Region: HTH; cl00088 1048332000213 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1048332000214 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332000215 Helix-turn-helix domains; Region: HTH; cl00088 1048332000216 Integrase core domain; Region: rve; cl01316 1048332000217 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 1048332000218 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 1048332000219 catalytic residue [active] 1048332000220 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 1048332000221 catalytic residues [active] 1048332000222 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332000223 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1048332000224 peroxiredoxin; Region: AhpC; TIGR03137 1048332000225 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1048332000226 dimer interface [polypeptide binding]; other site 1048332000227 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1048332000228 catalytic triad [active] 1048332000229 peroxidatic and resolving cysteines [active] 1048332000230 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 1048332000231 rRNA interaction site [nucleotide binding]; other site 1048332000232 S8 interaction site; other site 1048332000233 putative laminin-1 binding site; other site 1048332000234 elongation factor Ts; Provisional; Region: tsf; PRK09377 1048332000235 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 1048332000236 Elongation factor TS; Region: EF_TS; pfam00889 1048332000237 Putative small multi-drug export protein; Region: Sm_multidrug_ex; cl01024 1048332000238 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 1048332000239 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 1048332000240 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 1048332000241 Walker A motif; other site 1048332000242 ATP binding site [chemical binding]; other site 1048332000243 Walker B motif; other site 1048332000244 arginine finger; other site 1048332000245 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 1048332000246 Walker A motif; other site 1048332000247 ATP binding site [chemical binding]; other site 1048332000248 Walker B motif; other site 1048332000249 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1048332000250 Transposase domain (DUF772); Region: DUF772; cl15789 1048332000251 Transposase domain (DUF772); Region: DUF772; cl15789 1048332000252 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1048332000253 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1048332000254 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1048332000255 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 1048332000256 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1048332000257 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1048332000258 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 1048332000259 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1048332000260 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1048332000261 RNase E interface [polypeptide binding]; other site 1048332000262 trimer interface [polypeptide binding]; other site 1048332000263 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1048332000264 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1048332000265 RNase E interface [polypeptide binding]; other site 1048332000266 trimer interface [polypeptide binding]; other site 1048332000267 active site 1048332000268 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 1048332000269 putative nucleic acid binding region [nucleotide binding]; other site 1048332000270 G-X-X-G motif; other site 1048332000271 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 1048332000272 RNA binding site [nucleotide binding]; other site 1048332000273 domain interface; other site 1048332000274 serine acetyltransferase; Region: PLN02739 1048332000275 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 1048332000276 trimer interface [polypeptide binding]; other site 1048332000277 active site 1048332000278 substrate binding site [chemical binding]; other site 1048332000279 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1048332000280 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1048332000281 active site 1048332000282 HIGH motif; other site 1048332000283 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1048332000284 KMSKS motif; other site 1048332000285 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1048332000286 tRNA binding surface [nucleotide binding]; other site 1048332000287 anticodon binding site; other site 1048332000288 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 1048332000289 active site 1048332000290 metal binding site [ion binding]; metal-binding site 1048332000291 dimerization interface [polypeptide binding]; other site 1048332000292 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 1048332000293 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 1048332000294 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1048332000295 YacP-like NYN domain; Region: NYN_YacP; cl01491 1048332000296 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 1048332000297 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332000298 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 1048332000299 non-specific DNA binding site [nucleotide binding]; other site 1048332000300 salt bridge; other site 1048332000301 sequence-specific DNA binding site [nucleotide binding]; other site 1048332000302 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 1048332000303 23S rRNA interface [nucleotide binding]; other site 1048332000304 L3 interface [polypeptide binding]; other site 1048332000305 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 1048332000306 Protein of unknown function (DUF1211); Region: DUF1211; cl01421 1048332000307 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1048332000308 Helix-turn-helix domains; Region: HTH; cl00088 1048332000309 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 1048332000310 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1048332000311 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332000312 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 1048332000313 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 1048332000314 S-adenosylmethionine binding site [chemical binding]; other site 1048332000315 MULE transposase domain; Region: MULE; pfam10551 1048332000316 Transposase, Mutator family; Region: Transposase_mut; pfam00872 1048332000317 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 1048332000318 non-specific DNA binding site [nucleotide binding]; other site 1048332000319 salt bridge; other site 1048332000320 sequence-specific DNA binding site [nucleotide binding]; other site 1048332000321 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 1048332000322 active site 1048332000323 catalytic site [active] 1048332000324 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 1048332000325 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 1048332000326 putative active site [active] 1048332000327 putative metal binding site [ion binding]; other site 1048332000328 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 1048332000329 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 1048332000330 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 1048332000331 catalytic core [active] 1048332000332 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 1048332000333 Archaebacterial flagellin; Region: Arch_flagellin; cl00732 1048332000334 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: VanY; COG1876 1048332000335 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1048332000336 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 1048332000337 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1048332000338 Helix-turn-helix domains; Region: HTH; cl00088 1048332000339 HrcA protein C terminal domain; Region: HrcA; pfam01628 1048332000340 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 1048332000341 dimer interface [polypeptide binding]; other site 1048332000342 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1048332000343 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1048332000344 chaperone protein DnaJ; Provisional; Region: PRK14276 1048332000345 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 1048332000346 HSP70 interaction site [polypeptide binding]; other site 1048332000347 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1048332000348 substrate binding site [polypeptide binding]; other site 1048332000349 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1048332000350 Zn binding sites [ion binding]; other site 1048332000351 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1048332000352 dimer interface [polypeptide binding]; other site 1048332000353 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1048332000354 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 1048332000355 dimerization interface 3.5A [polypeptide binding]; other site 1048332000356 active site 1048332000357 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 1048332000358 substrate binding site [chemical binding]; other site 1048332000359 dimer interface [polypeptide binding]; other site 1048332000360 ATP binding site [chemical binding]; other site 1048332000361 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1048332000362 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332000363 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1048332000364 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1048332000365 trigger factor; Provisional; Region: tig; PRK01490 1048332000366 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 1048332000367 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1048332000368 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 1048332000369 CTP synthetase; Validated; Region: pyrG; PRK05380 1048332000370 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 1048332000371 Catalytic site [active] 1048332000372 active site 1048332000373 UTP binding site [chemical binding]; other site 1048332000374 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1048332000375 active site 1048332000376 putative oxyanion hole; other site 1048332000377 catalytic triad [active] 1048332000378 Protein of unknown function (DUF3013); Region: DUF3013; pfam11217 1048332000379 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 1048332000380 nudix motif; other site 1048332000381 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1048332000382 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1048332000383 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1048332000384 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 1048332000385 S-adenosylmethionine binding site [chemical binding]; other site 1048332000386 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 1048332000387 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 1048332000388 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase precursor protein; Reviewed; Region: PRK11907 1048332000389 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 1048332000390 active site 1048332000391 metal binding site [ion binding]; metal-binding site 1048332000392 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1048332000393 Gram positive anchor; Region: Gram_pos_anchor; cl15427 1048332000394 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1048332000395 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1048332000396 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1048332000397 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1048332000398 synthetase active site [active] 1048332000399 NTP binding site [chemical binding]; other site 1048332000400 metal binding site [ion binding]; metal-binding site 1048332000401 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 1048332000402 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1048332000403 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 1048332000404 putative active site [active] 1048332000405 dimerization interface [polypeptide binding]; other site 1048332000406 putative tRNAtyr binding site [nucleotide binding]; other site 1048332000407 Glycosyl hydrolase family 66; Region: Glyco_hydro_66; pfam13199 1048332000408 threonine dehydratase; Validated; Region: PRK08639 1048332000409 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 1048332000410 tetramer interface [polypeptide binding]; other site 1048332000411 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332000412 catalytic residue [active] 1048332000413 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1048332000414 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 1048332000415 active site 1048332000416 catalytic residues [active] 1048332000417 metal binding site [ion binding]; metal-binding site 1048332000418 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1048332000419 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 1048332000420 ligand binding site [chemical binding]; other site 1048332000421 flexible hinge region; other site 1048332000422 Helix-turn-helix domains; Region: HTH; cl00088 1048332000423 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 1048332000424 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1048332000425 putative substrate translocation pore; other site 1048332000426 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 1048332000427 16S/18S rRNA binding site [nucleotide binding]; other site 1048332000428 S13e-L30e interaction site [polypeptide binding]; other site 1048332000429 25S rRNA binding site [nucleotide binding]; other site 1048332000430 Gram positive anchor; Region: Gram_pos_anchor; cl15427 1048332000431 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1048332000432 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332000433 Walker A/P-loop; other site 1048332000434 ATP binding site [chemical binding]; other site 1048332000435 Q-loop/lid; other site 1048332000436 ABC transporter signature motif; other site 1048332000437 Walker B; other site 1048332000438 D-loop; other site 1048332000439 H-loop/switch region; other site 1048332000440 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 1048332000441 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1048332000442 substrate binding pocket [chemical binding]; other site 1048332000443 membrane-bound complex binding site; other site 1048332000444 hinge residues; other site 1048332000445 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 1048332000446 dimer interface [polypeptide binding]; other site 1048332000447 conserved gate region; other site 1048332000448 putative PBP binding loops; other site 1048332000449 ABC-ATPase subunit interface; other site 1048332000450 Bacitracin resistance protein BacA; Region: BacA; cl00858 1048332000451 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 1048332000452 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 1048332000453 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1048332000454 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 1048332000455 Mg++ binding site [ion binding]; other site 1048332000456 putative catalytic motif [active] 1048332000457 substrate binding site [chemical binding]; other site 1048332000458 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1048332000459 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 1048332000460 Walker A/P-loop; other site 1048332000461 ATP binding site [chemical binding]; other site 1048332000462 Q-loop/lid; other site 1048332000463 ABC transporter signature motif; other site 1048332000464 Walker B; other site 1048332000465 D-loop; other site 1048332000466 H-loop/switch region; other site 1048332000467 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1048332000468 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 1048332000469 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1048332000470 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 1048332000471 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1048332000472 catalytic residue [active] 1048332000473 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1048332000474 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1048332000475 trimerization site [polypeptide binding]; other site 1048332000476 active site 1048332000477 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 1048332000478 FeS assembly protein SufB; Region: sufB; TIGR01980 1048332000479 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1048332000480 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 1048332000481 dimerization interface [polypeptide binding]; other site 1048332000482 domain crossover interface; other site 1048332000483 redox-dependent activation switch; other site 1048332000484 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 1048332000485 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 1048332000486 FMN binding site [chemical binding]; other site 1048332000487 active site 1048332000488 catalytic residues [active] 1048332000489 substrate binding site [chemical binding]; other site 1048332000490 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1048332000491 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 1048332000492 putative DNA binding site [nucleotide binding]; other site 1048332000493 putative Zn2+ binding site [ion binding]; other site 1048332000494 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1048332000495 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 1048332000496 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 1048332000497 ABC-ATPase subunit interface; other site 1048332000498 dimer interface [polypeptide binding]; other site 1048332000499 putative PBP binding regions; other site 1048332000500 Membrane transport protein; Region: Mem_trans; cl09117 1048332000501 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1048332000502 PTS system, IIBC component; Region: PTS-II-BC-unk1; TIGR02003 1048332000503 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 1048332000504 active site turn [active] 1048332000505 phosphorylation site [posttranslational modification] 1048332000506 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 1048332000507 HPr interaction site; other site 1048332000508 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1048332000509 active site 1048332000510 phosphorylation site [posttranslational modification] 1048332000511 Streptococcus agalactiae RgfB, part of a putative two component signal transduction system, and related proteins; Region: RgfB-like; cd09079 1048332000512 putative catalytic site [active] 1048332000513 putative metal binding site [ion binding]; other site 1048332000514 putative phosphate binding site [ion binding]; other site 1048332000515 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 1048332000516 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 1048332000517 active site 1048332000518 dimer interface [polypeptide binding]; other site 1048332000519 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 1048332000520 dimer interface [polypeptide binding]; other site 1048332000521 active site 1048332000522 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 1048332000523 non-specific DNA binding site [nucleotide binding]; other site 1048332000524 salt bridge; other site 1048332000525 sequence-specific DNA binding site [nucleotide binding]; other site 1048332000526 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1048332000527 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048332000528 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332000529 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 1048332000530 Walker A/P-loop; other site 1048332000531 ATP binding site [chemical binding]; other site 1048332000532 Q-loop/lid; other site 1048332000533 ABC transporter signature motif; other site 1048332000534 Walker B; other site 1048332000535 D-loop; other site 1048332000536 H-loop/switch region; other site 1048332000537 Transcriptional regulator; Region: Transcrip_reg; cl00361 1048332000538 Preprotein translocase subunit; Region: YajC; cl00806 1048332000539 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 1048332000540 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 1048332000541 catalytic residue [active] 1048332000542 putative FPP diphosphate binding site; other site 1048332000543 putative FPP binding hydrophobic cleft; other site 1048332000544 dimer interface [polypeptide binding]; other site 1048332000545 putative IPP diphosphate binding site; other site 1048332000546 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 1048332000547 RIP metalloprotease RseP; Region: TIGR00054 1048332000548 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 1048332000549 active site 1048332000550 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 1048332000551 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 1048332000552 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 1048332000553 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 1048332000554 putative substrate binding region [chemical binding]; other site 1048332000555 putative substrate binding region [chemical binding]; other site 1048332000556 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1048332000557 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 1048332000558 dimer interface [polypeptide binding]; other site 1048332000559 motif 1; other site 1048332000560 active site 1048332000561 motif 2; other site 1048332000562 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 1048332000563 putative deacylase active site [active] 1048332000564 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 1048332000565 active site 1048332000566 motif 3; other site 1048332000567 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 1048332000568 anticodon binding site; other site 1048332000569 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 1048332000570 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1048332000571 zinc binding site [ion binding]; other site 1048332000572 putative ligand binding site [chemical binding]; other site 1048332000573 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 1048332000574 TM-ABC transporter signature motif; other site 1048332000575 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1048332000576 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332000577 Walker A/P-loop; other site 1048332000578 ATP binding site [chemical binding]; other site 1048332000579 Q-loop/lid; other site 1048332000580 ABC transporter signature motif; other site 1048332000581 Walker B; other site 1048332000582 D-loop; other site 1048332000583 H-loop/switch region; other site 1048332000584 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 1048332000585 oligomerisation interface [polypeptide binding]; other site 1048332000586 mobile loop; other site 1048332000587 roof hairpin; other site 1048332000588 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1048332000589 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 1048332000590 ring oligomerisation interface [polypeptide binding]; other site 1048332000591 ATP/Mg binding site [chemical binding]; other site 1048332000592 stacking interactions; other site 1048332000593 hinge regions; other site 1048332000594 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332000595 ribonuclease E; Reviewed; Region: rne; PRK10811 1048332000596 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 1048332000597 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 1048332000598 TM2 domain; Region: TM2; cl00984 1048332000599 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1048332000600 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 1048332000601 active site 1048332000602 Transglycosylase; Region: Transgly; cl07896 1048332000603 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1048332000604 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1048332000605 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 1048332000606 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1048332000607 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1048332000608 putative homodimer interface [polypeptide binding]; other site 1048332000609 KOW motif; Region: KOW; cl00354 1048332000610 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 1048332000611 active site 1048332000612 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 1048332000613 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1048332000614 active site 1048332000615 motif I; other site 1048332000616 motif II; other site 1048332000617 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332000618 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332000619 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1048332000620 Helix-turn-helix domains; Region: HTH; cl00088 1048332000621 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 1048332000622 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1048332000623 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1048332000624 HIGH motif; other site 1048332000625 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1048332000626 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1048332000627 active site 1048332000628 KMSKS motif; other site 1048332000629 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1048332000630 tRNA binding surface [nucleotide binding]; other site 1048332000631 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1048332000632 Helix-turn-helix domains; Region: HTH; cl00088 1048332000633 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 1048332000634 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1048332000635 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 1048332000636 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 1048332000637 YCII-related domain; Region: YCII; cl00999 1048332000638 Helix-turn-helix domains; Region: HTH; cl00088 1048332000639 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332000640 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 1048332000641 Walker A/P-loop; other site 1048332000642 ATP binding site [chemical binding]; other site 1048332000643 Q-loop/lid; other site 1048332000644 ABC transporter signature motif; other site 1048332000645 Walker B; other site 1048332000646 D-loop; other site 1048332000647 H-loop/switch region; other site 1048332000648 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 1048332000649 LytTr DNA-binding domain; Region: LytTR; cl04498 1048332000650 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 1048332000651 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1048332000652 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1048332000653 DNA binding residues [nucleotide binding] 1048332000654 dimer interface [polypeptide binding]; other site 1048332000655 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 1048332000656 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048332000657 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 1048332000658 Walker A/P-loop; other site 1048332000659 ATP binding site [chemical binding]; other site 1048332000660 Q-loop/lid; other site 1048332000661 ABC transporter signature motif; other site 1048332000662 Walker B; other site 1048332000663 D-loop; other site 1048332000664 H-loop/switch region; other site 1048332000665 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1048332000666 FtsX-like permease family; Region: FtsX; cl15850 1048332000667 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1048332000668 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 1048332000669 active site 1048332000670 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 1048332000671 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 1048332000672 homodimer interface [polypeptide binding]; other site 1048332000673 NAD binding pocket [chemical binding]; other site 1048332000674 ATP binding pocket [chemical binding]; other site 1048332000675 Mg binding site [ion binding]; other site 1048332000676 active-site loop [active] 1048332000677 Protein of unknown function (DUF805); Region: DUF805; cl01224 1048332000678 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 1048332000679 trimer interface [polypeptide binding]; other site 1048332000680 active site 1048332000681 G bulge; other site 1048332000682 Transglycosylase; Region: Transgly; cl07896 1048332000683 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1048332000684 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1048332000685 Recombination protein U; Region: RecU; cl01314 1048332000686 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 1048332000687 cell division protein GpsB; Provisional; Region: PRK14127 1048332000688 DivIVA domain; Region: DivI1A_domain; TIGR03544 1048332000689 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 1048332000690 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332000691 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 1048332000692 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 1048332000693 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 1048332000694 ATP binding site [chemical binding]; other site 1048332000695 putative Mg++ binding site [ion binding]; other site 1048332000696 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 1048332000697 nucleotide binding region [chemical binding]; other site 1048332000698 ATP-binding site [chemical binding]; other site 1048332000699 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1048332000700 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1048332000701 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1048332000702 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1048332000703 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1048332000704 YceG-like family; Region: YceG; pfam02618 1048332000705 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1048332000706 dimerization interface [polypeptide binding]; other site 1048332000707 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1048332000708 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1048332000709 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1048332000710 OxaA-like protein precursor; Provisional; Region: PRK02463 1048332000711 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1048332000712 Acylphosphatase; Region: Acylphosphatase; cl00551 1048332000713 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1048332000714 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 1048332000715 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1048332000716 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1048332000717 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1048332000718 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 1048332000719 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1048332000720 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1048332000721 active site 1048332000722 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1048332000723 substrate binding site [chemical binding]; other site 1048332000724 catalytic residues [active] 1048332000725 dimer interface [polypeptide binding]; other site 1048332000726 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1048332000727 Helix-turn-helix domains; Region: HTH; cl00088 1048332000728 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1048332000729 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 1048332000730 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 1048332000731 putative deoxyribonucleotide triphosphate pyrophosphatase/unknown domain fusion protein; Reviewed; Region: PRK02491 1048332000732 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 1048332000733 active site 1048332000734 dimerization interface [polypeptide binding]; other site 1048332000735 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 1048332000736 active site 1048332000737 metal binding site [ion binding]; metal-binding site 1048332000738 homotetramer interface [polypeptide binding]; other site 1048332000739 FOG: CBS domain [General function prediction only]; Region: COG0517 1048332000740 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 1048332000741 site-specific tyrosine recombinase XerD-like protein; Reviewed; Region: xerD; PRK02436 1048332000742 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 1048332000743 DNA binding site [nucleotide binding] 1048332000744 Int/Topo IB signature motif; other site 1048332000745 active site 1048332000746 catalytic residues [active] 1048332000747 ScpA/B protein; Region: ScpA_ScpB; cl00598 1048332000748 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 1048332000749 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1048332000750 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 1048332000751 RNA binding surface [nucleotide binding]; other site 1048332000752 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 1048332000753 active site 1048332000754 Haemolytic domain; Region: Haemolytic; cl00506 1048332000755 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1048332000756 Cation transport protein; Region: TrkH; cl10514 1048332000757 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1048332000758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332000759 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 1048332000760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332000761 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 1048332000762 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 1048332000763 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1048332000764 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 1048332000765 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 1048332000766 active site 1048332000767 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 1048332000768 non-specific DNA binding site [nucleotide binding]; other site 1048332000769 salt bridge; other site 1048332000770 sequence-specific DNA binding site [nucleotide binding]; other site 1048332000771 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 1048332000772 ABC-type bacteriocin transporter; Region: bacteriocin_ABC; TIGR01193 1048332000773 putative active site [active] 1048332000774 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332000775 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332000776 Walker A/P-loop; other site 1048332000777 ATP binding site [chemical binding]; other site 1048332000778 Q-loop/lid; other site 1048332000779 ABC transporter signature motif; other site 1048332000780 Walker B; other site 1048332000781 D-loop; other site 1048332000782 H-loop/switch region; other site 1048332000783 Protein of unknown function (DUF805); Region: DUF805; cl01224 1048332000784 AmiS/UreI family transporter; Region: AmiS_UreI; pfam02293 1048332000785 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 1048332000786 alpha-gamma subunit interface [polypeptide binding]; other site 1048332000787 beta-gamma subunit interface [polypeptide binding]; other site 1048332000788 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 1048332000789 gamma-beta subunit interface [polypeptide binding]; other site 1048332000790 alpha-beta subunit interface [polypeptide binding]; other site 1048332000791 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1048332000792 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 1048332000793 subunit interactions [polypeptide binding]; other site 1048332000794 active site 1048332000795 flap region; other site 1048332000796 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 1048332000797 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 1048332000798 dimer interface [polypeptide binding]; other site 1048332000799 catalytic residues [active] 1048332000800 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1048332000801 UreF; Region: UreF; pfam01730 1048332000802 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332000803 UreD urease accessory protein; Region: UreD; cl00530 1048332000804 cobalt transport protein CbiM; Provisional; Region: PRK07331 1048332000805 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; cl00397 1048332000806 PDGLE domain; Region: PDGLE; cl07986 1048332000807 Cobalt transport protein; Region: CbiQ; cl00463 1048332000808 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1048332000809 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 1048332000810 Walker A/P-loop; other site 1048332000811 ATP binding site [chemical binding]; other site 1048332000812 Q-loop/lid; other site 1048332000813 ABC transporter signature motif; other site 1048332000814 Walker B; other site 1048332000815 D-loop; other site 1048332000816 H-loop/switch region; other site 1048332000817 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1048332000818 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 1048332000819 substrate binding pocket [chemical binding]; other site 1048332000820 membrane-bound complex binding site; other site 1048332000821 hinge residues; other site 1048332000822 NMT1-like family; Region: NMT1_2; cl15260 1048332000823 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 1048332000824 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 1048332000825 metal binding site [ion binding]; metal-binding site 1048332000826 dimer interface [polypeptide binding]; other site 1048332000827 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 1048332000828 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 1048332000829 Walker A/P-loop; other site 1048332000830 ATP binding site [chemical binding]; other site 1048332000831 Q-loop/lid; other site 1048332000832 ABC transporter signature motif; other site 1048332000833 Walker B; other site 1048332000834 D-loop; other site 1048332000835 H-loop/switch region; other site 1048332000836 NIL domain; Region: NIL; cl09633 1048332000837 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 1048332000838 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 1048332000839 Uncharacterized conserved protein [Function unknown]; Region: COG1912 1048332000840 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 1048332000841 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1048332000842 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 1048332000843 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1048332000844 Walker A/P-loop; other site 1048332000845 ATP binding site [chemical binding]; other site 1048332000846 Q-loop/lid; other site 1048332000847 ABC transporter signature motif; other site 1048332000848 Walker B; other site 1048332000849 D-loop; other site 1048332000850 H-loop/switch region; other site 1048332000851 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 1048332000852 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 1048332000853 Walker A/P-loop; other site 1048332000854 ATP binding site [chemical binding]; other site 1048332000855 Q-loop/lid; other site 1048332000856 ABC transporter signature motif; other site 1048332000857 Walker B; other site 1048332000858 D-loop; other site 1048332000859 H-loop/switch region; other site 1048332000860 Cobalt transport protein; Region: CbiQ; cl00463 1048332000861 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1048332000862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332000863 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 1048332000864 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1048332000865 Cation transport protein; Region: TrkH; cl10514 1048332000866 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 1048332000867 S-adenosylmethionine binding site [chemical binding]; other site 1048332000868 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 1048332000869 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1048332000870 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 1048332000871 active site 1048332000872 phosphorylation site [posttranslational modification] 1048332000873 intermolecular recognition site; other site 1048332000874 dimerization interface [polypeptide binding]; other site 1048332000875 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 1048332000876 DNA binding site [nucleotide binding] 1048332000877 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 1048332000878 dimerization interface [polypeptide binding]; other site 1048332000879 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 1048332000880 dimer interface [polypeptide binding]; other site 1048332000881 phosphorylation site [posttranslational modification] 1048332000882 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 1048332000883 ATP binding site [chemical binding]; other site 1048332000884 Mg2+ binding site [ion binding]; other site 1048332000885 G-X-G motif; other site 1048332000886 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1048332000887 ATP cone domain; Region: ATP-cone; pfam03477 1048332000888 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 1048332000889 primosomal protein DnaI; Reviewed; Region: PRK08939 1048332000890 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 1048332000891 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 1048332000892 Walker A motif; other site 1048332000893 ATP binding site [chemical binding]; other site 1048332000894 Walker B motif; other site 1048332000895 arginine finger; other site 1048332000896 GTP-binding protein Der; Reviewed; Region: PRK00093 1048332000897 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1048332000898 G1 box; other site 1048332000899 GTP/Mg2+ binding site [chemical binding]; other site 1048332000900 Switch I region; other site 1048332000901 G2 box; other site 1048332000902 Switch II region; other site 1048332000903 G3 box; other site 1048332000904 G4 box; other site 1048332000905 G5 box; other site 1048332000906 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1048332000907 G1 box; other site 1048332000908 GTP/Mg2+ binding site [chemical binding]; other site 1048332000909 Switch I region; other site 1048332000910 G2 box; other site 1048332000911 G3 box; other site 1048332000912 Switch II region; other site 1048332000913 G4 box; other site 1048332000914 G5 box; other site 1048332000915 acetolactate synthase; Reviewed; Region: PRK08322 1048332000916 seryl-tRNA synthetase; Provisional; Region: PRK05431 1048332000917 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1048332000918 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 1048332000919 dimer interface [polypeptide binding]; other site 1048332000920 active site 1048332000921 motif 1; other site 1048332000922 motif 2; other site 1048332000923 motif 3; other site 1048332000924 Domain of unknown function (DUF956); Region: DUF956; cl01917 1048332000925 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1048332000926 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 1048332000927 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1048332000928 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 1048332000929 active pocket/dimerization site; other site 1048332000930 active site 1048332000931 phosphorylation site [posttranslational modification] 1048332000932 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 1048332000933 active site 1048332000934 phosphorylation site [posttranslational modification] 1048332000935 Domain of unknown function (DUF956); Region: DUF956; cl01917 1048332000936 PTS system mannose/fructose/sorbose family IID component; Region: EIID-AGA; cl01507 1048332000937 PTS system sorbose-specific iic component; Region: EII-Sor; cl01506 1048332000938 PTS system mannose-specific transporter subunits IIAB; Provisional; Region: PRK15088 1048332000939 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 1048332000940 active pocket/dimerization site; other site 1048332000941 active site 1048332000942 phosphorylation site [posttranslational modification] 1048332000943 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 1048332000944 active site 1048332000945 phosphorylation site [posttranslational modification] 1048332000946 Putative cyclase; Region: Cyclase; cl00814 1048332000947 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 1048332000948 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1048332000949 active site 1048332000950 motif I; other site 1048332000951 motif II; other site 1048332000952 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1048332000953 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1048332000954 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1048332000955 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048332000956 Coenzyme A binding pocket [chemical binding]; other site 1048332000957 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1048332000958 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1048332000959 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 1048332000960 Sm1 motif; other site 1048332000961 predicted subunit interaction site [polypeptide binding]; other site 1048332000962 RNA binding pocket [nucleotide binding]; other site 1048332000963 Sm2 motif; other site 1048332000964 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 1048332000965 NusA N-terminal domain; Region: NusA_N; pfam08529 1048332000966 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 1048332000967 RNA binding site [nucleotide binding]; other site 1048332000968 homodimer interface [polypeptide binding]; other site 1048332000969 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 1048332000970 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 1048332000971 G-X-X-G motif; other site 1048332000972 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 1048332000973 putative RNA binding cleft [nucleotide binding]; other site 1048332000974 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1048332000975 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1048332000976 translation initiation factor IF-2; Region: IF-2; TIGR00487 1048332000977 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1048332000978 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1048332000979 G1 box; other site 1048332000980 putative GEF interaction site [polypeptide binding]; other site 1048332000981 GTP/Mg2+ binding site [chemical binding]; other site 1048332000982 Switch I region; other site 1048332000983 G2 box; other site 1048332000984 G3 box; other site 1048332000985 Switch II region; other site 1048332000986 G4 box; other site 1048332000987 G5 box; other site 1048332000988 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 1048332000989 Translation-initiation factor 2; Region: IF-2; pfam11987 1048332000990 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 1048332000991 Ribosome-binding factor A; Region: RBFA; cl00542 1048332000992 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1048332000993 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 1048332000994 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1048332000995 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1048332000996 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1048332000997 MatE; Region: MatE; cl10513 1048332000998 stage V sporulation protein B; Region: spore_V_B; TIGR02900 1048332000999 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1048332001000 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1048332001001 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1048332001002 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1048332001003 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 1048332001004 motif II; other site 1048332001005 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1048332001006 cystathionine gamma-synthase; Reviewed; Region: PRK07269 1048332001007 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 1048332001008 homodimer interface [polypeptide binding]; other site 1048332001009 substrate-cofactor binding pocket; other site 1048332001010 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332001011 catalytic residue [active] 1048332001012 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 1048332001013 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 1048332001014 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332001015 homodimer interface [polypeptide binding]; other site 1048332001016 catalytic residue [active] 1048332001017 Glycosyl hydrolases family 32 N-terminal domain; Region: Glyco_hydro_32N; pfam00251 1048332001018 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1048332001019 substrate binding [chemical binding]; other site 1048332001020 active site 1048332001021 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1048332001022 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 1048332001023 active site 1048332001024 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048332001025 active site 1048332001026 Clp protease; Region: CLP_protease; pfam00574 1048332001027 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1048332001028 oligomer interface [polypeptide binding]; other site 1048332001029 active site residues [active] 1048332001030 Protein of unknown function (DUF964); Region: DUF964; cl01483 1048332001031 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 1048332001032 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1048332001033 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 1048332001034 putative ligand binding site [chemical binding]; other site 1048332001035 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 1048332001036 TM-ABC transporter signature motif; other site 1048332001037 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 1048332001038 TM-ABC transporter signature motif; other site 1048332001039 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1048332001040 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 1048332001041 Walker A/P-loop; other site 1048332001042 ATP binding site [chemical binding]; other site 1048332001043 Q-loop/lid; other site 1048332001044 ABC transporter signature motif; other site 1048332001045 Walker B; other site 1048332001046 D-loop; other site 1048332001047 H-loop/switch region; other site 1048332001048 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1048332001049 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 1048332001050 Walker A/P-loop; other site 1048332001051 ATP binding site [chemical binding]; other site 1048332001052 Q-loop/lid; other site 1048332001053 ABC transporter signature motif; other site 1048332001054 Walker B; other site 1048332001055 D-loop; other site 1048332001056 H-loop/switch region; other site 1048332001057 FOG: CBS domain [General function prediction only]; Region: COG0517 1048332001058 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 1048332001059 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1048332001060 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1048332001061 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 1048332001062 dimer interface [polypeptide binding]; other site 1048332001063 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332001064 catalytic residue [active] 1048332001065 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1048332001066 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1048332001067 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1048332001068 Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]; Region: comFA; COG4098 1048332001069 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 1048332001070 ATP binding site [chemical binding]; other site 1048332001071 putative Mg++ binding site [ion binding]; other site 1048332001072 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 1048332001073 nucleotide binding region [chemical binding]; other site 1048332001074 ATP-binding site [chemical binding]; other site 1048332001075 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1048332001076 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 1048332001077 30S subunit binding site; other site 1048332001078 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 1048332001079 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 1048332001080 DHHA2 domain; Region: DHHA2; pfam02833 1048332001081 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1048332001082 Domain of unknown function (DUF1803); Region: DUF1803; pfam08820 1048332001083 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332001084 Helix-turn-helix domains; Region: HTH; cl00088 1048332001085 Integrase core domain; Region: rve; cl01316 1048332001086 Protein of unknown function (DUF402); Region: DUF402; cl00979 1048332001087 RecX family; Region: RecX; cl00936 1048332001088 TRAM domain; Region: TRAM; cl01282 1048332001089 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1048332001090 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 1048332001091 S-adenosylmethionine binding site [chemical binding]; other site 1048332001092 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 1048332001093 dimer interface [polypeptide binding]; other site 1048332001094 active site 1048332001095 aspartate kinase; Reviewed; Region: PRK09034 1048332001096 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 1048332001097 putative catalytic residues [active] 1048332001098 putative nucleotide binding site [chemical binding]; other site 1048332001099 putative aspartate binding site [chemical binding]; other site 1048332001100 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 1048332001101 allosteric regulatory residue; other site 1048332001102 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 1048332001103 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1048332001104 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 1048332001105 motif II; other site 1048332001106 enoyl-CoA hydratase; Provisional; Region: PRK07260 1048332001107 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 1048332001108 substrate binding site [chemical binding]; other site 1048332001109 oxyanion hole (OAH) forming residues; other site 1048332001110 trimer interface [polypeptide binding]; other site 1048332001111 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1048332001112 Helix-turn-helix domains; Region: HTH; cl00088 1048332001113 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1048332001114 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 1048332001115 dimer interface [polypeptide binding]; other site 1048332001116 active site 1048332001117 CoA binding pocket [chemical binding]; other site 1048332001118 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1048332001119 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 1048332001120 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 1048332001121 FMN binding site [chemical binding]; other site 1048332001122 substrate binding site [chemical binding]; other site 1048332001123 putative catalytic residue [active] 1048332001124 Acyl transferase domain; Region: Acyl_transf_1; cl08282 1048332001125 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1048332001126 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1048332001127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332001128 NAD(P) binding site [chemical binding]; other site 1048332001129 active site 1048332001130 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1048332001131 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 1048332001132 dimer interface [polypeptide binding]; other site 1048332001133 active site 1048332001134 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1048332001135 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 1048332001136 carboxyltransferase (CT) interaction site; other site 1048332001137 biotinylation site [posttranslational modification]; other site 1048332001138 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 1048332001139 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1048332001140 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1048332001141 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1048332001142 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 1048332001143 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1048332001144 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1048332001145 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 1048332001146 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 1048332001147 hypothetical protein; Provisional; Region: PRK00106 1048332001148 ATP synthase archaeal, H subunit; Region: AhaH; TIGR02926 1048332001149 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1048332001150 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1048332001151 Helix-turn-helix domains; Region: HTH; cl00088 1048332001152 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 1048332001153 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 1048332001154 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 1048332001155 putative substrate binding site [chemical binding]; other site 1048332001156 putative ATP binding site [chemical binding]; other site 1048332001157 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 1048332001158 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1048332001159 active site 1048332001160 phosphorylation site [posttranslational modification] 1048332001161 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 1048332001162 P-loop; other site 1048332001163 active site 1048332001164 phosphorylation site [posttranslational modification] 1048332001165 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1048332001166 glutathione reductase; Validated; Region: PRK06116 1048332001167 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1048332001168 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1048332001169 glutathione reductase; Validated; Region: PRK06116 1048332001170 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1048332001171 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1048332001172 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 1048332001173 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 1048332001174 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1048332001175 catalytic residue [active] 1048332001176 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 1048332001177 THUMP domain; Region: THUMP; cl12076 1048332001178 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 1048332001179 Ligand Binding Site [chemical binding]; other site 1048332001180 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 1048332001181 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 1048332001182 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 1048332001183 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 1048332001184 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 1048332001185 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1048332001186 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 1048332001187 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 1048332001188 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1048332001189 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1048332001190 Protein of unknown function (DUF1149); Region: DUF1149; cl11551 1048332001191 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 1048332001192 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1048332001193 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332001194 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1048332001195 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 1048332001196 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1048332001197 active site 1048332001198 NTP binding site [chemical binding]; other site 1048332001199 metal binding triad [ion binding]; metal-binding site 1048332001200 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1048332001201 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1048332001202 potential frameshift: common BLAST hit: gi|116627322|ref|YP_819941.1| ABC transporter ATPase 1048332001203 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332001204 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1048332001205 Walker A/P-loop; other site 1048332001206 ATP binding site [chemical binding]; other site 1048332001207 Q-loop/lid; other site 1048332001208 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 1048332001209 ABC transporter; Region: ABC_tran_2; pfam12848 1048332001210 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1048332001211 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 1048332001212 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 1048332001213 nudix motif; other site 1048332001214 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 1048332001215 nicotinamide-nucleotide adenylyltransferase, NadR type; Region: nadR_NMN_Atrans; TIGR01526 1048332001216 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1048332001217 active site 1048332001218 nucleotide binding site [chemical binding]; other site 1048332001219 HIGH motif; other site 1048332001220 KMSKS motif; other site 1048332001221 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332001222 glutamate dehydrogenase; Provisional; Region: PRK09414 1048332001223 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1048332001224 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1048332001225 NAD(P) binding site [chemical binding]; other site 1048332001226 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 1048332001227 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 1048332001228 active site 1048332001229 catalytic residues [active] 1048332001230 metal binding site [ion binding]; metal-binding site 1048332001231 Helix-turn-helix domains; Region: HTH; cl00088 1048332001232 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1048332001233 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332001234 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048332001235 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332001236 Walker A/P-loop; other site 1048332001237 ATP binding site [chemical binding]; other site 1048332001238 Q-loop/lid; other site 1048332001239 ABC transporter signature motif; other site 1048332001240 Walker B; other site 1048332001241 D-loop; other site 1048332001242 H-loop/switch region; other site 1048332001243 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048332001244 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332001245 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 1048332001246 Walker A/P-loop; other site 1048332001247 ATP binding site [chemical binding]; other site 1048332001248 Q-loop/lid; other site 1048332001249 ABC transporter signature motif; other site 1048332001250 Walker B; other site 1048332001251 D-loop; other site 1048332001252 H-loop/switch region; other site 1048332001253 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048332001254 Coenzyme A binding pocket [chemical binding]; other site 1048332001255 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1048332001256 synthetase active site [active] 1048332001257 NTP binding site [chemical binding]; other site 1048332001258 metal binding site [ion binding]; metal-binding site 1048332001259 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1048332001260 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 1048332001261 active site 1048332001262 phosphorylation site [posttranslational modification] 1048332001263 intermolecular recognition site; other site 1048332001264 dimerization interface [polypeptide binding]; other site 1048332001265 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 1048332001266 DNA binding site [nucleotide binding] 1048332001267 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 1048332001268 dimer interface [polypeptide binding]; other site 1048332001269 phosphorylation site [posttranslational modification] 1048332001270 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 1048332001271 ATP binding site [chemical binding]; other site 1048332001272 Mg2+ binding site [ion binding]; other site 1048332001273 G-X-G motif; other site 1048332001274 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 1048332001275 putative nucleotide binding site [chemical binding]; other site 1048332001276 uridine monophosphate binding site [chemical binding]; other site 1048332001277 homohexameric interface [polypeptide binding]; other site 1048332001278 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1048332001279 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 1048332001280 hinge region; other site 1048332001281 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 1048332001282 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 1048332001283 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 1048332001284 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 1048332001285 invasion associated secreted endopeptidase; Provisional; Region: PRK13914 1048332001286 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 1048332001287 putative peptidoglycan binding site; other site 1048332001288 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1048332001289 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332001290 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 1048332001291 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 1048332001292 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1048332001293 active site 1048332001294 HIGH motif; other site 1048332001295 KMSKS motif; other site 1048332001296 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1048332001297 tRNA binding surface [nucleotide binding]; other site 1048332001298 anticodon binding site; other site 1048332001299 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 1048332001300 dimer interface [polypeptide binding]; other site 1048332001301 putative tRNA-binding site [nucleotide binding]; other site 1048332001302 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 1048332001303 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1048332001304 active site 1048332001305 catalytic tetrad [active] 1048332001306 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1048332001307 Helix-turn-helix domains; Region: HTH; cl00088 1048332001308 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 1048332001309 dimerization interface [polypeptide binding]; other site 1048332001310 CAAX protease self-immunity; Region: Abi; cl00558 1048332001311 Glucan-binding protein C; Region: GbpC; pfam08363 1048332001312 NlpC/P60 family; Region: NLPC_P60; cl11438 1048332001313 Integrase core domain; Region: rve; cl01316 1048332001314 Integrase core domain; Region: rve_3; cl15866 1048332001315 Competence protein CoiA-like family; Region: CoiA; cl11541 1048332001316 oligoendopeptidase F; Region: pepF; TIGR00181 1048332001317 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 1048332001318 active site 1048332001319 Zn binding site [ion binding]; other site 1048332001320 Oxalate/Formate Antiporter; Region: 2A0111; TIGR00890 1048332001321 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 1048332001322 putative substrate translocation pore; other site 1048332001323 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 1048332001324 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 1048332001325 S-adenosylmethionine binding site [chemical binding]; other site 1048332001326 Geminivirus BL1 movement protein; Region: Gemini_BL1; pfam00845 1048332001327 foldase protein PrsA; Reviewed; Region: prsA; PRK01326 1048332001328 SurA N-terminal domain; Region: SurA_N_3; cl07813 1048332001329 Scramblase; Region: Scramblase; cl02043 1048332001330 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1048332001331 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 1048332001332 motif 1; other site 1048332001333 active site 1048332001334 motif 2; other site 1048332001335 motif 3; other site 1048332001336 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 1048332001337 DHHA1 domain; Region: DHHA1; pfam02272 1048332001338 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332001339 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332001340 Helix-turn-helix domains; Region: HTH; cl00088 1048332001341 Integrase core domain; Region: rve; cl01316 1048332001342 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1048332001343 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332001344 Walker A/P-loop; other site 1048332001345 ATP binding site [chemical binding]; other site 1048332001346 Q-loop/lid; other site 1048332001347 ABC transporter signature motif; other site 1048332001348 Walker B; other site 1048332001349 D-loop; other site 1048332001350 H-loop/switch region; other site 1048332001351 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332001352 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1048332001353 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 1048332001354 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1048332001355 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 1048332001356 active site 1048332001357 phosphorylation site [posttranslational modification] 1048332001358 intermolecular recognition site; other site 1048332001359 dimerization interface [polypeptide binding]; other site 1048332001360 LytTr DNA-binding domain; Region: LytTR; cl04498 1048332001361 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 1048332001362 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332001363 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 1048332001364 non-specific DNA binding site [nucleotide binding]; other site 1048332001365 salt bridge; other site 1048332001366 sequence-specific DNA binding site [nucleotide binding]; other site 1048332001367 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1048332001368 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001369 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001370 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1048332001371 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001372 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1048332001373 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001374 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001375 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001376 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1048332001377 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; cl09944 1048332001378 active site 1048332001379 phosphorylation site [posttranslational modification] 1048332001380 intermolecular recognition site; other site 1048332001381 dimerization interface [polypeptide binding]; other site 1048332001382 LytTr DNA-binding domain; Region: LytTR; cl04498 1048332001383 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1048332001384 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 1048332001385 active site 1048332001386 phosphorylation site [posttranslational modification] 1048332001387 intermolecular recognition site; other site 1048332001388 dimerization interface [polypeptide binding]; other site 1048332001389 LytTr DNA-binding domain; Region: LytTR; cl04498 1048332001390 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1048332001391 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 1048332001392 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001393 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1048332001394 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001395 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001396 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001397 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001398 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001399 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1048332001400 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 1048332001401 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001402 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001403 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332001404 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1048332001405 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 1048332001406 putative active site [active] 1048332001407 catalytic triad [active] 1048332001408 putative dimer interface [polypeptide binding]; other site 1048332001409 transaminase; Reviewed; Region: PRK08068 1048332001410 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 1048332001411 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332001412 homodimer interface [polypeptide binding]; other site 1048332001413 catalytic residue [active] 1048332001414 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1048332001415 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332001416 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 1048332001417 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 1048332001418 heterotetramer interface [polypeptide binding]; other site 1048332001419 active site pocket [active] 1048332001420 cleavage site 1048332001421 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 1048332001422 nucleotide binding site [chemical binding]; other site 1048332001423 N-acetyl-L-glutamate binding site [chemical binding]; other site 1048332001424 acetylornithine aminotransferase; Provisional; Region: PRK04260 1048332001425 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 1048332001426 inhibitor-cofactor binding pocket; inhibition site 1048332001427 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332001428 catalytic residue [active] 1048332001429 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1048332001430 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 1048332001431 putative active site [active] 1048332001432 putative metal binding site [ion binding]; other site 1048332001433 homoserine dehydrogenase; Provisional; Region: PRK06349 1048332001434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332001435 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1048332001436 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 1048332001437 homoserine kinase; Provisional; Region: PRK01212 1048332001438 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1048332001439 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1048332001440 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1048332001441 EamA-like transporter family; Region: EamA; cl01037 1048332001442 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 1048332001443 Flavin Reductases; Region: FlaRed; cl00801 1048332001444 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1048332001445 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1048332001446 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 1048332001447 binding surface 1048332001448 TPR motif; other site 1048332001449 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 1048332001450 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1048332001451 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1048332001452 active site 1048332001453 HIGH motif; other site 1048332001454 nucleotide binding site [chemical binding]; other site 1048332001455 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1048332001456 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1048332001457 active site 1048332001458 KMSKS motif; other site 1048332001459 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1048332001460 tRNA binding surface [nucleotide binding]; other site 1048332001461 anticodon binding site; other site 1048332001462 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1048332001463 AIPR protein; Region: AIPR; pfam10592 1048332001464 LrgA family; Region: LrgA; cl00608 1048332001465 LrgB-like family; Region: LrgB; cl00596 1048332001466 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1048332001467 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 1048332001468 motif II; other site 1048332001469 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 1048332001470 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 1048332001471 Mg2+ binding site [ion binding]; other site 1048332001472 G-X-G motif; other site 1048332001473 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 1048332001474 anchoring element; other site 1048332001475 dimer interface [polypeptide binding]; other site 1048332001476 ATP binding site [chemical binding]; other site 1048332001477 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 1048332001478 active site 1048332001479 putative metal-binding site [ion binding]; other site 1048332001480 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1048332001481 septation ring formation regulator EzrA; Provisional; Region: PRK04778 1048332001482 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1048332001483 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 1048332001484 motif II; other site 1048332001485 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332001486 EamA-like transporter family; Region: EamA; cl01037 1048332001487 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1048332001488 EamA-like transporter family; Region: EamA; cl01037 1048332001489 OsmC-like protein; Region: OsmC; cl00767 1048332001490 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 1048332001491 CoenzymeA binding site [chemical binding]; other site 1048332001492 subunit interaction site [polypeptide binding]; other site 1048332001493 PHB binding site; other site 1048332001494 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1048332001495 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1048332001496 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 1048332001497 RNA binding surface [nucleotide binding]; other site 1048332001498 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 1048332001499 active site 1048332001500 uracil binding [chemical binding]; other site 1048332001501 GTPase CgtA; Reviewed; Region: obgE; PRK12297 1048332001502 GTP1/OBG; Region: GTP1_OBG; pfam01018 1048332001503 Obg GTPase; Region: Obg; cd01898 1048332001504 G1 box; other site 1048332001505 GTP/Mg2+ binding site [chemical binding]; other site 1048332001506 Switch I region; other site 1048332001507 G2 box; other site 1048332001508 G3 box; other site 1048332001509 Switch II region; other site 1048332001510 G4 box; other site 1048332001511 G5 box; other site 1048332001512 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 1048332001513 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1048332001514 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 1048332001515 Walker A/P-loop; other site 1048332001516 ATP binding site [chemical binding]; other site 1048332001517 Q-loop/lid; other site 1048332001518 ABC transporter signature motif; other site 1048332001519 Walker B; other site 1048332001520 D-loop; other site 1048332001521 H-loop/switch region; other site 1048332001522 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1048332001523 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 1048332001524 substrate binding pocket [chemical binding]; other site 1048332001525 membrane-bound complex binding site; other site 1048332001526 hinge residues; other site 1048332001527 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 1048332001528 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1048332001529 substrate binding pocket [chemical binding]; other site 1048332001530 membrane-bound complex binding site; other site 1048332001531 hinge residues; other site 1048332001532 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 1048332001533 dimer interface [polypeptide binding]; other site 1048332001534 conserved gate region; other site 1048332001535 putative PBP binding loops; other site 1048332001536 ABC-ATPase subunit interface; other site 1048332001537 CAAX protease self-immunity; Region: Abi; cl00558 1048332001538 excinuclease ABC subunit B; Provisional; Region: PRK05298 1048332001539 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 1048332001540 ATP binding site [chemical binding]; other site 1048332001541 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 1048332001542 nucleotide binding region [chemical binding]; other site 1048332001543 ATP-binding site [chemical binding]; other site 1048332001544 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1048332001545 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1048332001546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048332001547 Coenzyme A binding pocket [chemical binding]; other site 1048332001548 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1048332001549 excinuclease ABC subunit B; Provisional; Region: PRK05298 1048332001550 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 1048332001551 putative active site [active] 1048332001552 nucleotide binding site [chemical binding]; other site 1048332001553 nudix motif; other site 1048332001554 putative metal binding site [ion binding]; other site 1048332001555 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 1048332001556 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1048332001557 substrate binding pocket [chemical binding]; other site 1048332001558 membrane-bound complex binding site; other site 1048332001559 hinge residues; other site 1048332001560 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 1048332001561 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1048332001562 substrate binding pocket [chemical binding]; other site 1048332001563 membrane-bound complex binding site; other site 1048332001564 hinge residues; other site 1048332001565 transaminase; Validated; Region: PRK07324 1048332001566 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 1048332001567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332001568 homodimer interface [polypeptide binding]; other site 1048332001569 catalytic residue [active] 1048332001570 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 1048332001571 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1048332001572 substrate binding pocket [chemical binding]; other site 1048332001573 membrane-bound complex binding site; other site 1048332001574 hinge residues; other site 1048332001575 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 1048332001576 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 1048332001577 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1048332001578 DNA primase; Validated; Region: dnaG; PRK05667 1048332001579 CHC2 zinc finger; Region: zf-CHC2; cl15369 1048332001580 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1048332001581 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 1048332001582 active site 1048332001583 metal binding site [ion binding]; metal-binding site 1048332001584 interdomain interaction site; other site 1048332001585 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 1048332001586 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1048332001587 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1048332001588 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1048332001589 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 1048332001590 DNA binding residues [nucleotide binding] 1048332001591 Domain of unknown function DUF59; Region: DUF59; cl00941 1048332001592 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1048332001593 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1048332001594 Ligand binding site; other site 1048332001595 Putative Catalytic site; other site 1048332001596 DXD motif; other site 1048332001597 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 1048332001598 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 1048332001599 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 1048332001600 NADP binding site [chemical binding]; other site 1048332001601 active site 1048332001602 putative substrate binding site [chemical binding]; other site 1048332001603 MatE; Region: MatE; cl10513 1048332001604 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1048332001605 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 1048332001606 active site 1048332001607 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 1048332001608 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1048332001609 Ligand binding site; other site 1048332001610 Putative Catalytic site; other site 1048332001611 DXD motif; other site 1048332001612 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 1048332001613 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1048332001614 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 1048332001615 active site 1048332001616 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1048332001617 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 1048332001618 active site 1048332001619 Rhamnan synthesis protein F; Region: RgpF; cl01529 1048332001620 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 1048332001621 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 1048332001622 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 1048332001623 Glucosyl transferase GtrII; Region: Glucos_trans_II; cl10304 1048332001624 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 1048332001625 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1048332001626 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1048332001627 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 1048332001628 Probable Catalytic site; other site 1048332001629 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1048332001630 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1048332001631 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 1048332001632 Walker A/P-loop; other site 1048332001633 ATP binding site [chemical binding]; other site 1048332001634 Q-loop/lid; other site 1048332001635 ABC transporter signature motif; other site 1048332001636 Walker B; other site 1048332001637 D-loop; other site 1048332001638 H-loop/switch region; other site 1048332001639 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 1048332001640 Rhamnan synthesis protein F; Region: RgpF; cl01529 1048332001641 hypothetical protein; Reviewed; Region: PRK00024 1048332001642 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1048332001643 MPN+ (JAMM) motif; other site 1048332001644 Zinc-binding site [ion binding]; other site 1048332001645 Peptidase C26; Region: Peptidase_C26; pfam07722 1048332001646 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1048332001647 catalytic triad [active] 1048332001648 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 1048332001649 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 1048332001650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332001651 Putative amino acid metabolism; Region: DUF1831; pfam08866 1048332001652 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 1048332001653 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 1048332001654 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1048332001655 catalytic residue [active] 1048332001656 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02458 1048332001657 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1048332001658 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048332001659 active site 1048332001660 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 1048332001661 putative active site [active] 1048332001662 putative metal binding residues [ion binding]; other site 1048332001663 signature motif; other site 1048332001664 putative triphosphate binding site [ion binding]; other site 1048332001665 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1048332001666 synthetase active site [active] 1048332001667 NTP binding site [chemical binding]; other site 1048332001668 metal binding site [ion binding]; metal-binding site 1048332001669 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 1048332001670 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1048332001671 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 1048332001672 active site 1048332001673 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 1048332001674 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1048332001675 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1048332001676 peptide binding site [polypeptide binding]; other site 1048332001677 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1048332001678 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1048332001679 peptide binding site [polypeptide binding]; other site 1048332001680 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 1048332001681 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 1048332001682 dimer interface [polypeptide binding]; other site 1048332001683 conserved gate region; other site 1048332001684 putative PBP binding loops; other site 1048332001685 ABC-ATPase subunit interface; other site 1048332001686 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1048332001687 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1048332001688 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 1048332001689 dimer interface [polypeptide binding]; other site 1048332001690 conserved gate region; other site 1048332001691 putative PBP binding loops; other site 1048332001692 ABC-ATPase subunit interface; other site 1048332001693 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1048332001694 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 1048332001695 Walker A/P-loop; other site 1048332001696 ATP binding site [chemical binding]; other site 1048332001697 Q-loop/lid; other site 1048332001698 ABC transporter signature motif; other site 1048332001699 Walker B; other site 1048332001700 D-loop; other site 1048332001701 H-loop/switch region; other site 1048332001702 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1048332001703 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1048332001704 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 1048332001705 Walker A/P-loop; other site 1048332001706 ATP binding site [chemical binding]; other site 1048332001707 Q-loop/lid; other site 1048332001708 ABC transporter signature motif; other site 1048332001709 Walker B; other site 1048332001710 D-loop; other site 1048332001711 H-loop/switch region; other site 1048332001712 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1048332001713 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1048332001714 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 1048332001715 Walker A/P-loop; other site 1048332001716 ATP binding site [chemical binding]; other site 1048332001717 Q-loop/lid; other site 1048332001718 ABC transporter signature motif; other site 1048332001719 Walker B; other site 1048332001720 D-loop; other site 1048332001721 H-loop/switch region; other site 1048332001722 Predicted transcriptional regulators [Transcription]; Region: COG1725 1048332001723 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1048332001724 DNA-binding site [nucleotide binding]; DNA binding site 1048332001725 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332001726 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1048332001727 active site 1048332001728 motif I; other site 1048332001729 motif II; other site 1048332001730 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 1048332001731 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 1048332001732 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1048332001733 active site 1048332001734 motif I; other site 1048332001735 motif II; other site 1048332001736 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332001737 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1048332001738 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 1048332001739 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 1048332001740 P loop; other site 1048332001741 GTP binding site [chemical binding]; other site 1048332001742 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1048332001743 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 1048332001744 catalytic site [active] 1048332001745 G-X2-G-X-G-K; other site 1048332001746 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 1048332001747 primosome assembly protein PriA; Validated; Region: PRK05580 1048332001748 primosome assembly protein PriA; Validated; Region: PRK05580 1048332001749 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 1048332001750 ATP binding site [chemical binding]; other site 1048332001751 putative Mg++ binding site [ion binding]; other site 1048332001752 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 1048332001753 nucleotide binding region [chemical binding]; other site 1048332001754 ATP-binding site [chemical binding]; other site 1048332001755 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1048332001756 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1048332001757 putative active site [active] 1048332001758 substrate binding site [chemical binding]; other site 1048332001759 putative cosubstrate binding site; other site 1048332001760 catalytic site [active] 1048332001761 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1048332001762 substrate binding site [chemical binding]; other site 1048332001763 16S rRNA methyltransferase B; Provisional; Region: PRK14902 1048332001764 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 1048332001765 putative RNA binding site [nucleotide binding]; other site 1048332001766 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 1048332001767 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 1048332001768 active site 1048332001769 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 1048332001770 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1048332001771 active site 1048332001772 ATP binding site [chemical binding]; other site 1048332001773 substrate binding site [chemical binding]; other site 1048332001774 activation loop (A-loop); other site 1048332001775 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 1048332001776 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 1048332001777 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 1048332001778 Voltage-dependent potassium channel; Provisional; Region: PLN03192 1048332001779 Ion channel; Region: Ion_trans_2; cl11596 1048332001780 Predicted membrane protein [Function unknown]; Region: COG4758 1048332001781 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1048332001782 Histidine kinase; Region: HisKA_3; pfam07730 1048332001783 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 1048332001784 ATP binding site [chemical binding]; other site 1048332001785 Mg2+ binding site [ion binding]; other site 1048332001786 G-X-G motif; other site 1048332001787 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1048332001788 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 1048332001789 active site 1048332001790 phosphorylation site [posttranslational modification] 1048332001791 intermolecular recognition site; other site 1048332001792 dimerization interface [polypeptide binding]; other site 1048332001793 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 1048332001794 DNA binding residues [nucleotide binding] 1048332001795 dimerization interface [polypeptide binding]; other site 1048332001796 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1048332001797 RimM N-terminal domain; Region: RimM; pfam01782 1048332001798 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 1048332001799 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 1048332001800 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 1048332001801 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1048332001802 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1048332001803 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1048332001804 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1048332001805 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332001806 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 1048332001807 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1048332001808 carbohydrate binding site [chemical binding]; other site 1048332001809 pullulanase, type I; Region: pulA_typeI; TIGR02104 1048332001810 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 1048332001811 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 1048332001812 Ca binding site [ion binding]; other site 1048332001813 active site 1048332001814 catalytic site [active] 1048332001815 glycogen branching enzyme; Provisional; Region: PRK12313 1048332001816 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 1048332001817 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 1048332001818 active site 1048332001819 catalytic site [active] 1048332001820 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 1048332001821 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 1048332001822 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 1048332001823 ligand binding site; other site 1048332001824 oligomer interface; other site 1048332001825 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1048332001826 dimer interface [polypeptide binding]; other site 1048332001827 N-terminal domain interface [polypeptide binding]; other site 1048332001828 sulfate 1 binding site; other site 1048332001829 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 1048332001830 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 1048332001831 active site 1048332001832 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 1048332001833 dimer interface [polypeptide binding]; other site 1048332001834 N-terminal domain interface [polypeptide binding]; other site 1048332001835 sulfate 1 binding site; other site 1048332001836 glycogen synthase; Provisional; Region: glgA; PRK00654 1048332001837 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 1048332001838 ADP-binding pocket [chemical binding]; other site 1048332001839 homodimer interface [polypeptide binding]; other site 1048332001840 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 1048332001841 homodimer interface [polypeptide binding]; other site 1048332001842 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1048332001843 active site pocket [active] 1048332001844 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1048332001845 Protein of unknown function (DUF1310); Region: DUF1310; pfam07006 1048332001846 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 1048332001847 bifunctional glutamate--cysteine ligase/glutathione synthetase; Provisional; Region: PRK02471 1048332001848 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl15791 1048332001849 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1048332001850 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048332001851 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332001852 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332001853 Walker A/P-loop; other site 1048332001854 ATP binding site [chemical binding]; other site 1048332001855 Q-loop/lid; other site 1048332001856 ABC transporter signature motif; other site 1048332001857 Walker B; other site 1048332001858 D-loop; other site 1048332001859 H-loop/switch region; other site 1048332001860 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048332001861 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332001862 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 1048332001863 Walker A/P-loop; other site 1048332001864 ATP binding site [chemical binding]; other site 1048332001865 Q-loop/lid; other site 1048332001866 ABC transporter signature motif; other site 1048332001867 Walker B; other site 1048332001868 D-loop; other site 1048332001869 H-loop/switch region; other site 1048332001870 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1048332001871 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 1048332001872 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 1048332001873 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1048332001874 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001875 T surface-antigen of pili; Region: FctA; pfam12892 1048332001876 T surface-antigen of pili; Region: FctA; pfam12892 1048332001877 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001878 T surface-antigen of pili; Region: FctA; pfam12892 1048332001879 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001880 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001881 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001882 T surface-antigen of pili; Region: FctA; pfam12892 1048332001883 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001884 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001885 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001886 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1048332001887 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001888 T surface-antigen of pili; Region: FctA; pfam12892 1048332001889 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001890 T surface-antigen of pili; Region: FctA; pfam12892 1048332001891 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001892 T surface-antigen of pili; Region: FctA; pfam12892 1048332001893 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001894 T surface-antigen of pili; Region: FctA; pfam12892 1048332001895 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001896 T surface-antigen of pili; Region: FctA; pfam12892 1048332001897 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001898 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001899 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001900 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001901 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001902 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001903 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001904 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001905 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332001906 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1048332001907 DNA translocase FtsK; Provisional; Region: PRK10263 1048332001908 G5 domain; Region: G5; pfam07501 1048332001909 G5 domain; Region: G5; pfam07501 1048332001910 M26 IgA1-specific Metallo-endopeptidase N-terminal region; Region: Peptidase_M26_N; pfam05342 1048332001911 M26 IgA1-specific Metallo-endopeptidase C-terminal region; Region: Peptidase_M26_C; pfam07580 1048332001912 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1048332001913 MucBP domain; Region: MucBP; pfam06458 1048332001914 Cell-wall surface anchor repeat; Region: C-term_anchor; pfam13461 1048332001915 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 1048332001916 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 1048332001917 active site 1048332001918 metal binding site [ion binding]; metal-binding site 1048332001919 DNA binding site [nucleotide binding] 1048332001920 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 1048332001921 exonuclease SbcC; Region: sbcc; TIGR00618 1048332001922 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 1048332001923 Walker A/P-loop; other site 1048332001924 ATP binding site [chemical binding]; other site 1048332001925 Q-loop/lid; other site 1048332001926 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 1048332001927 ABC transporter signature motif; other site 1048332001928 Walker B; other site 1048332001929 D-loop; other site 1048332001930 H-loop/switch region; other site 1048332001931 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 1048332001932 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1048332001933 trimer interface [polypeptide binding]; other site 1048332001934 active site 1048332001935 substrate binding site [chemical binding]; other site 1048332001936 CoA binding site [chemical binding]; other site 1048332001937 putative glycosyl transferase; Provisional; Region: PRK10073 1048332001938 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 1048332001939 active site 1048332001940 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 1048332001941 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1048332001942 Ligand binding site; other site 1048332001943 metal-binding site 1048332001944 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 1048332001945 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 1048332001946 trimer interface [polypeptide binding]; other site 1048332001947 active site 1048332001948 substrate binding site [chemical binding]; other site 1048332001949 CoA binding site [chemical binding]; other site 1048332001950 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 1048332001951 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1048332001952 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 1048332001953 Ligand binding site; other site 1048332001954 metal-binding site 1048332001955 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 1048332001956 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 1048332001957 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 1048332001958 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 1048332001959 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 1048332001960 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 1048332001961 BOP1NT (NUC169) domain; Region: BOP1NT; cl10694 1048332001962 beta-1,6-galactofuranosyltransferase; Provisional; Region: PRK09814 1048332001963 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 1048332001964 Lipopolysaccharide biosynthesis proteins, LPS:glycosyltransferases [Cell envelope biogenesis, outer membrane]; Region: RfaJ; COG1442 1048332001965 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 1048332001966 Ligand binding site; other site 1048332001967 metal-binding site 1048332001968 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 1048332001969 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 1048332001970 active site 1048332001971 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 1048332001972 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1048332001973 Ligand binding site; other site 1048332001974 metal-binding site 1048332001975 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 1048332001976 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 1048332001977 Domain of unknown function (DUF1792); Region: DUF1792; cl07392 1048332001978 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 1048332001979 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 1048332001980 Ligand binding site; other site 1048332001981 metal-binding site 1048332001982 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 1048332001983 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK12417 1048332001984 SecY translocase; Region: SecY; pfam00344 1048332001985 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 1048332001986 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 1048332001987 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 1048332001988 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 1048332001989 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 1048332001990 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332001991 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 1048332001992 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 1048332001993 nucleotide binding region [chemical binding]; other site 1048332001994 ATP-binding site [chemical binding]; other site 1048332001995 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1048332001996 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1048332001997 legume lectins; Region: lectin_L-type; cl14058 1048332001998 homotetramer interaction site [polypeptide binding]; other site 1048332001999 carbohydrate binding site [chemical binding]; other site 1048332002000 metal binding site [ion binding]; metal-binding site 1048332002001 Rib/alpha-like repeat; Region: Rib; cl07159 1048332002002 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1048332002003 legume lectins; Region: lectin_L-type; cl14058 1048332002004 homotetramer interaction site [polypeptide binding]; other site 1048332002005 carbohydrate binding site [chemical binding]; other site 1048332002006 metal binding site [ion binding]; metal-binding site 1048332002007 Rib/alpha-like repeat; Region: Rib; cl07159 1048332002008 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1048332002009 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1048332002010 putative active site [active] 1048332002011 Glycosyl hydrolase family 70; Region: Glyco_hydro_70; pfam02324 1048332002012 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1048332002013 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002014 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002015 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002016 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002017 MucBP domain; Region: MucBP; pfam06458 1048332002018 MucBP domain; Region: MucBP; pfam06458 1048332002019 MucBP domain; Region: MucBP; pfam06458 1048332002020 maltose O-acetyltransferase; Provisional; Region: PRK10092 1048332002021 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 1048332002022 active site 1048332002023 substrate binding site [chemical binding]; other site 1048332002024 trimer interface [polypeptide binding]; other site 1048332002025 CoA binding site [chemical binding]; other site 1048332002026 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1048332002027 Helix-turn-helix domains; Region: HTH; cl00088 1048332002028 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 1048332002029 putative substrate translocation pore; other site 1048332002030 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 1048332002031 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002032 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002033 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002034 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002035 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002036 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002037 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002038 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002039 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002040 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002041 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002042 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002043 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002044 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002045 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002046 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002047 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002048 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002049 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1048332002050 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002051 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002052 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002053 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002054 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002055 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002056 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002057 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002058 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 1048332002059 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 1048332002060 active site 1048332002061 multimer interface [polypeptide binding]; other site 1048332002062 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 1048332002063 predicted active site [active] 1048332002064 catalytic triad [active] 1048332002065 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002066 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002067 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002068 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002069 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002070 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002071 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002072 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002073 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002074 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002075 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002076 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002077 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002078 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002079 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002080 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002081 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002082 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002083 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002084 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002085 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002086 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002087 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002088 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002089 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002090 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002091 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1048332002092 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002093 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002094 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1048332002095 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002096 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002097 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002098 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002099 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002100 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002101 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002102 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002103 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002104 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002105 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002106 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002107 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002108 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002109 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002110 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002111 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002112 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002113 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002114 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002115 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002116 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002117 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002118 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002119 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002120 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002121 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002122 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002123 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002124 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002125 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002126 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1048332002127 superantigen-like protein; Reviewed; Region: PRK13042 1048332002128 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002129 Glycosyl hydrolase family 70; Region: Glyco_hydro_70; pfam02324 1048332002130 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1048332002131 active site 1048332002132 catalytic site [active] 1048332002133 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1048332002134 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002135 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002136 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002137 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002138 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002139 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002140 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1048332002141 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1048332002142 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1048332002143 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 1048332002144 Helix-turn-helix domains; Region: HTH; cl00088 1048332002145 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1048332002146 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1048332002147 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 1048332002148 dimer interface [polypeptide binding]; other site 1048332002149 phosphorylation site [posttranslational modification] 1048332002150 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 1048332002151 ATP binding site [chemical binding]; other site 1048332002152 Mg2+ binding site [ion binding]; other site 1048332002153 G-X-G motif; other site 1048332002154 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1048332002155 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 1048332002156 active site 1048332002157 phosphorylation site [posttranslational modification] 1048332002158 intermolecular recognition site; other site 1048332002159 dimerization interface [polypeptide binding]; other site 1048332002160 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 1048332002161 DNA binding site [nucleotide binding] 1048332002162 Type-A lantibiotic; Region: L_biotic_typeA; pfam04604 1048332002163 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 1048332002164 LanM-like proteins. LanM is a bifunctional enzyme, involved in the synthesis of class II lantibiotics. It is responsible for both the dehydration and the cyclization of the precursor-peptide during lantibiotic synthesis. The C-terminal domain shows...; Region: LanM-like; cd04792 1048332002165 active site 1048332002166 zinc binding site [ion binding]; other site 1048332002167 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 1048332002168 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_C39F; cd02425 1048332002169 putative active site [active] 1048332002170 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332002171 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332002172 Walker A/P-loop; other site 1048332002173 ATP binding site [chemical binding]; other site 1048332002174 Q-loop/lid; other site 1048332002175 ABC transporter signature motif; other site 1048332002176 Walker B; other site 1048332002177 D-loop; other site 1048332002178 H-loop/switch region; other site 1048332002179 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 1048332002180 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1048332002181 Walker A/P-loop; other site 1048332002182 ATP binding site [chemical binding]; other site 1048332002183 Q-loop/lid; other site 1048332002184 ABC transporter signature motif; other site 1048332002185 Walker B; other site 1048332002186 D-loop; other site 1048332002187 H-loop/switch region; other site 1048332002188 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1048332002189 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002190 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002191 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002192 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002193 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002194 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002195 Transposase domain (DUF772); Region: DUF772; cl15789 1048332002196 Transposase domain (DUF772); Region: DUF772; cl15789 1048332002197 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 1048332002198 non-specific DNA binding site [nucleotide binding]; other site 1048332002199 salt bridge; other site 1048332002200 sequence-specific DNA binding site [nucleotide binding]; other site 1048332002201 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1048332002202 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 1048332002203 FeS/SAM binding site; other site 1048332002204 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1048332002205 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 1048332002206 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 1048332002207 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1048332002208 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002209 Glycosyl hydrolase family 70; Region: Glyco_hydro_70; pfam02324 1048332002210 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1048332002211 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1048332002212 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002213 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002214 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002215 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002216 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002217 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002218 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002219 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 1048332002220 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 1048332002221 dimerization interface [polypeptide binding]; other site 1048332002222 putative DNA binding site [nucleotide binding]; other site 1048332002223 putative Zn2+ binding site [ion binding]; other site 1048332002224 Predicted integral membrane protein [Function unknown]; Region: COG5658 1048332002225 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 1048332002226 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1048332002227 putative dimer interface [polypeptide binding]; other site 1048332002228 catalytic triad [active] 1048332002229 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1048332002230 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1048332002231 active site 1048332002232 Zn binding site [ion binding]; other site 1048332002233 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002234 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002235 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002236 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002237 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002238 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002239 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002240 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002241 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002242 Uncharacterized conserved protein [Function unknown]; Region: COG2966 1048332002243 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 1048332002244 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 1048332002245 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 1048332002246 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 1048332002247 DAK2 domain; Region: Dak2; cl03685 1048332002248 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 1048332002249 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1048332002250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332002251 NAD(P) binding pocket [chemical binding]; other site 1048332002252 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 1048332002253 potential frameshift: common BLAST hit: gi|125718488|ref|YP_001035621.1| NADH-binding ferric-oxidoreductase 1048332002254 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1048332002255 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 1048332002256 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 1048332002257 FAD binding pocket [chemical binding]; other site 1048332002258 conserved FAD binding motif [chemical binding]; other site 1048332002259 phosphate binding motif [ion binding]; other site 1048332002260 beta-alpha-beta structure motif; other site 1048332002261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 1048332002262 hypothetical protein; Provisional; Region: PRK13663 1048332002263 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1048332002264 FtsX-like permease family; Region: FtsX; cl15850 1048332002265 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048332002266 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 1048332002267 Walker A/P-loop; other site 1048332002268 ATP binding site [chemical binding]; other site 1048332002269 Q-loop/lid; other site 1048332002270 ABC transporter signature motif; other site 1048332002271 Walker B; other site 1048332002272 D-loop; other site 1048332002273 H-loop/switch region; other site 1048332002274 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1048332002275 FtsX-like permease family; Region: FtsX; cl15850 1048332002276 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1048332002277 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 1048332002278 active site 1048332002279 phosphorylation site [posttranslational modification] 1048332002280 intermolecular recognition site; other site 1048332002281 dimerization interface [polypeptide binding]; other site 1048332002282 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 1048332002283 DNA binding site [nucleotide binding] 1048332002284 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 1048332002285 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 1048332002286 dimer interface [polypeptide binding]; other site 1048332002287 phosphorylation site [posttranslational modification] 1048332002288 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 1048332002289 putative transposase OrfB; Reviewed; Region: PHA02517 1048332002290 HTH-like domain; Region: HTH_21; pfam13276 1048332002291 Integrase core domain; Region: rve; cl01316 1048332002292 Integrase core domain; Region: rve_3; cl15866 1048332002293 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1048332002294 Helix-turn-helix domains; Region: HTH; cl00088 1048332002295 Helix-turn-helix domains; Region: HTH; cl00088 1048332002296 Helix-turn-helix domains; Region: HTH; cl00088 1048332002297 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1048332002298 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1048332002299 Ca binding site [ion binding]; other site 1048332002300 active site 1048332002301 catalytic site [active] 1048332002302 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1048332002303 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1048332002304 DNA binding site [nucleotide binding] 1048332002305 domain linker motif; other site 1048332002306 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 1048332002307 putative dimerization interface [polypeptide binding]; other site 1048332002308 putative ligand binding site [chemical binding]; other site 1048332002309 galactokinase; Provisional; Region: PRK05322 1048332002310 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 1048332002311 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1048332002312 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1048332002313 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK05270 1048332002314 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 1048332002315 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 1048332002316 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1048332002317 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1048332002318 NAD binding site [chemical binding]; other site 1048332002319 homodimer interface [polypeptide binding]; other site 1048332002320 active site 1048332002321 substrate binding site [chemical binding]; other site 1048332002322 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 1048332002323 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1048332002324 active site 1048332002325 catalytic residues [active] 1048332002326 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 1048332002327 sugar (Glycoside-Pentoside-Hexuronide) transporter; Region: gph; TIGR00792 1048332002328 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 1048332002329 HPr interaction site; other site 1048332002330 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1048332002331 active site 1048332002332 phosphorylation site [posttranslational modification] 1048332002333 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 1048332002334 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; cl08371 1048332002335 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 1048332002336 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 1048332002337 Beta galactosidase small chain; Region: Bgal_small_N; cl03787 1048332002338 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 1048332002339 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1048332002340 active site 1048332002341 catalytic tetrad [active] 1048332002342 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 1048332002343 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 1048332002344 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 1048332002345 dimer interface [polypeptide binding]; other site 1048332002346 FMN binding site [chemical binding]; other site 1048332002347 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1048332002348 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 1048332002349 Predicted transcriptional regulator [Transcription]; Region: COG1959 1048332002350 Helix-turn-helix domains; Region: HTH; cl00088 1048332002351 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1048332002352 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 1048332002353 putative metal binding site [ion binding]; other site 1048332002354 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 1048332002355 active site 1048332002356 metal binding site [ion binding]; metal-binding site 1048332002357 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 1048332002358 dimer interface [polypeptide binding]; other site 1048332002359 FMN binding site [chemical binding]; other site 1048332002360 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 1048332002361 non-specific DNA binding site [nucleotide binding]; other site 1048332002362 salt bridge; other site 1048332002363 sequence-specific DNA binding site [nucleotide binding]; other site 1048332002364 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 1048332002365 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 1048332002366 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1048332002367 active site 1048332002368 catalytic tetrad [active] 1048332002369 Helix-turn-helix domains; Region: HTH; cl00088 1048332002370 WHG domain; Region: WHG; pfam13305 1048332002371 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048332002372 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 1048332002373 Walker A/P-loop; other site 1048332002374 ATP binding site [chemical binding]; other site 1048332002375 Q-loop/lid; other site 1048332002376 ABC transporter signature motif; other site 1048332002377 Walker B; other site 1048332002378 D-loop; other site 1048332002379 H-loop/switch region; other site 1048332002380 PQ loop repeat; Region: PQ-loop; cl12056 1048332002381 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 1048332002382 catalytic residues [active] 1048332002383 dimer interface [polypeptide binding]; other site 1048332002384 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 1048332002385 The URO-D _like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases. Uroporphyrinogen decarboxylase (URO-D) decarboxylates the four...; Region: URO-D_like; cd03465 1048332002386 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1048332002387 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 1048332002388 substrate binding pocket [chemical binding]; other site 1048332002389 membrane-bound complex binding site; other site 1048332002390 hinge residues; other site 1048332002391 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 1048332002392 dimer interface [polypeptide binding]; other site 1048332002393 conserved gate region; other site 1048332002394 putative PBP binding loops; other site 1048332002395 ABC-ATPase subunit interface; other site 1048332002396 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1048332002397 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 1048332002398 dimer interface [polypeptide binding]; other site 1048332002399 conserved gate region; other site 1048332002400 putative PBP binding loops; other site 1048332002401 ABC-ATPase subunit interface; other site 1048332002402 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1048332002403 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 1048332002404 Walker A/P-loop; other site 1048332002405 ATP binding site [chemical binding]; other site 1048332002406 Q-loop/lid; other site 1048332002407 ABC transporter signature motif; other site 1048332002408 Walker B; other site 1048332002409 D-loop; other site 1048332002410 H-loop/switch region; other site 1048332002411 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1048332002412 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002413 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002414 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002415 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002416 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002417 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002418 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002419 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1048332002420 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002421 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002422 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002423 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002424 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002425 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002426 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002427 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002428 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002429 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332002430 amino acid transporter; Region: 2A0306; TIGR00909 1048332002431 Spore germination protein; Region: Spore_permease; cl15802 1048332002432 Spore germination protein; Region: Spore_permease; cl15802 1048332002433 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 1048332002434 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 1048332002435 CsbD-like; Region: CsbD; cl15799 1048332002436 Protein of unknown function (DUF421); Region: DUF421; cl00990 1048332002437 Protein of unknown function (DUF3290); Region: DUF3290; pfam11694 1048332002438 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1048332002439 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 1048332002440 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 1048332002441 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 1048332002442 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 1048332002443 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 1048332002444 multidrug efflux protein; Reviewed; Region: PRK01766 1048332002445 MatE; Region: MatE; cl10513 1048332002446 MatE; Region: MatE; cl10513 1048332002447 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1048332002448 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 1048332002449 non-specific DNA binding site [nucleotide binding]; other site 1048332002450 salt bridge; other site 1048332002451 sequence-specific DNA binding site [nucleotide binding]; other site 1048332002452 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048332002453 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 1048332002454 Walker A/P-loop; other site 1048332002455 ATP binding site [chemical binding]; other site 1048332002456 Q-loop/lid; other site 1048332002457 ABC transporter signature motif; other site 1048332002458 Walker B; other site 1048332002459 D-loop; other site 1048332002460 H-loop/switch region; other site 1048332002461 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1048332002462 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1048332002463 xanthine permease; Region: pbuX; TIGR03173 1048332002464 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 1048332002465 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048332002466 active site 1048332002467 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1048332002468 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 1048332002469 active site 1048332002470 phosphorylation site [posttranslational modification] 1048332002471 intermolecular recognition site; other site 1048332002472 dimerization interface [polypeptide binding]; other site 1048332002473 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 1048332002474 DNA binding site [nucleotide binding] 1048332002475 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1048332002476 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 1048332002477 ATP binding site [chemical binding]; other site 1048332002478 Mg2+ binding site [ion binding]; other site 1048332002479 G-X-G motif; other site 1048332002480 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048332002481 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 1048332002482 Walker A/P-loop; other site 1048332002483 ATP binding site [chemical binding]; other site 1048332002484 Q-loop/lid; other site 1048332002485 ABC transporter signature motif; other site 1048332002486 Walker B; other site 1048332002487 D-loop; other site 1048332002488 H-loop/switch region; other site 1048332002489 FtsX-like permease family; Region: FtsX; cl15850 1048332002490 Flagellin N-methylase; Region: FliB; cl00497 1048332002491 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1048332002492 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 1048332002493 Walker A/P-loop; other site 1048332002494 ATP binding site [chemical binding]; other site 1048332002495 Q-loop/lid; other site 1048332002496 ABC transporter signature motif; other site 1048332002497 Walker B; other site 1048332002498 D-loop; other site 1048332002499 H-loop/switch region; other site 1048332002500 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 1048332002501 active site 1048332002502 catalytic motif [active] 1048332002503 Zn binding site [ion binding]; other site 1048332002504 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1048332002505 Membrane transport protein; Region: Mem_trans; cl09117 1048332002506 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1048332002507 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 1048332002508 Walker A/P-loop; other site 1048332002509 ATP binding site [chemical binding]; other site 1048332002510 Q-loop/lid; other site 1048332002511 ABC transporter signature motif; other site 1048332002512 Walker B; other site 1048332002513 D-loop; other site 1048332002514 H-loop/switch region; other site 1048332002515 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1048332002516 Histidine kinase; Region: HisKA_3; pfam07730 1048332002517 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 1048332002518 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1048332002519 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 1048332002520 active site 1048332002521 phosphorylation site [posttranslational modification] 1048332002522 intermolecular recognition site; other site 1048332002523 dimerization interface [polypeptide binding]; other site 1048332002524 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 1048332002525 DNA binding residues [nucleotide binding] 1048332002526 dimerization interface [polypeptide binding]; other site 1048332002527 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1048332002528 Helix-turn-helix domains; Region: HTH; cl00088 1048332002529 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1048332002530 EamA-like transporter family; Region: EamA; cl01037 1048332002531 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 1048332002532 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 1048332002533 Cadherin-like beta sandwich domain; Region: Cadherin-like; pfam12733 1048332002534 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 1048332002535 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1048332002536 substrate binding [chemical binding]; other site 1048332002537 active site 1048332002538 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1048332002539 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 1048332002540 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl00102 1048332002541 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332002542 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 1048332002543 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 1048332002544 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 1048332002545 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1048332002546 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 1048332002547 putative L-serine binding site [chemical binding]; other site 1048332002548 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 1048332002549 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 1048332002550 motif II; other site 1048332002551 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1048332002552 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1048332002553 GIY-YIG motif/motif A; other site 1048332002554 active site 1048332002555 catalytic site [active] 1048332002556 putative DNA binding site [nucleotide binding]; other site 1048332002557 metal binding site [ion binding]; metal-binding site 1048332002558 UvrB/uvrC motif; Region: UVR; pfam02151 1048332002559 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1048332002560 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1048332002561 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 1048332002562 putative active site [active] 1048332002563 catalytic site [active] 1048332002564 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 1048332002565 putative active site [active] 1048332002566 catalytic site [active] 1048332002567 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1048332002568 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048332002569 Coenzyme A binding pocket [chemical binding]; other site 1048332002570 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 1048332002571 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 1048332002572 Putative catalytic domain, repeat 1, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_1; cd09154 1048332002573 putative active site [active] 1048332002574 catalytic site [active] 1048332002575 Putative catalytic domain, repeat 2, of Streptococcus mutans uncharacterized protein SMU_988 and similar proteins; Region: PLDc_SMU_988_like_2; cd09160 1048332002576 putative active site [active] 1048332002577 catalytic site [active] 1048332002578 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 1048332002579 A new structural DNA glycosylase containing HEAT-like repeats; Region: AlkD_like_1; cd07064 1048332002580 active site 1048332002581 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1048332002582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332002583 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 1048332002584 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1048332002585 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1048332002586 dimer interface [polypeptide binding]; other site 1048332002587 active site 1048332002588 catalytic residue [active] 1048332002589 ribonuclease III; Reviewed; Region: rnc; PRK00102 1048332002590 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 1048332002591 dimerization interface [polypeptide binding]; other site 1048332002592 active site 1048332002593 metal binding site [ion binding]; metal-binding site 1048332002594 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 1048332002595 dsRNA binding site [nucleotide binding]; other site 1048332002596 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 1048332002597 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 1048332002598 Walker A/P-loop; other site 1048332002599 ATP binding site [chemical binding]; other site 1048332002600 Q-loop/lid; other site 1048332002601 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 1048332002602 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 1048332002603 ABC transporter signature motif; other site 1048332002604 Walker B; other site 1048332002605 D-loop; other site 1048332002606 H-loop/switch region; other site 1048332002607 Protein of unknown function (DUF3278); Region: DUF3278; pfam11683 1048332002608 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 1048332002609 non-specific DNA binding site [nucleotide binding]; other site 1048332002610 salt bridge; other site 1048332002611 sequence-specific DNA binding site [nucleotide binding]; other site 1048332002612 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1048332002613 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1048332002614 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 1048332002615 dimer interface [polypeptide binding]; other site 1048332002616 motif 1; other site 1048332002617 active site 1048332002618 motif 2; other site 1048332002619 motif 3; other site 1048332002620 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1048332002621 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048332002622 Coenzyme A binding pocket [chemical binding]; other site 1048332002623 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1048332002624 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 1048332002625 putative tRNA-binding site [nucleotide binding]; other site 1048332002626 B3/4 domain; Region: B3_4; cl11458 1048332002627 tRNA synthetase B5 domain; Region: B5; cl08394 1048332002628 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 1048332002629 dimer interface [polypeptide binding]; other site 1048332002630 motif 1; other site 1048332002631 motif 3; other site 1048332002632 motif 2; other site 1048332002633 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 1048332002634 ATP cone domain; Region: ATP-cone; pfam03477 1048332002635 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 1048332002636 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1048332002637 DNA-binding site [nucleotide binding]; DNA binding site 1048332002638 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 1048332002639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332002640 homodimer interface [polypeptide binding]; other site 1048332002641 catalytic residue [active] 1048332002642 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1048332002643 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 1048332002644 dimer interface [polypeptide binding]; other site 1048332002645 pyridoxal binding site [chemical binding]; other site 1048332002646 ATP binding site [chemical binding]; other site 1048332002647 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1048332002648 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1048332002649 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 1048332002650 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 1048332002651 ABC transporter; Region: ABC_tran_2; pfam12848 1048332002652 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 1048332002653 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 1048332002654 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1048332002655 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1048332002656 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 1048332002657 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1048332002658 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1048332002659 NAD binding site [chemical binding]; other site 1048332002660 dimer interface [polypeptide binding]; other site 1048332002661 substrate binding site [chemical binding]; other site 1048332002662 DNA gyrase subunit A; Validated; Region: PRK05560 1048332002663 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 1048332002664 CAP-like domain; other site 1048332002665 active site 1048332002666 primary dimer interface [polypeptide binding]; other site 1048332002667 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048332002668 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048332002669 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048332002670 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048332002671 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048332002672 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048332002673 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 1048332002674 active site 1048332002675 catalytic site [active] 1048332002676 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 1048332002677 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1048332002678 putative metal binding site [ion binding]; other site 1048332002679 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 1048332002680 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1048332002681 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 1048332002682 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 1048332002683 ApbE family; Region: ApbE; cl00643 1048332002684 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 1048332002685 DHH family; Region: DHH; pfam01368 1048332002686 DHHA1 domain; Region: DHHA1; pfam02272 1048332002687 putative S-transferase; Provisional; Region: PRK11752 1048332002688 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 1048332002689 C-terminal domain interface [polypeptide binding]; other site 1048332002690 GSH binding site (G-site) [chemical binding]; other site 1048332002691 dimer interface [polypeptide binding]; other site 1048332002692 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 1048332002693 dimer interface [polypeptide binding]; other site 1048332002694 N-terminal domain interface [polypeptide binding]; other site 1048332002695 active site 1048332002696 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1048332002697 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 1048332002698 active site 1048332002699 thymidine kinase; Provisional; Region: PRK04296 1048332002700 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1048332002701 RF-1 domain; Region: RF-1; cl02875 1048332002702 RF-1 domain; Region: RF-1; cl02875 1048332002703 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1048332002704 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 1048332002705 S-adenosylmethionine binding site [chemical binding]; other site 1048332002706 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1048332002707 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1048332002708 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048332002709 Coenzyme A binding pocket [chemical binding]; other site 1048332002710 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1048332002711 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 1048332002712 dimer interface [polypeptide binding]; other site 1048332002713 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1048332002714 active site 1048332002715 folate binding site [chemical binding]; other site 1048332002716 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 1048332002717 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 1048332002718 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048332002719 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332002720 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332002721 Walker A/P-loop; other site 1048332002722 ATP binding site [chemical binding]; other site 1048332002723 Q-loop/lid; other site 1048332002724 ABC transporter signature motif; other site 1048332002725 Walker B; other site 1048332002726 D-loop; other site 1048332002727 H-loop/switch region; other site 1048332002728 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048332002729 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332002730 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 1048332002731 Walker A/P-loop; other site 1048332002732 ATP binding site [chemical binding]; other site 1048332002733 Q-loop/lid; other site 1048332002734 ABC transporter signature motif; other site 1048332002735 Walker B; other site 1048332002736 D-loop; other site 1048332002737 H-loop/switch region; other site 1048332002738 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 1048332002739 AMP-binding enzyme; Region: AMP-binding; cl15778 1048332002740 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 1048332002741 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1048332002742 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 1048332002743 DltD N-terminal region; Region: DltD_N; pfam04915 1048332002744 DltD central region; Region: DltD_M; pfam04918 1048332002745 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 1048332002746 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1048332002747 plasma-membrane calcium-translocating P-type ATPase; Region: ATPase-IIB_Ca; TIGR01517 1048332002748 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1048332002749 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1048332002750 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332002751 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1048332002752 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1048332002753 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1048332002754 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 1048332002755 substrate-cofactor binding pocket; other site 1048332002756 homodimer interface [polypeptide binding]; other site 1048332002757 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332002758 catalytic residue [active] 1048332002759 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 1048332002760 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 1048332002761 THF binding site; other site 1048332002762 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 1048332002763 substrate binding site [chemical binding]; other site 1048332002764 THF binding site; other site 1048332002765 zinc-binding site [ion binding]; other site 1048332002766 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 1048332002767 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 1048332002768 FAD binding site [chemical binding]; other site 1048332002769 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 1048332002770 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 1048332002771 active site 1048332002772 substrate binding site [chemical binding]; other site 1048332002773 metal binding site [ion binding]; metal-binding site 1048332002774 Predicted membrane protein [Function unknown]; Region: COG4684 1048332002775 Predicted membrane protein [Function unknown]; Region: COG4684 1048332002776 phosphopantothenoylcysteine decarboxylase; Validated; Region: PRK07313 1048332002777 Flavoprotein; Region: Flavoprotein; cl08021 1048332002778 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 1048332002779 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 1048332002780 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 1048332002781 Potassium binding sites [ion binding]; other site 1048332002782 Cesium cation binding sites [ion binding]; other site 1048332002783 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1048332002784 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 1048332002785 active site 1048332002786 phosphorylation site [posttranslational modification] 1048332002787 intermolecular recognition site; other site 1048332002788 dimerization interface [polypeptide binding]; other site 1048332002789 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 1048332002790 DNA binding site [nucleotide binding] 1048332002791 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 1048332002792 dimer interface [polypeptide binding]; other site 1048332002793 phosphorylation site [posttranslational modification] 1048332002794 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 1048332002795 ATP binding site [chemical binding]; other site 1048332002796 Mg2+ binding site [ion binding]; other site 1048332002797 G-X-G motif; other site 1048332002798 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 1048332002799 pantothenate kinase; Provisional; Region: PRK05439 1048332002800 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 1048332002801 ATP-binding site [chemical binding]; other site 1048332002802 CoA-binding site [chemical binding]; other site 1048332002803 Mg2+-binding site [ion binding]; other site 1048332002804 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1048332002805 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 1048332002806 S-adenosylmethionine binding site [chemical binding]; other site 1048332002807 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 1048332002808 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1048332002809 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1048332002810 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 1048332002811 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1048332002812 intersubunit interface [polypeptide binding]; other site 1048332002813 active site 1048332002814 catalytic residue [active] 1048332002815 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 1048332002816 active site 1048332002817 catalytic motif [active] 1048332002818 Zn binding site [ion binding]; other site 1048332002819 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 1048332002820 ligand binding site [chemical binding]; other site 1048332002821 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1048332002822 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 1048332002823 Walker A/P-loop; other site 1048332002824 ATP binding site [chemical binding]; other site 1048332002825 Q-loop/lid; other site 1048332002826 ABC transporter signature motif; other site 1048332002827 Walker B; other site 1048332002828 D-loop; other site 1048332002829 H-loop/switch region; other site 1048332002830 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 1048332002831 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 1048332002832 TM-ABC transporter signature motif; other site 1048332002833 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 1048332002834 TM-ABC transporter signature motif; other site 1048332002835 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1048332002836 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated; Region: PRK07246 1048332002837 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1048332002838 active site 1048332002839 substrate binding site [chemical binding]; other site 1048332002840 catalytic site [active] 1048332002841 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332002842 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332002843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5353 1048332002844 aspartate aminotransferase; Provisional; Region: PRK05764 1048332002845 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 1048332002846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332002847 homodimer interface [polypeptide binding]; other site 1048332002848 catalytic residue [active] 1048332002849 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1048332002850 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 1048332002851 putative dimer interface [polypeptide binding]; other site 1048332002852 putative anticodon binding site; other site 1048332002853 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 1048332002854 homodimer interface [polypeptide binding]; other site 1048332002855 motif 1; other site 1048332002856 motif 2; other site 1048332002857 active site 1048332002858 motif 3; other site 1048332002859 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 1048332002860 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1048332002861 putative substrate translocation pore; other site 1048332002862 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 1048332002863 homotrimer interaction site [polypeptide binding]; other site 1048332002864 putative active site [active] 1048332002865 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 1048332002866 Ligand Binding Site [chemical binding]; other site 1048332002867 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 1048332002868 active site 1048332002869 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 1048332002870 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 1048332002871 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 1048332002872 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 1048332002873 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 1048332002874 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 1048332002875 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 1048332002876 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 1048332002877 dimer interface [polypeptide binding]; other site 1048332002878 phosphate binding site [ion binding]; other site 1048332002879 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 1048332002880 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 1048332002881 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 1048332002882 Peptidase family C69; Region: Peptidase_C69; pfam03577 1048332002883 Protease prsW family; Region: PrsW-protease; cl15823 1048332002884 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 1048332002885 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1048332002886 metal binding site [ion binding]; metal-binding site 1048332002887 YodA lipocalin-like domain; Region: YodA; cl01365 1048332002888 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 1048332002889 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 1048332002890 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1048332002891 Helix-turn-helix domains; Region: HTH; cl00088 1048332002892 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 1048332002893 dimerization interface [polypeptide binding]; other site 1048332002894 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1048332002895 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 1048332002896 glutaminase active site [active] 1048332002897 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 1048332002898 dimer interface [polypeptide binding]; other site 1048332002899 active site 1048332002900 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 1048332002901 dimer interface [polypeptide binding]; other site 1048332002902 active site 1048332002903 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1048332002904 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1048332002905 PhnA protein; Region: PhnA; pfam03831 1048332002906 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1048332002907 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 1048332002908 dimer interface [polypeptide binding]; other site 1048332002909 conserved gate region; other site 1048332002910 ABC-ATPase subunit interface; other site 1048332002911 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048332002912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332002913 Walker A/P-loop; other site 1048332002914 ATP binding site [chemical binding]; other site 1048332002915 Q-loop/lid; other site 1048332002916 ABC transporter signature motif; other site 1048332002917 Walker B; other site 1048332002918 D-loop; other site 1048332002919 H-loop/switch region; other site 1048332002920 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1048332002921 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 1048332002922 substrate binding pocket [chemical binding]; other site 1048332002923 membrane-bound complex binding site; other site 1048332002924 hinge residues; other site 1048332002925 DNA polymerase IV; Reviewed; Region: PRK03103 1048332002926 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 1048332002927 active site 1048332002928 DNA binding site [nucleotide binding] 1048332002929 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332002930 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332002931 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332002932 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1048332002933 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1048332002934 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332002935 Helix-turn-helix domains; Region: HTH; cl00088 1048332002936 Integrase core domain; Region: rve; cl01316 1048332002937 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1048332002938 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332002939 Walker A/P-loop; other site 1048332002940 ATP binding site [chemical binding]; other site 1048332002941 Q-loop/lid; other site 1048332002942 ABC transporter signature motif; other site 1048332002943 Walker B; other site 1048332002944 D-loop; other site 1048332002945 H-loop/switch region; other site 1048332002946 GMP synthase; Reviewed; Region: guaA; PRK00074 1048332002947 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1048332002948 AMP/PPi binding site [chemical binding]; other site 1048332002949 candidate oxyanion hole; other site 1048332002950 catalytic triad [active] 1048332002951 potential glutamine specificity residues [chemical binding]; other site 1048332002952 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 1048332002953 ATP Binding subdomain [chemical binding]; other site 1048332002954 Dimerization subdomain; other site 1048332002955 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1048332002956 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1048332002957 DNA-binding site [nucleotide binding]; DNA binding site 1048332002958 UTRA domain; Region: UTRA; cl01230 1048332002959 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 1048332002960 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 1048332002961 signal recognition particle protein; Provisional; Region: PRK10867 1048332002962 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 1048332002963 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 1048332002964 P loop; other site 1048332002965 GTP binding site [chemical binding]; other site 1048332002966 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1048332002967 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1048332002968 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 1048332002969 Helix-turn-helix domains; Region: HTH; cl00088 1048332002970 3H domain; Region: 3H; pfam02829 1048332002971 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1048332002972 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 1048332002973 non-specific DNA binding site [nucleotide binding]; other site 1048332002974 salt bridge; other site 1048332002975 sequence-specific DNA binding site [nucleotide binding]; other site 1048332002976 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 1048332002977 Catalytic site [active] 1048332002978 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 1048332002979 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 1048332002980 GTP/Mg2+ binding site [chemical binding]; other site 1048332002981 G4 box; other site 1048332002982 G5 box; other site 1048332002983 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332002984 G1 box; other site 1048332002985 G1 box; other site 1048332002986 GTP/Mg2+ binding site [chemical binding]; other site 1048332002987 Switch I region; other site 1048332002988 G2 box; other site 1048332002989 G2 box; other site 1048332002990 G3 box; other site 1048332002991 G3 box; other site 1048332002992 Switch II region; other site 1048332002993 Switch II region; other site 1048332002994 G5 box; other site 1048332002995 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1048332002996 RNA/DNA hybrid binding site [nucleotide binding]; other site 1048332002997 active site 1048332002998 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1048332002999 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 1048332003000 catalytic site [active] 1048332003001 metal binding site [ion binding]; metal-binding site 1048332003002 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1048332003003 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 1048332003004 DNA topoisomerase I; Validated; Region: PRK05582 1048332003005 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 1048332003006 active site 1048332003007 interdomain interaction site; other site 1048332003008 putative metal-binding site [ion binding]; other site 1048332003009 nucleotide binding site [chemical binding]; other site 1048332003010 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 1048332003011 domain I; other site 1048332003012 DNA binding groove [nucleotide binding] 1048332003013 phosphate binding site [ion binding]; other site 1048332003014 domain II; other site 1048332003015 domain III; other site 1048332003016 nucleotide binding site [chemical binding]; other site 1048332003017 catalytic site [active] 1048332003018 domain IV; other site 1048332003019 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1048332003020 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1048332003021 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 1048332003022 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1048332003023 Walker A/P-loop; other site 1048332003024 ATP binding site [chemical binding]; other site 1048332003025 Q-loop/lid; other site 1048332003026 ABC transporter signature motif; other site 1048332003027 Walker B; other site 1048332003028 D-loop; other site 1048332003029 H-loop/switch region; other site 1048332003030 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1048332003031 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1048332003032 TraX protein; Region: TraX; cl05434 1048332003033 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1048332003034 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 1048332003035 active site 1048332003036 phosphorylation site [posttranslational modification] 1048332003037 intermolecular recognition site; other site 1048332003038 dimerization interface [polypeptide binding]; other site 1048332003039 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 1048332003040 DNA binding site [nucleotide binding] 1048332003041 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1048332003042 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 1048332003043 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 1048332003044 dimer interface [polypeptide binding]; other site 1048332003045 phosphorylation site [posttranslational modification] 1048332003046 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 1048332003047 ATP binding site [chemical binding]; other site 1048332003048 Mg2+ binding site [ion binding]; other site 1048332003049 G-X-G motif; other site 1048332003050 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1048332003051 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332003052 potential frameshift: common BLAST hit: gi|125717758|ref|YP_001034891.1| cobalamin-independent methionine synthase II 1048332003053 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1048332003054 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 1048332003055 Nucleoside diphosphate kinases (NDP kinases, NDPks): NDP kinases, responsible for the synthesis of nucleoside triphosphates (NTPs), are involved in numerous regulatory processes associated with proliferation, development, and differentiation. They are...; Region: NDPk; cl00335 1048332003056 multimer interface [polypeptide binding]; other site 1048332003057 active site 1048332003058 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1048332003059 cell envelope integrity inner membrane protein TolA; Provisional; Region: tolA; PRK09510 1048332003060 Glucan-binding protein C; Region: GbpC; pfam08363 1048332003061 Glucan-binding protein C; Region: GbpC; pfam08363 1048332003062 Gram positive anchor; Region: Gram_pos_anchor; cl15427 1048332003063 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 1048332003064 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1048332003065 active site 1048332003066 dimer interface [polypeptide binding]; other site 1048332003067 Sulfatase; Region: Sulfatase; cl10460 1048332003068 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1048332003069 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 1048332003070 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1048332003071 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1048332003072 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 1048332003073 putative ion selectivity filter; other site 1048332003074 putative pore gating glutamate residue; other site 1048332003075 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 1048332003076 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 1048332003077 catalytic triad [active] 1048332003078 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1048332003079 GTP-binding protein LepA; Provisional; Region: PRK05433 1048332003080 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1048332003081 G1 box; other site 1048332003082 putative GEF interaction site [polypeptide binding]; other site 1048332003083 GTP/Mg2+ binding site [chemical binding]; other site 1048332003084 Switch I region; other site 1048332003085 G2 box; other site 1048332003086 G3 box; other site 1048332003087 Switch II region; other site 1048332003088 G4 box; other site 1048332003089 G5 box; other site 1048332003090 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 1048332003091 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 1048332003092 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1048332003093 acetolactate synthase; Reviewed; Region: PRK08617 1048332003094 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1048332003095 PYR/PP interface [polypeptide binding]; other site 1048332003096 dimer interface [polypeptide binding]; other site 1048332003097 TPP binding site [chemical binding]; other site 1048332003098 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 1048332003099 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 1048332003100 TPP-binding site [chemical binding]; other site 1048332003101 dimer interface [polypeptide binding]; other site 1048332003102 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 1048332003103 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1048332003104 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1048332003105 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 1048332003106 putative ADP-ribose binding site [chemical binding]; other site 1048332003107 Helix-turn-helix domains; Region: HTH; cl00088 1048332003108 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1048332003109 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 1048332003110 NADP binding site [chemical binding]; other site 1048332003111 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1048332003112 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332003113 Walker A/P-loop; other site 1048332003114 ATP binding site [chemical binding]; other site 1048332003115 Q-loop/lid; other site 1048332003116 ABC transporter signature motif; other site 1048332003117 Walker B; other site 1048332003118 D-loop; other site 1048332003119 H-loop/switch region; other site 1048332003120 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 1048332003121 dimer interface [polypeptide binding]; other site 1048332003122 conserved gate region; other site 1048332003123 ABC-ATPase subunit interface; other site 1048332003124 NMT1-like family; Region: NMT1_2; cl15260 1048332003125 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1048332003126 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1048332003127 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency; Region: ABC_subfamily_A; cd03263 1048332003128 Walker A/P-loop; other site 1048332003129 ATP binding site [chemical binding]; other site 1048332003130 Q-loop/lid; other site 1048332003131 ABC transporter signature motif; other site 1048332003132 Walker B; other site 1048332003133 D-loop; other site 1048332003134 H-loop/switch region; other site 1048332003135 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1048332003136 ABC-2 type transporter; Region: ABC2_membrane; cl11417 1048332003137 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1048332003138 Helix-turn-helix domains; Region: HTH; cl00088 1048332003139 potential frameshift: common BLAST hit: gi|71911529|ref|YP_283079.1| transposase 1048332003140 Transposase domain (DUF772); Region: DUF772; cl15789 1048332003141 Transposase domain (DUF772); Region: DUF772; cl15789 1048332003142 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1048332003143 transposase for IS660, C-terminal region 1048332003144 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1048332003145 Helix-turn-helix domains; Region: HTH; cl00088 1048332003146 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048332003147 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332003148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332003149 Walker A/P-loop; other site 1048332003150 ATP binding site [chemical binding]; other site 1048332003151 Q-loop/lid; other site 1048332003152 ABC transporter signature motif; other site 1048332003153 Walker B; other site 1048332003154 D-loop; other site 1048332003155 H-loop/switch region; other site 1048332003156 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048332003157 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332003158 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332003159 Walker A/P-loop; other site 1048332003160 ATP binding site [chemical binding]; other site 1048332003161 Q-loop/lid; other site 1048332003162 ABC transporter signature motif; other site 1048332003163 Walker B; other site 1048332003164 D-loop; other site 1048332003165 H-loop/switch region; other site 1048332003166 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 1048332003167 Cobalt transport protein; Region: CbiQ; cl00463 1048332003168 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 1048332003169 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 1048332003170 Walker A/P-loop; other site 1048332003171 ATP binding site [chemical binding]; other site 1048332003172 Q-loop/lid; other site 1048332003173 ABC transporter signature motif; other site 1048332003174 Walker B; other site 1048332003175 D-loop; other site 1048332003176 H-loop/switch region; other site 1048332003177 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332003178 Walker A/P-loop; other site 1048332003179 ATP binding site [chemical binding]; other site 1048332003180 Q-loop/lid; other site 1048332003181 ABC transporter signature motif; other site 1048332003182 Walker B; other site 1048332003183 D-loop; other site 1048332003184 H-loop/switch region; other site 1048332003185 Apolipophorin-III precursor (apoLp-III); Region: ApoLp-III; pfam07464 1048332003186 FtsX-like permease family; Region: FtsX; cl15850 1048332003187 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1048332003188 FtsX-like permease family; Region: FtsX; cl15850 1048332003189 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048332003190 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 1048332003191 Walker A/P-loop; other site 1048332003192 ATP binding site [chemical binding]; other site 1048332003193 Q-loop/lid; other site 1048332003194 ABC transporter signature motif; other site 1048332003195 Walker B; other site 1048332003196 D-loop; other site 1048332003197 H-loop/switch region; other site 1048332003198 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1048332003199 Helix-turn-helix domains; Region: HTH; cl00088 1048332003200 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 1048332003201 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1048332003202 Cobalt transport protein; Region: CbiQ; cl00463 1048332003203 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1048332003204 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 1048332003205 Walker A/P-loop; other site 1048332003206 ATP binding site [chemical binding]; other site 1048332003207 Q-loop/lid; other site 1048332003208 ABC transporter signature motif; other site 1048332003209 Walker B; other site 1048332003210 D-loop; other site 1048332003211 H-loop/switch region; other site 1048332003212 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1048332003213 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 1048332003214 Walker A/P-loop; other site 1048332003215 ATP binding site [chemical binding]; other site 1048332003216 Q-loop/lid; other site 1048332003217 ABC transporter signature motif; other site 1048332003218 Walker B; other site 1048332003219 D-loop; other site 1048332003220 H-loop/switch region; other site 1048332003221 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1048332003222 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 1048332003223 Sodium:solute symporter family; Region: SSF; cl00456 1048332003224 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 1048332003225 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1048332003226 substrate binding site [chemical binding]; other site 1048332003227 ATP binding site [chemical binding]; other site 1048332003228 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 1048332003229 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1048332003230 Helix-turn-helix domains; Region: HTH; cl00088 1048332003231 Cation efflux family; Region: Cation_efflux; cl00316 1048332003232 Protoheme ferro-lyase (ferrochelatase) [Coenzyme metabolism]; Region: HemH; COG0276 1048332003233 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 1048332003234 C-terminal domain interface [polypeptide binding]; other site 1048332003235 active site 1048332003236 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 1048332003237 active site 1048332003238 N-terminal domain interface [polypeptide binding]; other site 1048332003239 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 1048332003240 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 1048332003241 catalytic Zn binding site [ion binding]; other site 1048332003242 NAD(P) binding site [chemical binding]; other site 1048332003243 structural Zn binding site [ion binding]; other site 1048332003244 putative transcriptional regulator, LysR family (C-terminal), degenerate 1048332003245 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332003246 Helix-turn-helix domains; Region: HTH; cl00088 1048332003247 Integrase core domain; Region: rve; cl01316 1048332003248 putative transcriptional regulator, LysR family (N-terminal), degenerate 1048332003249 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1048332003250 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 1048332003251 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1048332003252 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1048332003253 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 1048332003254 motif II; other site 1048332003255 Gram positive anchor; Region: Gram_pos_anchor; cl15427 1048332003256 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA_subfamily_ECM; cd01450 1048332003257 integrin inhibitor binding pocket; other site 1048332003258 metal ion-dependent adhesion site (MIDAS); other site 1048332003259 integrin-collagen binding site; other site 1048332003260 putative vWF-collagen binding site; other site 1048332003261 glycoprotein Ib (GpIb) binding site [polypeptide binding]; other site 1048332003262 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 1048332003263 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 1048332003264 siderophore binding site; other site 1048332003265 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1048332003266 Helix-turn-helix domains; Region: HTH; cl00088 1048332003267 Helix-turn-helix domains; Region: HTH; cl00088 1048332003268 Helix-turn-helix domains; Region: HTH; cl00088 1048332003269 putative transposase OrfB; Reviewed; Region: PHA02517 1048332003270 HTH-like domain; Region: HTH_21; pfam13276 1048332003271 Integrase core domain; Region: rve; cl01316 1048332003272 Integrase core domain; Region: rve_3; cl15866 1048332003273 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1048332003274 MatE; Region: MatE; cl10513 1048332003275 MatE; Region: MatE; cl10513 1048332003276 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 1048332003277 Domain of unknown function (DUF814); Region: DUF814; pfam05670 1048332003278 TraX protein; Region: TraX; cl05434 1048332003279 DJ-1 family protein; Region: not_thiJ; TIGR01383 1048332003280 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 1048332003281 conserved cys residue [active] 1048332003282 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 1048332003283 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 1048332003284 FAD binding pocket [chemical binding]; other site 1048332003285 FAD binding motif [chemical binding]; other site 1048332003286 phosphate binding motif [ion binding]; other site 1048332003287 beta-alpha-beta structure motif; other site 1048332003288 NAD binding pocket [chemical binding]; other site 1048332003289 Iron coordination center [ion binding]; other site 1048332003290 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 1048332003291 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 1048332003292 heterodimer interface [polypeptide binding]; other site 1048332003293 active site 1048332003294 FMN binding site [chemical binding]; other site 1048332003295 homodimer interface [polypeptide binding]; other site 1048332003296 substrate binding site [chemical binding]; other site 1048332003297 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 1048332003298 active site 1048332003299 dimer interface [polypeptide binding]; other site 1048332003300 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 1048332003301 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048332003302 active site 1048332003303 amidase; Provisional; Region: PRK06529 1048332003304 Amidase; Region: Amidase; cl11426 1048332003305 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 1048332003306 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1048332003307 substrate binding pocket [chemical binding]; other site 1048332003308 membrane-bound complex binding site; other site 1048332003309 hinge residues; other site 1048332003310 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1048332003311 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 1048332003312 dimer interface [polypeptide binding]; other site 1048332003313 conserved gate region; other site 1048332003314 putative PBP binding loops; other site 1048332003315 ABC-ATPase subunit interface; other site 1048332003316 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 1048332003317 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1048332003318 active site 1048332003319 metal binding site [ion binding]; metal-binding site 1048332003320 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1048332003321 Cupin domain; Region: Cupin_2; cl09118 1048332003322 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1048332003323 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1048332003324 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1048332003325 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1048332003326 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1048332003327 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1048332003328 G1 box; other site 1048332003329 GTP/Mg2+ binding site [chemical binding]; other site 1048332003330 Switch I region; other site 1048332003331 G2 box; other site 1048332003332 Switch II region; other site 1048332003333 G3 box; other site 1048332003334 G4 box; other site 1048332003335 G5 box; other site 1048332003336 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1048332003337 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332003338 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1048332003339 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1048332003340 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1048332003341 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332003342 Family description; Region: UvrD_C_2; cl15862 1048332003343 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 1048332003344 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 1048332003345 homodimer interface [polypeptide binding]; other site 1048332003346 substrate-cofactor binding pocket; other site 1048332003347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332003348 catalytic residue [active] 1048332003349 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1048332003350 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332003351 active site 1048332003352 motif I; other site 1048332003353 motif II; other site 1048332003354 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 1048332003355 dimer interface [polypeptide binding]; other site 1048332003356 catalytic triad [active] 1048332003357 peroxidatic and resolving cysteines [active] 1048332003358 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 1048332003359 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 1048332003360 Uncharacterized conserved protein [Function unknown]; Region: COG2461 1048332003361 Family of unknown function (DUF438); Region: DUF438; pfam04282 1048332003362 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 1048332003363 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK02484 1048332003364 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 1048332003365 RNA binding site [nucleotide binding]; other site 1048332003366 active site 1048332003367 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1048332003368 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1048332003369 active site 1048332003370 Riboflavin kinase; Region: Flavokinase; cl03312 1048332003371 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 1048332003372 ArsC family; Region: ArsC; pfam03960 1048332003373 putative catalytic residues [active] 1048332003374 thiol/disulfide switch; other site 1048332003375 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 1048332003376 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 1048332003377 active site 1048332003378 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1048332003379 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 1048332003380 S-adenosylmethionine binding site [chemical binding]; other site 1048332003381 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; cl01283 1048332003382 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 1048332003383 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1048332003384 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 1048332003385 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 1048332003386 dimer interface [polypeptide binding]; other site 1048332003387 conserved gate region; other site 1048332003388 putative PBP binding loops; other site 1048332003389 ABC-ATPase subunit interface; other site 1048332003390 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1048332003391 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 1048332003392 dimer interface [polypeptide binding]; other site 1048332003393 conserved gate region; other site 1048332003394 putative PBP binding loops; other site 1048332003395 ABC-ATPase subunit interface; other site 1048332003396 phosphate transporter ATP-binding protein; Provisional; Region: PRK14237 1048332003397 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 1048332003398 Walker A/P-loop; other site 1048332003399 ATP binding site [chemical binding]; other site 1048332003400 Q-loop/lid; other site 1048332003401 ABC transporter signature motif; other site 1048332003402 Walker B; other site 1048332003403 D-loop; other site 1048332003404 H-loop/switch region; other site 1048332003405 phosphate transporter ATP-binding protein; Provisional; Region: PRK14239 1048332003406 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 1048332003407 Walker A/P-loop; other site 1048332003408 ATP binding site [chemical binding]; other site 1048332003409 Q-loop/lid; other site 1048332003410 ABC transporter signature motif; other site 1048332003411 Walker B; other site 1048332003412 D-loop; other site 1048332003413 H-loop/switch region; other site 1048332003414 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1048332003415 PhoU domain; Region: PhoU; pfam01895 1048332003416 PhoU domain; Region: PhoU; pfam01895 1048332003417 Aminopeptidase N [Amino acid transport and metabolism]; Region: PepN; COG0308 1048332003418 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 1048332003419 Zn binding site [ion binding]; other site 1048332003420 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 1048332003421 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 1048332003422 DNA binding site [nucleotide binding] 1048332003423 Int/Topo IB signature motif; other site 1048332003424 active site 1048332003425 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 1048332003426 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1048332003427 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 1048332003428 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 1048332003429 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 1048332003430 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 1048332003431 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1048332003432 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1048332003433 DNA binding site [nucleotide binding] 1048332003434 domain linker motif; other site 1048332003435 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 1048332003436 putative dimerization interface [polypeptide binding]; other site 1048332003437 putative ligand binding site [chemical binding]; other site 1048332003438 potential frameshift: common BLAST hit: gi|125718114|ref|YP_001035247.1| maltose/maltodextrin ABC transporter, sugar-binding protein MalX 1048332003439 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 1048332003440 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 1048332003441 dimer interface [polypeptide binding]; other site 1048332003442 conserved gate region; other site 1048332003443 putative PBP binding loops; other site 1048332003444 ABC-ATPase subunit interface; other site 1048332003445 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 1048332003446 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 1048332003447 dimer interface [polypeptide binding]; other site 1048332003448 conserved gate region; other site 1048332003449 putative PBP binding loops; other site 1048332003450 ABC-ATPase subunit interface; other site 1048332003451 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1048332003452 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 1048332003453 Walker A/P-loop; other site 1048332003454 ATP binding site [chemical binding]; other site 1048332003455 Q-loop/lid; other site 1048332003456 ABC transporter signature motif; other site 1048332003457 Walker B; other site 1048332003458 D-loop; other site 1048332003459 H-loop/switch region; other site 1048332003460 TOBE domain; Region: TOBE_2; cl01440 1048332003461 Toxin Fst, type I toxin-antitoxin system; Region: Fst_toxin; pfam13955 1048332003462 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1048332003463 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1048332003464 Iron permease FTR1 family; Region: FTR1; cl00475 1048332003465 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 1048332003466 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1048332003467 Imelysin; Region: Peptidase_M75; cl09159 1048332003468 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1048332003469 heme uptake protein IsdB; Region: IsdB; TIGR03657 1048332003470 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 1048332003471 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1048332003472 carbohydrate binding site [chemical binding]; other site 1048332003473 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 1048332003474 carbohydrate binding site [chemical binding]; other site 1048332003475 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 1048332003476 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 1048332003477 Ca binding site [ion binding]; other site 1048332003478 active site 1048332003479 catalytic site [active] 1048332003480 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 1048332003481 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1048332003482 active site 1048332003483 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1048332003484 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1048332003485 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1048332003486 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1048332003487 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1048332003488 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1048332003489 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1048332003490 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1048332003491 active site 1048332003492 metal binding site [ion binding]; metal-binding site 1048332003493 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 1048332003494 E3 interaction surface; other site 1048332003495 lipoyl attachment site [posttranslational modification]; other site 1048332003496 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 1048332003497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332003498 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1048332003499 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1048332003500 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1048332003501 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 1048332003502 E3 interaction surface; other site 1048332003503 lipoyl attachment site [posttranslational modification]; other site 1048332003504 e3 binding domain; Region: E3_binding; pfam02817 1048332003505 e3 binding domain; Region: E3_binding; pfam02817 1048332003506 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 1048332003507 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1048332003508 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 1048332003509 alpha subunit interface [polypeptide binding]; other site 1048332003510 TPP binding site [chemical binding]; other site 1048332003511 heterodimer interface [polypeptide binding]; other site 1048332003512 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1048332003513 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1048332003514 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 1048332003515 tetramer interface [polypeptide binding]; other site 1048332003516 TPP-binding site [chemical binding]; other site 1048332003517 heterodimer interface [polypeptide binding]; other site 1048332003518 phosphorylation loop region [posttranslational modification] 1048332003519 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09755 1048332003520 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1048332003521 active site 1048332003522 substrate binding site [chemical binding]; other site 1048332003523 catalytic site [active] 1048332003524 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 1048332003525 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 1048332003526 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 1048332003527 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09756 1048332003528 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 1048332003529 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 1048332003530 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 1048332003531 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 1048332003532 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332003533 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 1048332003534 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332003535 Helix-turn-helix domains; Region: HTH; cl00088 1048332003536 Integrase core domain; Region: rve; cl01316 1048332003537 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 1048332003538 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 1048332003539 dihydroorotase; Validated; Region: pyrC; PRK09357 1048332003540 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 1048332003541 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 1048332003542 active site 1048332003543 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1048332003544 ligand binding site [chemical binding]; other site 1048332003545 active site 1048332003546 UGI interface [polypeptide binding]; other site 1048332003547 catalytic site [active] 1048332003548 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1048332003549 Cation efflux family; Region: Cation_efflux; cl00316 1048332003550 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1048332003551 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1048332003552 Domain of unknown function (DUF1958); Region: DUF1958; pfam09211 1048332003553 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1048332003554 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1048332003555 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1048332003556 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1048332003557 active site 1048332003558 nucleophile elbow; other site 1048332003559 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 1048332003560 active site 1048332003561 catalytic triad [active] 1048332003562 oxyanion hole [active] 1048332003563 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1048332003564 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1048332003565 ATP binding site [chemical binding]; other site 1048332003566 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1048332003567 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 1048332003568 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1048332003569 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1048332003570 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 1048332003571 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 1048332003572 catalytic core [active] 1048332003573 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 1048332003574 catalytic core [active] 1048332003575 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 1048332003576 catalytic core [active] 1048332003577 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 1048332003578 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1048332003579 active site 1048332003580 motif I; other site 1048332003581 motif II; other site 1048332003582 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332003583 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332003584 Helix-turn-helix domains; Region: HTH; cl00088 1048332003585 Integrase core domain; Region: rve; cl01316 1048332003586 MatE; Region: MatE; cl10513 1048332003587 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1048332003588 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1048332003589 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332003590 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1048332003591 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 1048332003592 active site 1048332003593 homodimer interface [polypeptide binding]; other site 1048332003594 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1048332003595 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 1048332003596 Probable Catalytic site; other site 1048332003597 metal-binding site 1048332003598 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: GT1_like_1; cd04950 1048332003599 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1048332003600 putative homodimer interface [polypeptide binding]; other site 1048332003601 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1048332003602 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 1048332003603 active site 1048332003604 LicD family; Region: LicD; cl01378 1048332003605 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 1048332003606 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1048332003607 Bacterial sugar transferase; Region: Bac_transf; cl00939 1048332003608 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 1048332003609 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332003610 Chain length determinant protein; Region: Wzz; cl15801 1048332003611 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 1048332003612 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 1048332003613 DNA polymerase processivity factor; Region: DNA_PPF; pfam02916 1048332003614 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1048332003615 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1048332003616 putative uracil binding site [chemical binding]; other site 1048332003617 putative active site [active] 1048332003618 dipeptidase PepV; Reviewed; Region: PRK07318 1048332003619 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 1048332003620 active site 1048332003621 metal binding site [ion binding]; metal-binding site 1048332003622 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 1048332003623 active site 1 [active] 1048332003624 dimer interface [polypeptide binding]; other site 1048332003625 hexamer interface [polypeptide binding]; other site 1048332003626 active site 2 [active] 1048332003627 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1048332003628 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048332003629 Coenzyme A binding pocket [chemical binding]; other site 1048332003630 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1048332003631 23S rRNA binding site [nucleotide binding]; other site 1048332003632 L21 binding site [polypeptide binding]; other site 1048332003633 L13 binding site [polypeptide binding]; other site 1048332003634 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 1048332003635 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1048332003636 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1048332003637 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1048332003638 cytidylate kinase; Provisional; Region: cmk; PRK00023 1048332003639 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 1048332003640 CMP-binding site; other site 1048332003641 The sites determining sugar specificity; other site 1048332003642 peptidase T; Region: peptidase-T; TIGR01882 1048332003643 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 1048332003644 metal binding site [ion binding]; metal-binding site 1048332003645 dimer interface [polypeptide binding]; other site 1048332003646 putative cross-wall-targeting lipoprotein signal; Region: strep_RK_lipo; TIGR03726 1048332003647 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 1048332003648 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1048332003649 GBS Bsp-like repeat; Region: GBS_Bsp-like; pfam08481 1048332003650 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1048332003651 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 1048332003652 active site 1048332003653 metal binding site [ion binding]; metal-binding site 1048332003654 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1048332003655 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 1048332003656 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1048332003657 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 1048332003658 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 1048332003659 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1048332003660 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 1048332003661 putative active site [active] 1048332003662 nucleotide binding site [chemical binding]; other site 1048332003663 nudix motif; other site 1048332003664 putative metal binding site [ion binding]; other site 1048332003665 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1048332003666 FtsX-like permease family; Region: FtsX; cl15850 1048332003667 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1048332003668 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332003669 Walker A/P-loop; other site 1048332003670 ATP binding site [chemical binding]; other site 1048332003671 Q-loop/lid; other site 1048332003672 ABC transporter signature motif; other site 1048332003673 Walker B; other site 1048332003674 D-loop; other site 1048332003675 H-loop/switch region; other site 1048332003676 peptide chain release factor 2; Validated; Region: prfB; PRK00578 1048332003677 RF-1 domain; Region: RF-1; cl02875 1048332003678 RF-1 domain; Region: RF-1; cl02875 1048332003679 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 1048332003680 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1048332003681 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1048332003682 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1048332003683 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 1048332003684 dimer interface [polypeptide binding]; other site 1048332003685 FMN binding site [chemical binding]; other site 1048332003686 NADPH bind site [chemical binding]; other site 1048332003687 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1048332003688 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1048332003689 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1048332003690 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1048332003691 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332003692 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1048332003693 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 1048332003694 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1048332003695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048332003696 Coenzyme A binding pocket [chemical binding]; other site 1048332003697 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1048332003698 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048332003699 Coenzyme A binding pocket [chemical binding]; other site 1048332003700 sugar phosphate phosphatase; Provisional; Region: PRK10513 1048332003701 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 1048332003702 active site 1048332003703 motif I; other site 1048332003704 motif II; other site 1048332003705 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332003706 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1048332003707 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332003708 Protein of unknown function (DUF454); Region: DUF454; cl01063 1048332003709 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1048332003710 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 1048332003711 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1048332003712 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 1048332003713 putative active site [active] 1048332003714 heme pocket [chemical binding]; other site 1048332003715 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 1048332003716 dimer interface [polypeptide binding]; other site 1048332003717 phosphorylation site [posttranslational modification] 1048332003718 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 1048332003719 ATP binding site [chemical binding]; other site 1048332003720 Mg2+ binding site [ion binding]; other site 1048332003721 G-X-G motif; other site 1048332003722 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1048332003723 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 1048332003724 active site 1048332003725 phosphorylation site [posttranslational modification] 1048332003726 intermolecular recognition site; other site 1048332003727 dimerization interface [polypeptide binding]; other site 1048332003728 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 1048332003729 DNA binding site [nucleotide binding] 1048332003730 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1048332003731 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 1048332003732 Walker A/P-loop; other site 1048332003733 ATP binding site [chemical binding]; other site 1048332003734 Q-loop/lid; other site 1048332003735 ABC transporter signature motif; other site 1048332003736 Walker B; other site 1048332003737 D-loop; other site 1048332003738 H-loop/switch region; other site 1048332003739 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 1048332003740 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1048332003741 substrate binding pocket [chemical binding]; other site 1048332003742 membrane-bound complex binding site; other site 1048332003743 hinge residues; other site 1048332003744 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 1048332003745 dimer interface [polypeptide binding]; other site 1048332003746 conserved gate region; other site 1048332003747 putative PBP binding loops; other site 1048332003748 ABC-ATPase subunit interface; other site 1048332003749 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1048332003750 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 1048332003751 dimer interface [polypeptide binding]; other site 1048332003752 conserved gate region; other site 1048332003753 putative PBP binding loops; other site 1048332003754 ABC-ATPase subunit interface; other site 1048332003755 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1048332003756 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 1048332003757 DNA-directed RNA polymerase subunit beta; Region: EpuA; pfam11772 1048332003758 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1048332003759 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 1048332003760 hinge; other site 1048332003761 active site 1048332003762 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 1048332003763 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 1048332003764 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1048332003765 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 1048332003766 DXD motif; other site 1048332003767 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 1048332003768 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1048332003769 active site 1048332003770 homodimer interface [polypeptide binding]; other site 1048332003771 Integrase core domain; Region: rve_3; cl15866 1048332003772 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332003773 Helix-turn-helix domains; Region: HTH; cl00088 1048332003774 Integrase core domain; Region: rve; cl01316 1048332003775 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1048332003776 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1048332003777 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1048332003778 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1048332003779 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1048332003780 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1048332003781 DNA-binding site [nucleotide binding]; DNA binding site 1048332003782 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1048332003783 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1048332003784 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 1048332003785 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 1048332003786 Walker A motif; other site 1048332003787 ATP binding site [chemical binding]; other site 1048332003788 Walker B motif; other site 1048332003789 arginine finger; other site 1048332003790 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1048332003791 GAF domain; Region: GAF; cl15785 1048332003792 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332003793 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1048332003794 Protein of unknown function (DUF3042); Region: DUF3042; pfam11240 1048332003795 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 1048332003796 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332003797 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 1048332003798 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 1048332003799 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 1048332003800 putative Cl- selectivity filter; other site 1048332003801 putative pore gating glutamate residue; other site 1048332003802 Chorismate mutase type II; Region: CM_2; cl00693 1048332003803 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 1048332003804 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 1048332003805 Cl- selectivity filter; other site 1048332003806 Cl- binding residues [ion binding]; other site 1048332003807 pore gating glutamate residue; other site 1048332003808 dimer interface [polypeptide binding]; other site 1048332003809 H+/Cl- coupling transport residue; other site 1048332003810 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 1048332003811 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1048332003812 Predicted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5549 1048332003813 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 1048332003814 active site 1048332003815 Predicted esterase [General function prediction only]; Region: COG0627 1048332003816 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 1048332003817 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1048332003818 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1048332003819 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1048332003820 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1048332003821 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332003822 Walker A/P-loop; other site 1048332003823 ATP binding site [chemical binding]; other site 1048332003824 Q-loop/lid; other site 1048332003825 ABC transporter signature motif; other site 1048332003826 Walker B; other site 1048332003827 D-loop; other site 1048332003828 H-loop/switch region; other site 1048332003829 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 1048332003830 TM-ABC transporter signature motif; other site 1048332003831 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 1048332003832 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1048332003833 zinc binding site [ion binding]; other site 1048332003834 putative ligand binding site [chemical binding]; other site 1048332003835 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332003836 pyruvate kinase; Provisional; Region: PRK05826 1048332003837 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 1048332003838 domain interfaces; other site 1048332003839 active site 1048332003840 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 1048332003841 active site 1048332003842 ADP/pyrophosphate binding site [chemical binding]; other site 1048332003843 dimerization interface [polypeptide binding]; other site 1048332003844 allosteric effector site; other site 1048332003845 fructose-1,6-bisphosphate binding site; other site 1048332003846 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK07279 1048332003847 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 1048332003848 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 1048332003849 generic binding surface II; other site 1048332003850 generic binding surface I; other site 1048332003851 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 1048332003852 substrate binding site [chemical binding]; other site 1048332003853 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1048332003854 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1048332003855 substrate binding site [chemical binding]; other site 1048332003856 ligand binding site [chemical binding]; other site 1048332003857 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 1048332003858 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1048332003859 tartrate dehydrogenase; Provisional; Region: PRK08194 1048332003860 2-isopropylmalate synthase; Validated; Region: PRK00915 1048332003861 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 1048332003862 active site 1048332003863 catalytic residues [active] 1048332003864 metal binding site [ion binding]; metal-binding site 1048332003865 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 1048332003866 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 1048332003867 catalytic core [active] 1048332003868 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 1048332003869 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 1048332003870 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 1048332003871 active site 1048332003872 FMN binding site [chemical binding]; other site 1048332003873 substrate binding site [chemical binding]; other site 1048332003874 catalytic residues [active] 1048332003875 homodimer interface [polypeptide binding]; other site 1048332003876 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 1048332003877 IHF dimer interface [polypeptide binding]; other site 1048332003878 IHF - DNA interface [nucleotide binding]; other site 1048332003879 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 1048332003880 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_YpmR_like; cd04506 1048332003881 active site 1048332003882 catalytic triad [active] 1048332003883 oxyanion hole [active] 1048332003884 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 1048332003885 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1048332003886 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 1048332003887 Walker A/P-loop; other site 1048332003888 ATP binding site [chemical binding]; other site 1048332003889 Q-loop/lid; other site 1048332003890 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 1048332003891 ABC transporter signature motif; other site 1048332003892 Walker B; other site 1048332003893 D-loop; other site 1048332003894 H-loop/switch region; other site 1048332003895 Arginine repressor [Transcription]; Region: ArgR; COG1438 1048332003896 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1048332003897 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1048332003898 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1048332003899 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 1048332003900 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 1048332003901 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1048332003902 substrate binding pocket [chemical binding]; other site 1048332003903 chain length determination region; other site 1048332003904 substrate-Mg2+ binding site; other site 1048332003905 catalytic residues [active] 1048332003906 aspartate-rich region 1; other site 1048332003907 active site lid residues [active] 1048332003908 aspartate-rich region 2; other site 1048332003909 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 1048332003910 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1048332003911 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 1048332003912 generic binding surface II; other site 1048332003913 generic binding surface I; other site 1048332003914 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1048332003915 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1048332003916 minor groove reading motif; other site 1048332003917 helix-hairpin-helix signature motif; other site 1048332003918 substrate binding pocket [chemical binding]; other site 1048332003919 active site 1048332003920 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 1048332003921 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 1048332003922 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 1048332003923 Homoserine O-succinyltransferase; Region: HTS; pfam04204 1048332003924 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1048332003925 proposed active site lysine [active] 1048332003926 conserved cys residue [active] 1048332003927 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 1048332003928 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048332003929 active site 1048332003930 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1048332003931 DHH family; Region: DHH; pfam01368 1048332003932 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 1048332003933 generic binding surface I; other site 1048332003934 generic binding surface II; other site 1048332003935 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 1048332003936 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048332003937 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1048332003938 Coenzyme A binding pocket [chemical binding]; other site 1048332003939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332003940 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 1048332003941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332003942 NAD(P) binding site [chemical binding]; other site 1048332003943 active site 1048332003944 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1048332003945 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 1048332003946 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 1048332003947 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1048332003948 HflX GTPase family; Region: HflX; cd01878 1048332003949 G1 box; other site 1048332003950 GTP/Mg2+ binding site [chemical binding]; other site 1048332003951 Switch I region; other site 1048332003952 G2 box; other site 1048332003953 G3 box; other site 1048332003954 Switch II region; other site 1048332003955 G4 box; other site 1048332003956 G5 box; other site 1048332003957 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1048332003958 sec-independent translocase; Provisional; Region: PRK00708 1048332003959 Glycosyl hydrolase family 70; Region: Glyco_hydro_70; pfam02324 1048332003960 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1048332003961 FOG: Glucan-binding domain (YG repeat) [General function prediction only]; Region: COG5263 1048332003962 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003963 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003964 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003965 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003966 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1048332003967 Helix-turn-helix domains; Region: HTH; cl00088 1048332003968 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1048332003969 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 1048332003970 Glycosyl hydrolase family 70; Region: Glyco_hydro_70; pfam02324 1048332003971 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1048332003972 active site 1048332003973 catalytic site [active] 1048332003974 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1048332003975 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003976 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003977 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003978 Putative cell wall binding repeat; Region: CW_binding_1; pfam01473 1048332003979 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003980 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003981 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003982 Glycosyl hydrolase family 70; Region: Glyco_hydro_70; pfam02324 1048332003983 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 1048332003984 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003985 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003986 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003987 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003988 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003989 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003990 glucan-binding repeat; Region: glucan_65_rpt; TIGR04035 1048332003991 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 1048332003992 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1048332003993 Ligand binding site; other site 1048332003994 Putative Catalytic site; other site 1048332003995 DXD motif; other site 1048332003996 GtrA-like protein; Region: GtrA; cl00971 1048332003997 Domain of unknown function (DUF4353); Region: DUF4353; pfam14262 1048332003998 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 1048332003999 putative metal binding residues [ion binding]; other site 1048332004000 signature motif; other site 1048332004001 dimer interface [polypeptide binding]; other site 1048332004002 polyP binding site; other site 1048332004003 active site 1048332004004 substrate binding site [chemical binding]; other site 1048332004005 acceptor-phosphate pocket; other site 1048332004006 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 1048332004007 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 1048332004008 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 1048332004009 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1048332004010 substrate binding site [chemical binding]; other site 1048332004011 glutamase interaction surface [polypeptide binding]; other site 1048332004012 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 1048332004013 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1048332004014 catalytic residues [active] 1048332004015 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 1048332004016 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1048332004017 putative active site [active] 1048332004018 oxyanion strand; other site 1048332004019 catalytic triad [active] 1048332004020 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 1048332004021 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1048332004022 putative active site pocket [active] 1048332004023 4-fold oligomerization interface [polypeptide binding]; other site 1048332004024 metal binding residues [ion binding]; metal-binding site 1048332004025 3-fold/trimer interface [polypeptide binding]; other site 1048332004026 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 1048332004027 histidinol dehydrogenase; Region: hisD; TIGR00069 1048332004028 NAD binding site [chemical binding]; other site 1048332004029 dimerization interface [polypeptide binding]; other site 1048332004030 product binding site; other site 1048332004031 substrate binding site [chemical binding]; other site 1048332004032 zinc binding site [ion binding]; other site 1048332004033 catalytic residues [active] 1048332004034 ATP phosphoribosyltransferase; Region: HisG; cl15266 1048332004035 ATP phosphoribosyltransferase, regulatory subunit; Region: hisZ_biosyn_reg; TIGR00443 1048332004036 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 1048332004037 dimer interface [polypeptide binding]; other site 1048332004038 motif 1; other site 1048332004039 active site 1048332004040 motif 2; other site 1048332004041 motif 3; other site 1048332004042 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 1048332004043 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 1048332004044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332004045 homodimer interface [polypeptide binding]; other site 1048332004046 catalytic residue [active] 1048332004047 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1048332004048 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332004049 hypothetical protein; Provisional; Region: PRK07329 1048332004050 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 1048332004051 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 1048332004052 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 1048332004053 active site 1048332004054 motif I; other site 1048332004055 motif II; other site 1048332004056 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 1048332004057 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 1048332004058 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 1048332004059 active site 1048332004060 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 1048332004061 active site 2 [active] 1048332004062 active site 1 [active] 1048332004063 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 1048332004064 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 1048332004065 FeS/SAM binding site; other site 1048332004066 HemN C-terminal domain; Region: HemN_C; pfam06969 1048332004067 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332004068 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 1048332004069 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1048332004070 NAD binding site [chemical binding]; other site 1048332004071 substrate binding site [chemical binding]; other site 1048332004072 homodimer interface [polypeptide binding]; other site 1048332004073 active site 1048332004074 Cupin domain; Region: Cupin_2; cl09118 1048332004075 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1048332004076 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1048332004077 substrate binding site; other site 1048332004078 tetramer interface; other site 1048332004079 Predicted peptidase [General function prediction only]; Region: COG4099 1048332004080 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 1048332004081 FAD dependent oxidoreductase; Region: DAO; pfam01266 1048332004082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332004083 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1048332004084 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1048332004085 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1048332004086 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1048332004087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332004088 GtrA-like protein; Region: GtrA; cl00971 1048332004089 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 1048332004090 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 1048332004091 active site 1048332004092 substrate binding site [chemical binding]; other site 1048332004093 metal binding site [ion binding]; metal-binding site 1048332004094 YbbR-like protein; Region: YbbR; pfam07949 1048332004095 YbbR-like protein; Region: YbbR; pfam07949 1048332004096 Uncharacterized conserved protein [Function unknown]; Region: COG1624 1048332004097 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 1048332004098 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 1048332004099 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1048332004100 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 1048332004101 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1048332004102 catalytic triad [active] 1048332004103 Predicted integral membrane protein [Function unknown]; Region: COG0392 1048332004104 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 1048332004105 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1048332004106 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 1048332004107 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 1048332004108 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1048332004109 yiaA/B two helix domain; Region: YiaAB; cl01759 1048332004110 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1048332004111 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 1048332004112 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 1048332004113 ABC transporter; Region: ABC_tran_2; pfam12848 1048332004114 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 1048332004115 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 1048332004116 Sugar specificity; other site 1048332004117 Pyrimidine base specificity; other site 1048332004118 ATP-binding site [chemical binding]; other site 1048332004119 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332004120 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1048332004121 ATP binding site [chemical binding]; other site 1048332004122 putative Mg++ binding site [ion binding]; other site 1048332004123 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 1048332004124 nucleotide binding region [chemical binding]; other site 1048332004125 ATP-binding site [chemical binding]; other site 1048332004126 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1048332004127 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 1048332004128 Putative esterase; Region: Esterase; pfam00756 1048332004129 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 1048332004130 Putative esterase; Region: Esterase; pfam00756 1048332004131 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 1048332004132 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1048332004133 tetrameric interface [polypeptide binding]; other site 1048332004134 activator binding site; other site 1048332004135 NADP binding site [chemical binding]; other site 1048332004136 substrate binding site [chemical binding]; other site 1048332004137 catalytic residues [active] 1048332004138 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 1048332004139 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1048332004140 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 1048332004141 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 1048332004142 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 1048332004143 dimerization domain swap beta strand [polypeptide binding]; other site 1048332004144 regulatory protein interface [polypeptide binding]; other site 1048332004145 active site 1048332004146 regulatory phosphorylation site [posttranslational modification]; other site 1048332004147 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 1048332004148 isocitrate dehydrogenase; Validated; Region: PRK06451 1048332004149 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 1048332004150 dimer interface [polypeptide binding]; other site 1048332004151 Citrate synthase; Region: Citrate_synt; pfam00285 1048332004152 active site 1048332004153 citrylCoA binding site [chemical binding]; other site 1048332004154 oxalacetate/citrate binding site [chemical binding]; other site 1048332004155 coenzyme A binding site [chemical binding]; other site 1048332004156 catalytic triad [active] 1048332004157 aconitate hydratase; Validated; Region: PRK09277 1048332004158 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1048332004159 substrate binding site [chemical binding]; other site 1048332004160 ligand binding site [chemical binding]; other site 1048332004161 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 1048332004162 substrate binding site [chemical binding]; other site 1048332004163 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 1048332004164 catalytic residues [active] 1048332004165 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07306 1048332004166 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1048332004167 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1048332004168 active site 1048332004169 dimer interface [polypeptide binding]; other site 1048332004170 catalytic residues [active] 1048332004171 effector binding site; other site 1048332004172 R2 peptide binding site; other site 1048332004173 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1048332004174 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1048332004175 dimer interface [polypeptide binding]; other site 1048332004176 putative radical transfer pathway; other site 1048332004177 diiron center [ion binding]; other site 1048332004178 tyrosyl radical; other site 1048332004179 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1048332004180 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1048332004181 active site 1048332004182 HIGH motif; other site 1048332004183 nucleotide binding site [chemical binding]; other site 1048332004184 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1048332004185 active site 1048332004186 KMSKS motif; other site 1048332004187 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1048332004188 tRNA binding surface [nucleotide binding]; other site 1048332004189 anticodon binding site; other site 1048332004190 DivIVA protein; Region: DivIVA; pfam05103 1048332004191 DivIVA domain; Region: DivI1A_domain; TIGR03544 1048332004192 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 1048332004193 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 1048332004194 RNA binding surface [nucleotide binding]; other site 1048332004195 YGGT family; Region: YGGT; cl00508 1048332004196 Protein of unknown function (DUF552); Region: DUF552; cl00775 1048332004197 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1048332004198 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1048332004199 catalytic residue [active] 1048332004200 cell division protein FtsZ; Validated; Region: PRK09330 1048332004201 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 1048332004202 nucleotide binding site [chemical binding]; other site 1048332004203 SulA interaction site; other site 1048332004204 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1048332004205 Cell division protein FtsA; Region: FtsA; cl11496 1048332004206 Cell division protein FtsA; Region: FtsA; cl11496 1048332004207 Domain of unknown function (DUF3484); Region: DUF3484; pfam11983 1048332004208 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1048332004209 Cell division protein FtsQ; Region: FtsQ; pfam03799 1048332004210 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1048332004211 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 1048332004212 homodimer interface [polypeptide binding]; other site 1048332004213 active site 1048332004214 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 1048332004215 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332004216 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1048332004217 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1048332004218 Protein of unknown function (DUF3165); Region: DUF3165; pfam11364 1048332004219 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1048332004220 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 1048332004221 G1 box; other site 1048332004222 putative GEF interaction site [polypeptide binding]; other site 1048332004223 GTP/Mg2+ binding site [chemical binding]; other site 1048332004224 Switch I region; other site 1048332004225 G2 box; other site 1048332004226 G3 box; other site 1048332004227 Switch II region; other site 1048332004228 G4 box; other site 1048332004229 G5 box; other site 1048332004230 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 1048332004231 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 1048332004232 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 1048332004233 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1048332004234 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 1048332004235 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1048332004236 metal binding site 2 [ion binding]; metal-binding site 1048332004237 putative DNA binding helix; other site 1048332004238 metal binding site 1 [ion binding]; metal-binding site 1048332004239 dimer interface [polypeptide binding]; other site 1048332004240 structural Zn2+ binding site [ion binding]; other site 1048332004241 Ferritin-like domain; Region: Ferritin; pfam00210 1048332004242 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1048332004243 dimerization interface [polypeptide binding]; other site 1048332004244 DPS ferroxidase diiron center [ion binding]; other site 1048332004245 ion pore; other site 1048332004246 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 1048332004247 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1048332004248 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1048332004249 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1048332004250 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1048332004251 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1048332004252 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1048332004253 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1048332004254 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 1048332004255 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 1048332004256 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1048332004257 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1048332004258 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 1048332004259 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 1048332004260 dimer interface [polypeptide binding]; other site 1048332004261 ABC-ATPase subunit interface; other site 1048332004262 putative PBP binding regions; other site 1048332004263 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 1048332004264 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 1048332004265 metal binding site [ion binding]; metal-binding site 1048332004266 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 1048332004267 Helix-turn-helix domains; Region: HTH; cl00088 1048332004268 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 1048332004269 FeoA domain; Region: FeoA; cl00838 1048332004270 Peptidase family M48; Region: Peptidase_M48; cl12018 1048332004271 LemA family; Region: LemA; cl00742 1048332004272 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 1048332004273 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 1048332004274 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1048332004275 Helix-turn-helix domains; Region: HTH; cl00088 1048332004276 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1048332004277 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1048332004278 Carbohydrate Binding Module 6 (CBM6) domains; many are found in association with discoidin domain(s); Region: CBM6_discoidin-like; cd04083 1048332004279 putative metal binding site [ion binding]; other site 1048332004280 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 1048332004281 Right handed beta helix region; Region: Beta_helix; pfam13229 1048332004282 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 1048332004283 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 1048332004284 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 1048332004285 non-specific DNA binding site [nucleotide binding]; other site 1048332004286 salt bridge; other site 1048332004287 sequence-specific DNA binding site [nucleotide binding]; other site 1048332004288 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 1048332004289 potential frameshift: common BLAST hit: gi|55820777|ref|YP_139219.1| type I restriction-modification system methyltransferase subunit 1048332004290 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1048332004291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332004292 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1048332004293 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1048332004294 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1048332004295 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1048332004296 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1048332004297 Domain of unknown function DUF87; Region: DUF87; pfam01935 1048332004298 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 1048332004299 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 1048332004300 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1048332004301 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 1048332004302 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 1048332004303 ATP binding site [chemical binding]; other site 1048332004304 putative Mg++ binding site [ion binding]; other site 1048332004305 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1048332004306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332004307 NAD(P) binding site [chemical binding]; other site 1048332004308 active site 1048332004309 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 1048332004310 potential frameshift: common BLAST hit: gi|325978197|ref|YP_004287913.1| putative HAD-superfamily hydrolase / phosphatase 1048332004311 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1048332004312 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332004313 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 1048332004314 active site 1048332004315 motif I; other site 1048332004316 motif II; other site 1048332004317 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 1048332004318 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 1048332004319 active site 1048332004320 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 1048332004321 putative deacylase active site [active] 1048332004322 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 1048332004323 catalytic core [active] 1048332004324 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1048332004325 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 1048332004326 motif II; other site 1048332004327 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 1048332004328 putative peptidoglycan binding site; other site 1048332004329 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1048332004330 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 1048332004331 dimer interface [polypeptide binding]; other site 1048332004332 putative anticodon binding site; other site 1048332004333 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 1048332004334 motif 1; other site 1048332004335 active site 1048332004336 motif 2; other site 1048332004337 motif 3; other site 1048332004338 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 1048332004339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332004340 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 1048332004341 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1048332004342 DNA binding residues [nucleotide binding] 1048332004343 drug binding residues [chemical binding]; other site 1048332004344 dimer interface [polypeptide binding]; other site 1048332004345 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 1048332004346 PLD-like domain; Region: PLDc_2; pfam13091 1048332004347 putative homodimer interface [polypeptide binding]; other site 1048332004348 putative active site [active] 1048332004349 catalytic site [active] 1048332004350 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1048332004351 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 1048332004352 ATP binding site [chemical binding]; other site 1048332004353 putative Mg++ binding site [ion binding]; other site 1048332004354 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 1048332004355 nucleotide binding region [chemical binding]; other site 1048332004356 ATP-binding site [chemical binding]; other site 1048332004357 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 1048332004358 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1048332004359 active site 1048332004360 8-oxo-dGMP binding site [chemical binding]; other site 1048332004361 nudix motif; other site 1048332004362 metal binding site [ion binding]; metal-binding site 1048332004363 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 1048332004364 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1048332004365 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; cl01839 1048332004366 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1048332004367 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 1048332004368 CHY zinc finger; Region: zf-CHY; pfam05495 1048332004369 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1048332004370 Peptidase family U32; Region: Peptidase_U32; cl03113 1048332004371 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 1048332004372 Peptidase family U32; Region: Peptidase_U32; cl03113 1048332004373 Protein of unknown function (DUF3270); Region: DUF3270; pfam11674 1048332004374 YtxH-like protein; Region: YtxH; cl02079 1048332004375 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 1048332004376 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 1048332004377 HPr kinase/phosphorylase; Provisional; Region: PRK05428 1048332004378 DRTGG domain; Region: DRTGG; cl12147 1048332004379 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 1048332004380 Hpr binding site; other site 1048332004381 active site 1048332004382 homohexamer subunit interaction site [polypeptide binding]; other site 1048332004383 PspC domain; Region: PspC; cl00864 1048332004384 hypothetical protein; Provisional; Region: PRK04351 1048332004385 SprT homologues; Region: SprT; cl01182 1048332004386 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1048332004387 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1048332004388 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 1048332004389 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 1048332004390 RNA binding site [nucleotide binding]; other site 1048332004391 Predicted permeases [General function prediction only]; Region: COG0701 1048332004392 Predicted permease; Region: DUF318; pfam03773 1048332004393 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 1048332004394 Sulfate transporter family; Region: Sulfate_transp; cl15842 1048332004395 putative transporter; Provisional; Region: PRK11660 1048332004396 Sulfate transporter family; Region: Sulfate_transp; cl15842 1048332004397 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1048332004398 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 1048332004399 active site 1048332004400 catalytic triad [active] 1048332004401 oxyanion hole [active] 1048332004402 CAAX protease self-immunity; Region: Abi; cl00558 1048332004403 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; cl12126 1048332004404 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 1048332004405 Bacterial lipoprotein; Region: DUF3642; pfam12182 1048332004406 Peptidase family M48; Region: Peptidase_M48; cl12018 1048332004407 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1048332004408 Helix-turn-helix domains; Region: HTH; cl00088 1048332004409 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 1048332004410 S-adenosylmethionine binding site [chemical binding]; other site 1048332004411 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 1048332004412 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1048332004413 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1048332004414 intersubunit interface [polypeptide binding]; other site 1048332004415 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1048332004416 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 1048332004417 Walker A/P-loop; other site 1048332004418 ATP binding site [chemical binding]; other site 1048332004419 Q-loop/lid; other site 1048332004420 ABC transporter signature motif; other site 1048332004421 Walker B; other site 1048332004422 D-loop; other site 1048332004423 H-loop/switch region; other site 1048332004424 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 1048332004425 ABC-ATPase subunit interface; other site 1048332004426 dimer interface [polypeptide binding]; other site 1048332004427 putative PBP binding regions; other site 1048332004428 CAAX protease self-immunity; Region: Abi; cl00558 1048332004429 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 1048332004430 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1048332004431 Helix-turn-helix domains; Region: HTH; cl00088 1048332004432 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 1048332004433 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1048332004434 putative substrate translocation pore; other site 1048332004435 Transposase domain (DUF772); Region: DUF772; cl15789 1048332004436 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1048332004437 Transposase domain (DUF772); Region: DUF772; cl15789 1048332004438 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1048332004439 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 1048332004440 active site 1048332004441 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 1048332004442 active site 1048332004443 CutC family; Region: CutC; cl01218 1048332004444 Helix-turn-helix domains; Region: HTH; cl00088 1048332004445 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 1048332004446 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 1048332004447 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1048332004448 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 1048332004449 putative substrate translocation pore; other site 1048332004450 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 1048332004451 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1048332004452 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1048332004453 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 1048332004454 non-specific DNA binding site [nucleotide binding]; other site 1048332004455 salt bridge; other site 1048332004456 sequence-specific DNA binding site [nucleotide binding]; other site 1048332004457 CAAX protease self-immunity; Region: Abi; cl00558 1048332004458 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1048332004459 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 1048332004460 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1048332004461 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 1048332004462 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 1048332004463 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1048332004464 TRAM domain; Region: TRAM; cl01282 1048332004465 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 1048332004466 S-adenosylmethionine binding site [chemical binding]; other site 1048332004467 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1048332004468 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1048332004469 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1048332004470 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1048332004471 active site 1048332004472 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT; cl04176 1048332004473 gating phenylalanine in ion channel; other site 1048332004474 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 1048332004475 prephenate dehydratase; Provisional; Region: PRK11898 1048332004476 Prephenate dehydratase; Region: PDT; pfam00800 1048332004477 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 1048332004478 putative L-Phe binding site [chemical binding]; other site 1048332004479 shikimate kinase; Reviewed; Region: aroK; PRK00131 1048332004480 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 1048332004481 ADP binding site [chemical binding]; other site 1048332004482 magnesium binding site [ion binding]; other site 1048332004483 putative shikimate binding site; other site 1048332004484 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 1048332004485 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 1048332004486 putative active site [active] 1048332004487 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 1048332004488 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1048332004489 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 1048332004490 NAD binding site [chemical binding]; other site 1048332004491 dimer interface [polypeptide binding]; other site 1048332004492 substrate binding site [chemical binding]; other site 1048332004493 Protein of unknown function (DUF964); Region: DUF964; cl01483 1048332004494 prephenate dehydrogenase; Validated; Region: PRK06545 1048332004495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332004496 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 1048332004497 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1048332004498 Tetramer interface [polypeptide binding]; other site 1048332004499 active site 1048332004500 FMN-binding site [chemical binding]; other site 1048332004501 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1048332004502 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1048332004503 active site 1048332004504 dimer interface [polypeptide binding]; other site 1048332004505 metal binding site [ion binding]; metal-binding site 1048332004506 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1048332004507 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1048332004508 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1048332004509 shikimate binding site; other site 1048332004510 NAD(P) binding site [chemical binding]; other site 1048332004511 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 1048332004512 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 1048332004513 active site 1048332004514 catalytic residue [active] 1048332004515 dimer interface [polypeptide binding]; other site 1048332004516 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1048332004517 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 1048332004518 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1048332004519 Sulfatase; Region: Sulfatase; cl10460 1048332004520 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332004521 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1048332004522 Helix-turn-helix domains; Region: HTH; cl00088 1048332004523 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1048332004524 enolase; Provisional; Region: eno; PRK00077 1048332004525 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 1048332004526 dimer interface [polypeptide binding]; other site 1048332004527 metal binding site [ion binding]; metal-binding site 1048332004528 substrate binding pocket [chemical binding]; other site 1048332004529 Protein of unknown function (DUF1694); Region: DUF1694; cl02318 1048332004530 Glycerate kinase family; Region: Gly_kinase; cl00841 1048332004531 Protein of unknown function (DUF419); Region: DUF419; cl15265 1048332004532 catabolite control protein A; Region: ccpA; TIGR01481 1048332004533 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1048332004534 DNA binding site [nucleotide binding] 1048332004535 domain linker motif; other site 1048332004536 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 1048332004537 dimerization interface [polypeptide binding]; other site 1048332004538 effector binding site; other site 1048332004539 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1048332004540 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1048332004541 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 1048332004542 active site 1048332004543 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 1048332004544 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 1048332004545 RNA binding site [nucleotide binding]; other site 1048332004546 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 1048332004547 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1048332004548 active site 1048332004549 motif I; other site 1048332004550 motif II; other site 1048332004551 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332004552 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 1048332004553 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 1048332004554 active site 1048332004555 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 1048332004556 SmpB-tmRNA interface; other site 1048332004557 ribonuclease R; Region: RNase_R; TIGR02063 1048332004558 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 1048332004559 RNB domain; Region: RNB; pfam00773 1048332004560 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 1048332004561 RNA binding site [nucleotide binding]; other site 1048332004562 Preprotein translocase SecG subunit; Region: SecG; cl09123 1048332004563 drug efflux system protein MdtG; Provisional; Region: PRK09874 1048332004564 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 1048332004565 putative substrate translocation pore; other site 1048332004566 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1048332004567 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 1048332004568 CoA-binding site [chemical binding]; other site 1048332004569 ATP-binding [chemical binding]; other site 1048332004570 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1048332004571 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1048332004572 DNA binding site [nucleotide binding] 1048332004573 catalytic residue [active] 1048332004574 H2TH interface [polypeptide binding]; other site 1048332004575 putative catalytic residues [active] 1048332004576 turnover-facilitating residue; other site 1048332004577 intercalation triad [nucleotide binding]; other site 1048332004578 8OG recognition residue [nucleotide binding]; other site 1048332004579 putative reading head residues; other site 1048332004580 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1048332004581 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1048332004582 GTPase Era; Reviewed; Region: era; PRK00089 1048332004583 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1048332004584 G1 box; other site 1048332004585 GTP/Mg2+ binding site [chemical binding]; other site 1048332004586 Switch I region; other site 1048332004587 G2 box; other site 1048332004588 Switch II region; other site 1048332004589 G3 box; other site 1048332004590 G4 box; other site 1048332004591 G5 box; other site 1048332004592 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 1048332004593 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 1048332004594 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 1048332004595 transcriptional antiterminator BglG; Provisional; Region: PRK09772 1048332004596 CAT RNA binding domain; Region: CAT_RBD; cl03904 1048332004597 PRD domain; Region: PRD; cl15445 1048332004598 PRD domain; Region: PRD; cl15445 1048332004599 recombination protein RecR; Reviewed; Region: recR; PRK00076 1048332004600 RecR protein; Region: RecR; pfam02132 1048332004601 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 1048332004602 putative active site [active] 1048332004603 putative metal-binding site [ion binding]; other site 1048332004604 tetramer interface [polypeptide binding]; other site 1048332004605 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1048332004606 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1048332004607 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1048332004608 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 1048332004609 putative substrate binding site [chemical binding]; other site 1048332004610 putative ATP binding site [chemical binding]; other site 1048332004611 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14179 1048332004612 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1048332004613 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1048332004614 homodimer interface [polypeptide binding]; other site 1048332004615 NADP binding site [chemical binding]; other site 1048332004616 substrate binding site [chemical binding]; other site 1048332004617 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1048332004618 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 1048332004619 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt; cl00231 1048332004620 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 1048332004621 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 1048332004622 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 1048332004623 G1 box; other site 1048332004624 GTP/Mg2+ binding site [chemical binding]; other site 1048332004625 Switch I region; other site 1048332004626 G2 box; other site 1048332004627 G3 box; other site 1048332004628 Switch II region; other site 1048332004629 G4 box; other site 1048332004630 G5 box; other site 1048332004631 Nucleoside recognition; Region: Gate; cl00486 1048332004632 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 1048332004633 Nucleoside recognition; Region: Gate; cl00486 1048332004634 FeoA domain; Region: FeoA; cl00838 1048332004635 FeoA domain; Region: FeoA; cl00838 1048332004636 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1048332004637 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 1048332004638 Walker A/P-loop; other site 1048332004639 ATP binding site [chemical binding]; other site 1048332004640 Q-loop/lid; other site 1048332004641 ABC transporter signature motif; other site 1048332004642 Walker B; other site 1048332004643 D-loop; other site 1048332004644 H-loop/switch region; other site 1048332004645 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1048332004646 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 1048332004647 dimer interface [polypeptide binding]; other site 1048332004648 conserved gate region; other site 1048332004649 putative PBP binding loops; other site 1048332004650 ABC-ATPase subunit interface; other site 1048332004651 Protein of unknown function (DUF1797); Region: DUF1797; cl11550 1048332004652 ornithine carbamoyltransferase; Validated; Region: PRK02102 1048332004653 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1048332004654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332004655 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 1048332004656 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 1048332004657 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1048332004658 Walker A motif; other site 1048332004659 ATP binding site [chemical binding]; other site 1048332004660 Walker B motif; other site 1048332004661 arginine finger; other site 1048332004662 Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]; Region: UvrB; COG0556 1048332004663 UvrB/uvrC motif; Region: UVR; pfam02151 1048332004664 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 1048332004665 Walker A motif; other site 1048332004666 ATP binding site [chemical binding]; other site 1048332004667 Walker B motif; other site 1048332004668 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1048332004669 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 1048332004670 nudix motif; other site 1048332004671 Domain of unknown function (DUF1827); Region: DUF1827; pfam08860 1048332004672 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1048332004673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332004674 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1048332004675 Domain of Unknown Function with PDB structure (DUF3862); Region: DUF3862; pfam12978 1048332004676 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 1048332004677 catalytic residues [active] 1048332004678 catalytic nucleophile [active] 1048332004679 Recombinase; Region: Recombinase; pfam07508 1048332004680 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 1048332004681 phosphodiesterase; Provisional; Region: PRK12704 1048332004682 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 1048332004683 Replication-relaxation; Region: Replic_Relax; pfam13814 1048332004684 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332004685 AAA-like domain; Region: AAA_10; pfam12846 1048332004686 Walker A motif; other site 1048332004687 ATP binding site [chemical binding]; other site 1048332004688 Walker B motif; other site 1048332004689 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1048332004690 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 1048332004691 catalytic residues [active] 1048332004692 catalytic nucleophile [active] 1048332004693 Presynaptic Site I dimer interface [polypeptide binding]; other site 1048332004694 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1048332004695 Synaptic Flat tetramer interface [polypeptide binding]; other site 1048332004696 Synaptic Site I dimer interface [polypeptide binding]; other site 1048332004697 DNA binding site [nucleotide binding] 1048332004698 Helix-turn-helix domains; Region: HTH; cl00088 1048332004699 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 1048332004700 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 1048332004701 RNA binding site [nucleotide binding]; other site 1048332004702 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 1048332004703 RNA binding site [nucleotide binding]; other site 1048332004704 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 1048332004705 RNA binding site [nucleotide binding]; other site 1048332004706 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 1048332004707 RNA binding site [nucleotide binding]; other site 1048332004708 Protein of unknown function (DUF2969); Region: DUF2969; pfam11184 1048332004709 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1048332004710 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 1048332004711 homodimer interface [polypeptide binding]; other site 1048332004712 substrate-cofactor binding pocket; other site 1048332004713 catalytic residue [active] 1048332004714 DNA topoisomerase IV, A subunit, Gram-positive; Region: parC_Gpos; TIGR01061 1048332004715 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 1048332004716 CAP-like domain; other site 1048332004717 active site 1048332004718 primary dimer interface [polypeptide binding]; other site 1048332004719 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048332004720 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1048332004721 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 1048332004722 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 1048332004723 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 1048332004724 anchoring element; other site 1048332004725 dimer interface [polypeptide binding]; other site 1048332004726 ATP binding site [chemical binding]; other site 1048332004727 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 1048332004728 active site 1048332004729 putative metal-binding site [ion binding]; other site 1048332004730 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1048332004731 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 1048332004732 Domain of unknown function (DUF1912); Region: DUF1912; pfam08930 1048332004733 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 1048332004734 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 1048332004735 S-methylmethionine transporter; Provisional; Region: PRK11387 1048332004736 Predicted GTPase [General function prediction only]; Region: COG0218 1048332004737 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1048332004738 G1 box; other site 1048332004739 GTP/Mg2+ binding site [chemical binding]; other site 1048332004740 Switch I region; other site 1048332004741 G2 box; other site 1048332004742 G3 box; other site 1048332004743 Switch II region; other site 1048332004744 G4 box; other site 1048332004745 G5 box; other site 1048332004746 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1048332004747 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 1048332004748 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 1048332004749 Walker A motif; other site 1048332004750 ATP binding site [chemical binding]; other site 1048332004751 Walker B motif; other site 1048332004752 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1048332004753 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 1048332004754 folate binding site [chemical binding]; other site 1048332004755 NADP+ binding site [chemical binding]; other site 1048332004756 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 1048332004757 dimerization interface [polypeptide binding]; other site 1048332004758 active site 1048332004759 '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 1048332004760 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 1048332004761 dimer interface [polypeptide binding]; other site 1048332004762 active site 1048332004763 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 1048332004764 homodimer interface [polypeptide binding]; other site 1048332004765 NAD binding site [chemical binding]; other site 1048332004766 catalytic residues [active] 1048332004767 substrate binding pocket [chemical binding]; other site 1048332004768 flexible flap; other site 1048332004769 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 1048332004770 Haemolysin-III related; Region: HlyIII; cl03831 1048332004771 PspC domain; Region: PspC; cl00864 1048332004772 Protein of unknown function (DUF3114); Region: DUF3114; pfam11311 1048332004773 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1048332004774 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1048332004775 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 1048332004776 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 1048332004777 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 1048332004778 active site 1048332004779 dimer interface [polypeptide binding]; other site 1048332004780 motif 1; other site 1048332004781 motif 2; other site 1048332004782 motif 3; other site 1048332004783 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 1048332004784 anticodon binding site; other site 1048332004785 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1048332004786 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 1048332004787 putative ADP-binding pocket [chemical binding]; other site 1048332004788 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 1048332004789 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1048332004790 Helix-turn-helix domains; Region: HTH; cl00088 1048332004791 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1048332004792 heme uptake protein IsdB; Region: IsdB; TIGR03657 1048332004793 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 1048332004794 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 1048332004795 Collagen binding domain; Region: Collagen_bind; pfam05737 1048332004796 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332004797 T surface-antigen of pili; Region: FctA; pfam12892 1048332004798 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332004799 T surface-antigen of pili; Region: FctA; pfam12892 1048332004800 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332004801 T surface-antigen of pili; Region: FctA; pfam12892 1048332004802 streptococcal pilin isopeptide linkage domain; Region: strep_pil_rpt; TIGR03786 1048332004803 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1048332004804 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 1048332004805 dimer interface [polypeptide binding]; other site 1048332004806 ADP-ribose binding site [chemical binding]; other site 1048332004807 active site 1048332004808 nudix motif; other site 1048332004809 metal binding site [ion binding]; metal-binding site 1048332004810 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 1048332004811 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1048332004812 Substrate binding site; other site 1048332004813 Mg++ binding site; other site 1048332004814 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 1048332004815 active site 1048332004816 substrate binding site [chemical binding]; other site 1048332004817 CoA binding site [chemical binding]; other site 1048332004818 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 1048332004819 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 1048332004820 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1048332004821 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 1048332004822 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332004823 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1048332004824 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 1048332004825 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 1048332004826 homotetramer interface [polypeptide binding]; other site 1048332004827 FMN binding site [chemical binding]; other site 1048332004828 homodimer contacts [polypeptide binding]; other site 1048332004829 putative active site [active] 1048332004830 putative substrate binding site [chemical binding]; other site 1048332004831 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 1048332004832 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1048332004833 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 1048332004834 mevalonate kinase; Region: mevalon_kin; TIGR00549 1048332004835 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1048332004836 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1048332004837 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 1048332004838 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332004839 Helix-turn-helix domains; Region: HTH; cl00088 1048332004840 Integrase core domain; Region: rve; cl01316 1048332004841 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 1048332004842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332004843 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1048332004844 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1048332004845 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1048332004846 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 1048332004847 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1048332004848 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 1048332004849 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332004850 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 1048332004851 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1048332004852 metal binding site [ion binding]; metal-binding site 1048332004853 dimer interface [polypeptide binding]; other site 1048332004854 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1048332004855 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 1048332004856 RNA binding surface [nucleotide binding]; other site 1048332004857 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 1048332004858 active site 1048332004859 uracil binding [chemical binding]; other site 1048332004860 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 1048332004861 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 1048332004862 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 1048332004863 non-specific DNA binding site [nucleotide binding]; other site 1048332004864 salt bridge; other site 1048332004865 sequence-specific DNA binding site [nucleotide binding]; other site 1048332004866 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 1048332004867 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1048332004868 active site residue [active] 1048332004869 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 1048332004870 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 1048332004871 active site 1048332004872 trimer interface [polypeptide binding]; other site 1048332004873 allosteric site; other site 1048332004874 active site lid [active] 1048332004875 hexamer (dimer of trimers) interface [polypeptide binding]; other site 1048332004876 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1048332004877 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 1048332004878 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048332004879 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332004880 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 1048332004881 Walker A/P-loop; other site 1048332004882 ATP binding site [chemical binding]; other site 1048332004883 Q-loop/lid; other site 1048332004884 ABC transporter signature motif; other site 1048332004885 Walker B; other site 1048332004886 D-loop; other site 1048332004887 H-loop/switch region; other site 1048332004888 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048332004889 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332004890 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332004891 Walker A/P-loop; other site 1048332004892 ATP binding site [chemical binding]; other site 1048332004893 Q-loop/lid; other site 1048332004894 ABC transporter signature motif; other site 1048332004895 Walker B; other site 1048332004896 D-loop; other site 1048332004897 H-loop/switch region; other site 1048332004898 BCCT family transporter; Region: BCCT; cl00569 1048332004899 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 1048332004900 core dimer interface [polypeptide binding]; other site 1048332004901 L10 interface [polypeptide binding]; other site 1048332004902 L11 interface [polypeptide binding]; other site 1048332004903 putative EF-Tu interaction site [polypeptide binding]; other site 1048332004904 putative EF-G interaction site [polypeptide binding]; other site 1048332004905 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 1048332004906 23S rRNA interface [nucleotide binding]; other site 1048332004907 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1048332004908 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1048332004909 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 1048332004910 FtsX-like permease family; Region: FtsX; cl15850 1048332004911 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048332004912 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 1048332004913 Walker A/P-loop; other site 1048332004914 ATP binding site [chemical binding]; other site 1048332004915 Q-loop/lid; other site 1048332004916 ABC transporter signature motif; other site 1048332004917 Walker B; other site 1048332004918 D-loop; other site 1048332004919 H-loop/switch region; other site 1048332004920 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1048332004921 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 1048332004922 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332004923 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1048332004924 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1048332004925 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1048332004926 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1048332004927 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1048332004928 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1048332004929 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 1048332004930 IMP binding site; other site 1048332004931 dimer interface [polypeptide binding]; other site 1048332004932 interdomain contacts; other site 1048332004933 partial ornithine binding site; other site 1048332004934 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1048332004935 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 1048332004936 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1048332004937 catalytic site [active] 1048332004938 subunit interface [polypeptide binding]; other site 1048332004939 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1048332004940 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1048332004941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332004942 uracil transporter; Provisional; Region: PRK10720 1048332004943 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1048332004944 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048332004945 active site 1048332004946 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 1048332004947 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 1048332004948 RNA binding surface [nucleotide binding]; other site 1048332004949 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 1048332004950 active site 1048332004951 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1048332004952 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1048332004953 Helix-turn-helix domains; Region: HTH; cl00088 1048332004954 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 1048332004955 dimerization interface [polypeptide binding]; other site 1048332004956 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 1048332004957 non-specific DNA binding site [nucleotide binding]; other site 1048332004958 salt bridge; other site 1048332004959 sequence-specific DNA binding site [nucleotide binding]; other site 1048332004960 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 1048332004961 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 1048332004962 active site 1048332004963 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332004964 PTS system, beta-glucoside-specific IIABC component; Region: PTS-II-ABC-beta; TIGR01995 1048332004965 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 1048332004966 active site turn [active] 1048332004967 phosphorylation site [posttranslational modification] 1048332004968 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1048332004969 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 1048332004970 HPr interaction site; other site 1048332004971 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1048332004972 active site 1048332004973 phosphorylation site [posttranslational modification] 1048332004974 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 1048332004975 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 1048332004976 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1048332004977 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1048332004978 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 1048332004979 dimer interface [polypeptide binding]; other site 1048332004980 motif 1; other site 1048332004981 active site 1048332004982 motif 2; other site 1048332004983 motif 3; other site 1048332004984 Uncharacterized membrane protein [Function unknown]; Region: COG3949 1048332004985 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1048332004986 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 1048332004987 active site 1048332004988 dimer interface [polypeptide binding]; other site 1048332004989 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1048332004990 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1048332004991 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1048332004992 PhoU domain; Region: PhoU; pfam01895 1048332004993 PhoU domain; Region: PhoU; pfam01895 1048332004994 Bacterial SH3 domain; Region: SH3_3; cl02551 1048332004995 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 1048332004996 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 1048332004997 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1048332004998 active site 1048332004999 motif I; other site 1048332005000 motif II; other site 1048332005001 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332005002 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1048332005003 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 1048332005004 Nitrogen regulatory protein P-II; Region: P-II; cl00412 1048332005005 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1048332005006 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 1048332005007 Predicted methyltransferases [General function prediction only]; Region: COG0313 1048332005008 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 1048332005009 TSC-22/dip/bun family; Region: TSC22; cl01853 1048332005010 PSP1 C-terminal conserved region; Region: PSP1; cl00770 1048332005011 DNA polymerase III subunit delta'; Validated; Region: PRK07276 1048332005012 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332005013 thymidylate kinase; Validated; Region: tmk; PRK00698 1048332005014 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 1048332005015 TMP-binding site; other site 1048332005016 ATP-binding site [chemical binding]; other site 1048332005017 transketolase; Reviewed; Region: PRK05899 1048332005018 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 1048332005019 TPP-binding site [chemical binding]; other site 1048332005020 dimer interface [polypeptide binding]; other site 1048332005021 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 1048332005022 PYR/PP interface [polypeptide binding]; other site 1048332005023 dimer interface [polypeptide binding]; other site 1048332005024 TPP binding site [chemical binding]; other site 1048332005025 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1048332005026 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 1048332005027 substrate binding site [chemical binding]; other site 1048332005028 dimer interface [polypeptide binding]; other site 1048332005029 catalytic triad [active] 1048332005030 elongation factor Tu; Reviewed; Region: PRK00049 1048332005031 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1048332005032 G1 box; other site 1048332005033 GEF interaction site [polypeptide binding]; other site 1048332005034 GTP/Mg2+ binding site [chemical binding]; other site 1048332005035 Switch I region; other site 1048332005036 G2 box; other site 1048332005037 G3 box; other site 1048332005038 Switch II region; other site 1048332005039 G4 box; other site 1048332005040 G5 box; other site 1048332005041 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 1048332005042 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 1048332005043 Antibiotic Binding Site [chemical binding]; other site 1048332005044 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1048332005045 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1048332005046 Helix-turn-helix domains; Region: HTH; cl00088 1048332005047 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1048332005048 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1048332005049 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 1048332005050 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 1048332005051 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1048332005052 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 1048332005053 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 1048332005054 alpha subunit interaction interface [polypeptide binding]; other site 1048332005055 Walker A motif; other site 1048332005056 ATP binding site [chemical binding]; other site 1048332005057 Walker B motif; other site 1048332005058 inhibitor binding site; inhibition site 1048332005059 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1048332005060 ATP synthase; Region: ATP-synt; cl00365 1048332005061 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 1048332005062 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1048332005063 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 1048332005064 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 1048332005065 beta subunit interaction interface [polypeptide binding]; other site 1048332005066 Walker A motif; other site 1048332005067 ATP binding site [chemical binding]; other site 1048332005068 Walker B motif; other site 1048332005069 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1048332005070 Plant ATP synthase F0; Region: YMF19; cl07975 1048332005071 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1048332005072 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1048332005073 Plant ATP synthase F0; Region: YMF19; cl07975 1048332005074 ATP synthase A chain; Region: ATP-synt_A; cl00413 1048332005075 ATP synthase subunit C; Region: ATP-synt_C; cl00466 1048332005076 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1048332005077 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 1048332005078 ArsC family; Region: ArsC; pfam03960 1048332005079 putative ArsC-like catalytic residues; other site 1048332005080 putative TRX-like catalytic residues [active] 1048332005081 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1048332005082 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 1048332005083 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 1048332005084 DNA binding site [nucleotide binding] 1048332005085 active site 1048332005086 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 1048332005087 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332005088 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1048332005089 L-serine binding site [chemical binding]; other site 1048332005090 ACT domain interface; other site 1048332005091 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1048332005092 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1048332005093 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1048332005094 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 1048332005095 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1048332005096 catalytic residue [active] 1048332005097 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1048332005098 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1048332005099 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1048332005100 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1048332005101 dimer interface [polypeptide binding]; other site 1048332005102 active site 1048332005103 metal binding site [ion binding]; metal-binding site 1048332005104 glutathione binding site [chemical binding]; other site 1048332005105 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 1048332005106 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332005107 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1048332005108 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 1048332005109 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1048332005110 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 1048332005111 dimer interface [polypeptide binding]; other site 1048332005112 conserved gate region; other site 1048332005113 putative PBP binding loops; other site 1048332005114 ABC-ATPase subunit interface; other site 1048332005115 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 1048332005116 dimer interface [polypeptide binding]; other site 1048332005117 conserved gate region; other site 1048332005118 putative PBP binding loops; other site 1048332005119 ABC-ATPase subunit interface; other site 1048332005120 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1048332005121 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 1048332005122 Walker A/P-loop; other site 1048332005123 ATP binding site [chemical binding]; other site 1048332005124 Q-loop/lid; other site 1048332005125 ABC transporter signature motif; other site 1048332005126 Walker B; other site 1048332005127 D-loop; other site 1048332005128 H-loop/switch region; other site 1048332005129 TOBE domain; Region: TOBE_2; cl01440 1048332005130 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1048332005131 FAD binding domain; Region: FAD_binding_4; pfam01565 1048332005132 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1048332005133 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 1048332005134 catalytic center binding site [active] 1048332005135 ATP binding site [chemical binding]; other site 1048332005136 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 1048332005137 homooctamer interface [polypeptide binding]; other site 1048332005138 active site 1048332005139 cytoplasmic alpha-amylase; Reviewed; Region: PRK09441 1048332005140 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 1048332005141 active site 1048332005142 Na/Ca binding site [ion binding]; other site 1048332005143 catalytic site [active] 1048332005144 Domain of unknown function (DUF1939); Region: DUF1939; pfam09154 1048332005145 dihydropteroate synthase; Region: DHPS; TIGR01496 1048332005146 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1048332005147 substrate binding pocket [chemical binding]; other site 1048332005148 dimer interface [polypeptide binding]; other site 1048332005149 inhibitor binding site; inhibition site 1048332005150 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1048332005151 homodecamer interface [polypeptide binding]; other site 1048332005152 GTP cyclohydrolase I; Provisional; Region: PLN03044 1048332005153 active site 1048332005154 putative catalytic site residues [active] 1048332005155 zinc binding site [ion binding]; other site 1048332005156 GTP-CH-I/GFRP interaction surface; other site 1048332005157 Amino acid permease; Region: AA_permease_2; pfam13520 1048332005158 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 1048332005159 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1048332005160 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 1048332005161 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 1048332005162 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 1048332005163 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1048332005164 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 1048332005165 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1048332005166 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 1048332005167 active site 1048332005168 phosphorylation site [posttranslational modification] 1048332005169 intermolecular recognition site; other site 1048332005170 dimerization interface [polypeptide binding]; other site 1048332005171 LytTr DNA-binding domain; Region: LytTR; cl04498 1048332005172 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 1048332005173 active site 1048332005174 Domain of unknown function (DUF1971); Region: DUF1971; cl01451 1048332005175 tellurite resistance protein TehB; Provisional; Region: PRK12335 1048332005176 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 1048332005177 S-adenosylmethionine binding site [chemical binding]; other site 1048332005178 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1048332005179 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1048332005180 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 1048332005181 active site 1048332005182 DNA binding site [nucleotide binding] 1048332005183 putative phosphate binding site [ion binding]; other site 1048332005184 putative catalytic site [active] 1048332005185 metal binding site A [ion binding]; metal-binding site 1048332005186 AP binding site [nucleotide binding]; other site 1048332005187 metal binding site B [ion binding]; metal-binding site 1048332005188 QueT transporter; Region: QueT; cl01932 1048332005189 putative transporter; Provisional; Region: PRK10484 1048332005190 Predicted transcriptional regulator [Transcription]; Region: COG2378 1048332005191 WYL domain; Region: WYL; cl14852 1048332005192 putative lipid kinase; Reviewed; Region: PRK13055 1048332005193 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 1048332005194 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1048332005195 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 1048332005196 nucleotide binding pocket [chemical binding]; other site 1048332005197 K-X-D-G motif; other site 1048332005198 catalytic site [active] 1048332005199 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1048332005200 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1048332005201 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 1048332005202 Dimer interface [polypeptide binding]; other site 1048332005203 BRCT sequence motif; other site 1048332005204 QueT transporter; Region: QueT; cl01932 1048332005205 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 1048332005206 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 1048332005207 active site 1048332005208 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 1048332005209 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1048332005210 DNA-binding site [nucleotide binding]; DNA binding site 1048332005211 DRTGG domain; Region: DRTGG; cl12147 1048332005212 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 1048332005213 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1048332005214 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1048332005215 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1048332005216 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 1048332005217 hinge; other site 1048332005218 active site 1048332005219 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1048332005220 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1048332005221 Competence protein; Region: Competence; cl00471 1048332005222 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1048332005223 SLBB domain; Region: SLBB; pfam10531 1048332005224 comEA protein; Region: comE; TIGR01259 1048332005225 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1048332005226 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1048332005227 putative acyl-acceptor binding pocket; other site 1048332005228 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 1048332005229 NodB motif; other site 1048332005230 active site 1048332005231 catalytic site [active] 1048332005232 Zn binding site [ion binding]; other site 1048332005233 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1048332005234 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 1048332005235 S-adenosylmethionine binding site [chemical binding]; other site 1048332005236 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1048332005237 GIY-YIG motif/motif A; other site 1048332005238 putative active site [active] 1048332005239 putative metal binding site [ion binding]; other site 1048332005240 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1048332005241 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 1048332005242 ATP binding site [chemical binding]; other site 1048332005243 Mg++ binding site [ion binding]; other site 1048332005244 motif III; other site 1048332005245 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 1048332005246 nucleotide binding region [chemical binding]; other site 1048332005247 ATP-binding site [chemical binding]; other site 1048332005248 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1048332005249 Protein of unknown function (DUF1696); Region: DUF1696; pfam08000 1048332005250 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 1048332005251 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 1048332005252 non-specific DNA binding site [nucleotide binding]; other site 1048332005253 salt bridge; other site 1048332005254 sequence-specific DNA binding site [nucleotide binding]; other site 1048332005255 transcriptional activator, Rgg/GadR/MutR family, C-terminal domain; Region: RGG_Cterm; TIGR01716 1048332005256 hypothetical protein;N-terminal part of a membrane protein found in syntheny in S. thermophilus. C terminal part is following ORF. Sequence checked OK for mutation (missing A in a AAA sequence present in S. thermophilus homolog) 1048332005257 hypothetical protein;C-terminal end of protein, due to frameshift mutation (AAA > AA). Checked manually on read alignments 1048332005258 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1048332005259 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1048332005260 G1 box; other site 1048332005261 putative GEF interaction site [polypeptide binding]; other site 1048332005262 GTP/Mg2+ binding site [chemical binding]; other site 1048332005263 Switch I region; other site 1048332005264 G2 box; other site 1048332005265 G3 box; other site 1048332005266 Switch II region; other site 1048332005267 G4 box; other site 1048332005268 G5 box; other site 1048332005269 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 1048332005270 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; cl02331 1048332005271 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 1048332005272 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1048332005273 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1048332005274 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1048332005275 putative transposase OrfB; Reviewed; Region: PHA02517 1048332005276 HTH-like domain; Region: HTH_21; pfam13276 1048332005277 Integrase core domain; Region: rve; cl01316 1048332005278 Integrase core domain; Region: rve_3; cl15866 1048332005279 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1048332005280 Helix-turn-helix domains; Region: HTH; cl00088 1048332005281 Helix-turn-helix domains; Region: HTH; cl00088 1048332005282 Helix-turn-helix domains; Region: HTH; cl00088 1048332005283 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 1048332005284 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 1048332005285 substrate binding pocket [chemical binding]; other site 1048332005286 membrane-bound complex binding site; other site 1048332005287 hinge residues; other site 1048332005288 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1048332005289 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 1048332005290 Walker A/P-loop; other site 1048332005291 ATP binding site [chemical binding]; other site 1048332005292 Q-loop/lid; other site 1048332005293 ABC transporter signature motif; other site 1048332005294 Walker B; other site 1048332005295 D-loop; other site 1048332005296 H-loop/switch region; other site 1048332005297 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 1048332005298 dimer interface [polypeptide binding]; other site 1048332005299 conserved gate region; other site 1048332005300 putative PBP binding loops; other site 1048332005301 ABC-ATPase subunit interface; other site 1048332005302 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1048332005303 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 1048332005304 dimer interface [polypeptide binding]; other site 1048332005305 conserved gate region; other site 1048332005306 putative PBP binding loops; other site 1048332005307 ABC-ATPase subunit interface; other site 1048332005308 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1048332005309 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1048332005310 ATP-grasp domain; Region: ATP-grasp_4; cl03087 1048332005311 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 1048332005312 metal-binding site [ion binding] 1048332005313 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1048332005314 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 1048332005315 metal-binding site [ion binding] 1048332005316 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1048332005317 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332005318 copper transport repressor, CopY/TcrY family; Region: CopY_TcrY; TIGR02698 1048332005319 Helix-turn-helix domains; Region: HTH; cl00088 1048332005320 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 1048332005321 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 1048332005322 substrate binding site [chemical binding]; other site 1048332005323 active site 1048332005324 catalytic residues [active] 1048332005325 heterodimer interface [polypeptide binding]; other site 1048332005326 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 1048332005327 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 1048332005328 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332005329 catalytic residue [active] 1048332005330 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 1048332005331 active site 1048332005332 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 1048332005333 active site 1048332005334 ribulose/triose binding site [chemical binding]; other site 1048332005335 phosphate binding site [ion binding]; other site 1048332005336 substrate (anthranilate) binding pocket [chemical binding]; other site 1048332005337 product (indole) binding pocket [chemical binding]; other site 1048332005338 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1048332005339 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1048332005340 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1048332005341 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1048332005342 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1048332005343 glutamine binding [chemical binding]; other site 1048332005344 catalytic triad [active] 1048332005345 anthranilate synthase component I; Provisional; Region: PRK13570 1048332005346 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1048332005347 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1048332005348 Chorismate mutase type II; Region: CM_2; cl00693 1048332005349 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 1048332005350 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 1048332005351 Walker A/P-loop; other site 1048332005352 ATP binding site [chemical binding]; other site 1048332005353 Q-loop/lid; other site 1048332005354 ABC transporter signature motif; other site 1048332005355 Walker B; other site 1048332005356 D-loop; other site 1048332005357 H-loop/switch region; other site 1048332005358 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 1048332005359 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 1048332005360 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 1048332005361 Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis]; Region: PheT; COG0072 1048332005362 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 1048332005363 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1048332005364 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332005365 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 1048332005366 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 1048332005367 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048332005368 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 1048332005369 Walker A/P-loop; other site 1048332005370 ATP binding site [chemical binding]; other site 1048332005371 Q-loop/lid; other site 1048332005372 ABC transporter signature motif; other site 1048332005373 Walker B; other site 1048332005374 D-loop; other site 1048332005375 H-loop/switch region; other site 1048332005376 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1048332005377 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 1048332005378 dimer interface [polypeptide binding]; other site 1048332005379 FtsX-like permease family; Region: FtsX; cl15850 1048332005380 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 1048332005381 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1048332005382 FtsX-like permease family; Region: FtsX; cl15850 1048332005383 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1048332005384 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1048332005385 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 1048332005386 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1048332005387 DNA binding residues [nucleotide binding] 1048332005388 dimer interface [polypeptide binding]; other site 1048332005389 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1048332005390 active site 1048332005391 substrate binding site [chemical binding]; other site 1048332005392 catalytic site [active] 1048332005393 Helix-turn-helix domains; Region: HTH; cl00088 1048332005394 phosphodiesterase; Provisional; Region: PRK12704 1048332005395 Domain of unknown function DUF59; Region: DUF59; cl00941 1048332005396 6-phosphogluconate dehydratase; Region: edd; TIGR01196 1048332005397 Dehydratase family; Region: ILVD_EDD; cl00340 1048332005398 HI0933-like protein; Region: HI0933_like; pfam03486 1048332005399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332005400 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 1048332005401 S-adenosylmethionine binding site [chemical binding]; other site 1048332005402 Phosphotransferase enzyme family; Region: APH; pfam01636 1048332005403 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1048332005404 active site 1048332005405 ATP binding site [chemical binding]; other site 1048332005406 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1048332005407 substrate binding site [chemical binding]; other site 1048332005408 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 1048332005409 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1048332005410 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 1048332005411 Walker A/P-loop; other site 1048332005412 ATP binding site [chemical binding]; other site 1048332005413 Q-loop/lid; other site 1048332005414 ABC transporter signature motif; other site 1048332005415 Walker B; other site 1048332005416 D-loop; other site 1048332005417 H-loop/switch region; other site 1048332005418 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 1048332005419 HIT family signature motif; other site 1048332005420 catalytic residue [active] 1048332005421 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 1048332005422 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 1048332005423 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 1048332005424 Walker A motif; other site 1048332005425 ATP binding site [chemical binding]; other site 1048332005426 Walker B motif; other site 1048332005427 arginine finger; other site 1048332005428 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 1048332005429 Walker A motif; other site 1048332005430 ATP binding site [chemical binding]; other site 1048332005431 Walker B motif; other site 1048332005432 arginine finger; other site 1048332005433 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 1048332005434 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 1048332005435 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1048332005436 hypothetical protein; Provisional; Region: PRK13670 1048332005437 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1048332005438 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 1048332005439 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 1048332005440 S-adenosylmethionine binding site [chemical binding]; other site 1048332005441 Oligomerisation domain; Region: Oligomerisation; cl00519 1048332005442 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 1048332005443 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 1048332005444 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1048332005445 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1048332005446 active site 1048332005447 (T/H)XGH motif; other site 1048332005448 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 1048332005449 GTPase YqeH; Provisional; Region: PRK13796 1048332005450 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 1048332005451 GTP/Mg2+ binding site [chemical binding]; other site 1048332005452 G4 box; other site 1048332005453 G5 box; other site 1048332005454 G1 box; other site 1048332005455 Switch I region; other site 1048332005456 G2 box; other site 1048332005457 G3 box; other site 1048332005458 Switch II region; other site 1048332005459 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 1048332005460 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 1048332005461 active site 1048332005462 motif I; other site 1048332005463 motif II; other site 1048332005464 EamA-like transporter family; Region: EamA; cl01037 1048332005465 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1048332005466 cellobiose phosphotransferase system IIC component; Reviewed; Region: celD; PRK09592 1048332005467 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1048332005468 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 1048332005469 methionine cluster; other site 1048332005470 active site 1048332005471 phosphorylation site [posttranslational modification] 1048332005472 metal binding site [ion binding]; metal-binding site 1048332005473 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 1048332005474 Helix-turn-helix domains; Region: HTH; cl00088 1048332005475 Helix-turn-helix domains; Region: HTH; cl00088 1048332005476 PRD domain; Region: PRD; cl15445 1048332005477 PRD domain; Region: PRD; cl15445 1048332005478 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 1048332005479 P-loop; other site 1048332005480 active site 1048332005481 phosphorylation site [posttranslational modification] 1048332005482 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1048332005483 active site 1048332005484 phosphorylation site [posttranslational modification] 1048332005485 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 1048332005486 P-loop; other site 1048332005487 active site 1048332005488 phosphorylation site [posttranslational modification] 1048332005489 PQ loop repeat; Region: PQ-loop; cl12056 1048332005490 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1048332005491 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1048332005492 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1048332005493 GatB domain; Region: GatB_Yqey; cl11497 1048332005494 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1048332005495 Amidase; Region: Amidase; cl11426 1048332005496 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 1048332005497 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 1048332005498 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 1048332005499 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 1048332005500 Predicted transcriptional regulator [Transcription]; Region: COG2378 1048332005501 Helix-turn-helix domains; Region: HTH; cl00088 1048332005502 WYL domain; Region: WYL; cl14852 1048332005503 Isochorismatase family; Region: Isochorismatase; pfam00857 1048332005504 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 1048332005505 catalytic triad [active] 1048332005506 conserved cis-peptide bond; other site 1048332005507 transcriptional repressor CodY; Validated; Region: PRK04158 1048332005508 CodY GAF-like domain; Region: CodY; pfam06018 1048332005509 Helix-turn-helix domains; Region: HTH; cl00088 1048332005510 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1048332005511 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 1048332005512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332005513 homodimer interface [polypeptide binding]; other site 1048332005514 catalytic residue [active] 1048332005515 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 1048332005516 Ligand Binding Site [chemical binding]; other site 1048332005517 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 1048332005518 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 1048332005519 FeS/SAM binding site; other site 1048332005520 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1048332005521 Domain of unknown function DUF21; Region: DUF21; pfam01595 1048332005522 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 1048332005523 Transporter associated domain; Region: CorC_HlyC; cl08393 1048332005524 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1048332005525 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332005526 Walker A/P-loop; other site 1048332005527 ATP binding site [chemical binding]; other site 1048332005528 Q-loop/lid; other site 1048332005529 ABC transporter signature motif; other site 1048332005530 Walker B; other site 1048332005531 D-loop; other site 1048332005532 H-loop/switch region; other site 1048332005533 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 1048332005534 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 1048332005535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332005536 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 1048332005537 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1048332005538 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 1048332005539 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 1048332005540 protein binding site [polypeptide binding]; other site 1048332005541 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 1048332005542 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1048332005543 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1048332005544 active site 1048332005545 (T/H)XGH motif; other site 1048332005546 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 1048332005547 S-adenosylmethionine binding site [chemical binding]; other site 1048332005548 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1048332005549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332005550 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1048332005551 Protein of unknown function (DUF4059); Region: DUF4059; pfam13268 1048332005552 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1048332005553 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 1048332005554 Walker A/P-loop; other site 1048332005555 ATP binding site [chemical binding]; other site 1048332005556 Q-loop/lid; other site 1048332005557 ABC transporter signature motif; other site 1048332005558 Walker B; other site 1048332005559 D-loop; other site 1048332005560 H-loop/switch region; other site 1048332005561 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 1048332005562 dimer interface [polypeptide binding]; other site 1048332005563 conserved gate region; other site 1048332005564 putative PBP binding loops; other site 1048332005565 ABC-ATPase subunit interface; other site 1048332005566 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1048332005567 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 1048332005568 substrate binding pocket [chemical binding]; other site 1048332005569 membrane-bound complex binding site; other site 1048332005570 hinge residues; other site 1048332005571 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1048332005572 active site 1048332005573 DNA polymerase IV; Validated; Region: PRK02406 1048332005574 DNA binding site [nucleotide binding] 1048332005575 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 1048332005576 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1048332005577 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332005578 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 1048332005579 active site 1048332005580 zinc binding site [ion binding]; other site 1048332005581 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048332005582 Coenzyme A binding pocket [chemical binding]; other site 1048332005583 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1048332005584 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 1048332005585 CAAX protease self-immunity; Region: Abi; cl00558 1048332005586 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 1048332005587 amphipathic channel; other site 1048332005588 Asn-Pro-Ala signature motifs; other site 1048332005589 x-prolyl-dipeptidyl aminopeptidase; Provisional; Region: PRK05371 1048332005590 X-Prolyl dipeptidyl aminopeptidase PepX, N-terminal; Region: PepX_N; cl07696 1048332005591 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 1048332005592 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332005593 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332005594 Helix-turn-helix domains; Region: HTH; cl00088 1048332005595 Integrase core domain; Region: rve; cl01316 1048332005596 Enterocin A Immunity; Region: EntA_Immun; pfam08951 1048332005597 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1048332005598 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 1048332005599 active site 1048332005600 phosphorylation site [posttranslational modification] 1048332005601 intermolecular recognition site; other site 1048332005602 dimerization interface [polypeptide binding]; other site 1048332005603 LytTr DNA-binding domain; Region: LytTR; cl04498 1048332005604 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1048332005605 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 1048332005606 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1048332005607 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332005608 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 1048332005609 Walker A/P-loop; other site 1048332005610 ATP binding site [chemical binding]; other site 1048332005611 Q-loop/lid; other site 1048332005612 ABC transporter signature motif; other site 1048332005613 Walker B; other site 1048332005614 D-loop; other site 1048332005615 H-loop/switch region; other site 1048332005616 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 1048332005617 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 1048332005618 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332005619 Walker A/P-loop; other site 1048332005620 ATP binding site [chemical binding]; other site 1048332005621 Q-loop/lid; other site 1048332005622 ABC transporter signature motif; other site 1048332005623 Walker B; other site 1048332005624 D-loop; other site 1048332005625 H-loop/switch region; other site 1048332005626 VanZ like family; Region: VanZ; cl01971 1048332005627 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 1048332005628 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 1048332005629 FeS/SAM binding site; other site 1048332005630 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 1048332005631 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 1048332005632 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1048332005633 active site 1048332005634 metal binding site [ion binding]; metal-binding site 1048332005635 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 1048332005636 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1048332005637 ATP binding site [chemical binding]; other site 1048332005638 Mg++ binding site [ion binding]; other site 1048332005639 motif III; other site 1048332005640 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 1048332005641 nucleotide binding region [chemical binding]; other site 1048332005642 ATP-binding site [chemical binding]; other site 1048332005643 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1048332005644 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 1048332005645 Mg++ binding site [ion binding]; other site 1048332005646 putative catalytic motif [active] 1048332005647 putative substrate binding site [chemical binding]; other site 1048332005648 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1048332005649 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1048332005650 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1048332005651 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 1048332005652 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 1048332005653 Septum formation initiator; Region: DivIC; cl11433 1048332005654 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1048332005655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332005656 Protein of unknown function (DUF805); Region: DUF805; cl01224 1048332005657 Protein of unknown function (DUF805); Region: DUF805; cl01224 1048332005658 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1048332005659 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1048332005660 putative catalytic cysteine [active] 1048332005661 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 1048332005662 nucleotide binding site [chemical binding]; other site 1048332005663 homotetrameric interface [polypeptide binding]; other site 1048332005664 putative phosphate binding site [ion binding]; other site 1048332005665 putative allosteric binding site; other site 1048332005666 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1048332005667 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 1048332005668 Walker A/P-loop; other site 1048332005669 ATP binding site [chemical binding]; other site 1048332005670 Q-loop/lid; other site 1048332005671 ABC transporter signature motif; other site 1048332005672 Walker B; other site 1048332005673 D-loop; other site 1048332005674 H-loop/switch region; other site 1048332005675 Protein of unknown function (DUF554); Region: DUF554; cl00784 1048332005676 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1048332005677 Helix-turn-helix domains; Region: HTH; cl00088 1048332005678 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1048332005679 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 1048332005680 Family description; Region: UvrD_C_2; cl15862 1048332005681 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1048332005682 ATP-dependent nuclease subunit B; Region: rexB_recomb; TIGR02774 1048332005683 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1048332005684 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1048332005685 Helix-turn-helix domains; Region: HTH; cl00088 1048332005686 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1048332005687 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1048332005688 Cor1/Xlr/Xmr conserved region; Region: Cor1; pfam04803 1048332005689 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1048332005690 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332005691 Walker A/P-loop; other site 1048332005692 ATP binding site [chemical binding]; other site 1048332005693 Q-loop/lid; other site 1048332005694 ABC transporter signature motif; other site 1048332005695 Walker B; other site 1048332005696 D-loop; other site 1048332005697 H-loop/switch region; other site 1048332005698 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1048332005699 Microcin C7 self-immunity protein determines resistance to exogenous microcin C7; Region: Peptidase_S66_mccF_like; cd07062 1048332005700 putative dimer interface [polypeptide binding]; other site 1048332005701 catalytic triad [active] 1048332005702 PQ loop repeat; Region: PQ-loop; cl12056 1048332005703 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cl00700 1048332005704 LytTr DNA-binding domain; Region: LytTR; cl04498 1048332005705 Predicted membrane protein [Function unknown]; Region: COG4640 1048332005706 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 1048332005707 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 1048332005708 active site 1048332005709 motif I; other site 1048332005710 motif II; other site 1048332005711 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 1048332005712 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 1048332005713 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1048332005714 active site 1048332005715 homodimer interface [polypeptide binding]; other site 1048332005716 homotetramer interface [polypeptide binding]; other site 1048332005717 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 1048332005718 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 1048332005719 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1048332005720 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 1048332005721 generic binding surface II; other site 1048332005722 ssDNA binding site; other site 1048332005723 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 1048332005724 ATP binding site [chemical binding]; other site 1048332005725 putative Mg++ binding site [ion binding]; other site 1048332005726 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 1048332005727 nucleotide binding region [chemical binding]; other site 1048332005728 ATP-binding site [chemical binding]; other site 1048332005729 alanine racemase; Reviewed; Region: alr; PRK00053 1048332005730 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1048332005731 active site 1048332005732 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1048332005733 dimer interface [polypeptide binding]; other site 1048332005734 substrate binding site [chemical binding]; other site 1048332005735 catalytic residues [active] 1048332005736 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 1048332005737 NeuB family; Region: NeuB; cl00496 1048332005738 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1048332005739 NeuB family; Region: NeuB; cl00496 1048332005740 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1048332005741 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1048332005742 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 1048332005743 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 1048332005744 nucleotide binding region [chemical binding]; other site 1048332005745 ATP-binding site [chemical binding]; other site 1048332005746 SEC-C motif; Region: SEC-C; pfam02810 1048332005747 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 1048332005748 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 1048332005749 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1048332005750 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 1048332005751 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 1048332005752 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 1048332005753 active site turn [active] 1048332005754 phosphorylation site [posttranslational modification] 1048332005755 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1048332005756 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 1048332005757 HPr interaction site; other site 1048332005758 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1048332005759 active site 1048332005760 phosphorylation site [posttranslational modification] 1048332005761 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 1048332005762 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 1048332005763 substrate binding [chemical binding]; other site 1048332005764 active site 1048332005765 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 1048332005766 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1048332005767 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1048332005768 DNA binding site [nucleotide binding] 1048332005769 domain linker motif; other site 1048332005770 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 1048332005771 dimerization interface [polypeptide binding]; other site 1048332005772 ligand binding site [chemical binding]; other site 1048332005773 sodium binding site [ion binding]; other site 1048332005774 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 1048332005775 putative RNA binding site [nucleotide binding]; other site 1048332005776 Asp23 family; Region: Asp23; cl00574 1048332005777 elongation factor P; Validated; Region: PRK00529 1048332005778 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1048332005779 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 1048332005780 RNA binding site [nucleotide binding]; other site 1048332005781 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 1048332005782 RNA binding site [nucleotide binding]; other site 1048332005783 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 1048332005784 catalytic motif [active] 1048332005785 Zn binding site [ion binding]; other site 1048332005786 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1048332005787 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1048332005788 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 1048332005789 active site 1048332005790 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 1048332005791 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 1048332005792 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332005793 Walker A/P-loop; other site 1048332005794 ATP binding site [chemical binding]; other site 1048332005795 Q-loop/lid; other site 1048332005796 ABC transporter signature motif; other site 1048332005797 Walker B; other site 1048332005798 D-loop; other site 1048332005799 H-loop/switch region; other site 1048332005800 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 1048332005801 catalytic residues [active] 1048332005802 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332005803 Protein of unknown function (DUF3923); Region: DUF3923; pfam13061 1048332005804 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1048332005805 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 1048332005806 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 1048332005807 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 1048332005808 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1048332005809 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 1048332005810 Domain of unknown function (DUF4300); Region: DUF4300; pfam14133 1048332005811 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 1048332005812 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1048332005813 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 1048332005814 dimer interface [polypeptide binding]; other site 1048332005815 ssDNA binding site [nucleotide binding]; other site 1048332005816 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1048332005817 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 1048332005818 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1048332005819 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1048332005820 minor groove reading motif; other site 1048332005821 helix-hairpin-helix signature motif; other site 1048332005822 substrate binding pocket [chemical binding]; other site 1048332005823 active site 1048332005824 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 1048332005825 DNA binding and oxoG recognition site [nucleotide binding] 1048332005826 DNA polymerase I; Provisional; Region: PRK05755 1048332005827 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1048332005828 active site 1048332005829 metal binding site 1 [ion binding]; metal-binding site 1048332005830 putative 5' ssDNA interaction site; other site 1048332005831 metal binding site 3; metal-binding site 1048332005832 metal binding site 2 [ion binding]; metal-binding site 1048332005833 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1048332005834 putative DNA binding site [nucleotide binding]; other site 1048332005835 putative metal binding site [ion binding]; other site 1048332005836 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 1048332005837 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1048332005838 active site 1048332005839 DNA binding site [nucleotide binding] 1048332005840 catalytic site [active] 1048332005841 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1048332005842 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 1048332005843 active site 1048332005844 phosphorylation site [posttranslational modification] 1048332005845 intermolecular recognition site; other site 1048332005846 dimerization interface [polypeptide binding]; other site 1048332005847 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 1048332005848 DNA binding residues [nucleotide binding] 1048332005849 dimerization interface [polypeptide binding]; other site 1048332005850 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1048332005851 FtsX-like permease family; Region: FtsX; cl15850 1048332005852 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1048332005853 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 1048332005854 Walker A/P-loop; other site 1048332005855 ATP binding site [chemical binding]; other site 1048332005856 Q-loop/lid; other site 1048332005857 ABC transporter signature motif; other site 1048332005858 Walker B; other site 1048332005859 D-loop; other site 1048332005860 H-loop/switch region; other site 1048332005861 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 1048332005862 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 1048332005863 Walker A/P-loop; other site 1048332005864 ATP binding site [chemical binding]; other site 1048332005865 Q-loop/lid; other site 1048332005866 ABC transporter signature motif; other site 1048332005867 Walker B; other site 1048332005868 D-loop; other site 1048332005869 H-loop/switch region; other site 1048332005870 Smr domain; Region: Smr; cl02619 1048332005871 Colicin V production protein; Region: Colicin_V; cl00567 1048332005872 ribonuclease HIII; Provisional; Region: PRK00996 1048332005873 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 1048332005874 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 1048332005875 RNA/DNA hybrid binding site [nucleotide binding]; other site 1048332005876 active site 1048332005877 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 1048332005878 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 1048332005879 Catalytic site [active] 1048332005880 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 1048332005881 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 1048332005882 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332005883 Family description; Region: UvrD_C_2; cl15862 1048332005884 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 1048332005885 AzlC protein; Region: AzlC; cl00570 1048332005886 UGMP family protein; Validated; Region: PRK09604 1048332005887 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 1048332005888 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 1048332005889 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1048332005890 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1048332005891 Coenzyme A binding pocket [chemical binding]; other site 1048332005892 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 1048332005893 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 1048332005894 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1048332005895 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 1048332005896 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1048332005897 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 1048332005898 putative peptidoglycan binding site; other site 1048332005899 NlpC/P60 family; Region: NLPC_P60; cl11438 1048332005900 glutamine synthetase, type I; Region: GlnA; TIGR00653 1048332005901 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1048332005902 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1048332005903 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 1048332005904 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1048332005905 DNA binding residues [nucleotide binding] 1048332005906 putative dimer interface [polypeptide binding]; other site 1048332005907 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 1048332005908 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; cl00198 1048332005909 Phosphoglycerate kinase; Region: PGK; pfam00162 1048332005910 substrate binding site [chemical binding]; other site 1048332005911 hinge regions; other site 1048332005912 ADP binding site [chemical binding]; other site 1048332005913 catalytic site [active] 1048332005914 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1048332005915 Helix-turn-helix domains; Region: HTH; cl00088 1048332005916 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1048332005917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332005918 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 1048332005919 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 1048332005920 elongation factor G; Reviewed; Region: PRK00007 1048332005921 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1048332005922 G1 box; other site 1048332005923 putative GEF interaction site [polypeptide binding]; other site 1048332005924 GTP/Mg2+ binding site [chemical binding]; other site 1048332005925 Switch I region; other site 1048332005926 G2 box; other site 1048332005927 G3 box; other site 1048332005928 Switch II region; other site 1048332005929 G4 box; other site 1048332005930 G5 box; other site 1048332005931 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 1048332005932 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 1048332005933 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 1048332005934 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 1048332005935 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 1048332005936 S17 interaction site [polypeptide binding]; other site 1048332005937 S8 interaction site; other site 1048332005938 16S rRNA interaction site [nucleotide binding]; other site 1048332005939 streptomycin interaction site [chemical binding]; other site 1048332005940 23S rRNA interaction site [nucleotide binding]; other site 1048332005941 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1048332005942 pur operon repressor; Provisional; Region: PRK09213 1048332005943 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 1048332005944 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1048332005945 active site 1048332005946 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 1048332005947 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 1048332005948 generic binding surface II; other site 1048332005949 generic binding surface I; other site 1048332005950 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1048332005951 Zn2+ binding site [ion binding]; other site 1048332005952 Mg2+ binding site [ion binding]; other site 1048332005953 hypothetical protein; Provisional; Region: PRK11281 1048332005954 RmuC family; Region: RmuC; pfam02646 1048332005955 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1048332005956 Thiamine pyrophosphokinase; Region: TPK; cd07995 1048332005957 active site 1048332005958 dimerization interface [polypeptide binding]; other site 1048332005959 thiamine binding site [chemical binding]; other site 1048332005960 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1048332005961 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 1048332005962 substrate binding site [chemical binding]; other site 1048332005963 hexamer interface [polypeptide binding]; other site 1048332005964 metal binding site [ion binding]; metal-binding site 1048332005965 GTPase RsgA; Reviewed; Region: PRK00098 1048332005966 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 1048332005967 RNA binding site [nucleotide binding]; other site 1048332005968 homodimer interface [polypeptide binding]; other site 1048332005969 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1048332005970 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1048332005971 GTP/Mg2+ binding site [chemical binding]; other site 1048332005972 G4 box; other site 1048332005973 G1 box; other site 1048332005974 Switch I region; other site 1048332005975 G2 box; other site 1048332005976 G3 box; other site 1048332005977 Switch II region; other site 1048332005978 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332005979 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 1048332005980 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 1048332005981 putative active site [active] 1048332005982 putative metal binding site [ion binding]; other site 1048332005983 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 1048332005984 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1048332005985 active site 1048332005986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332005987 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 1048332005988 catalytic residues [active] 1048332005989 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 1048332005990 putative ADP-ribose binding site [chemical binding]; other site 1048332005991 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 1048332005992 active site 1048332005993 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 1048332005994 catalytic residues [active] 1048332005995 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 1048332005996 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1048332005997 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 1048332005998 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1048332005999 Helix-turn-helix domains; Region: HTH; cl00088 1048332006000 WHG domain; Region: WHG; pfam13305 1048332006001 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 1048332006002 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 1048332006003 G-X-X-G motif; other site 1048332006004 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 1048332006005 RxxxH motif; other site 1048332006006 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 1048332006007 Ribonuclease P; Region: Ribonuclease_P; cl00457 1048332006008 argininosuccinate lyase; Provisional; Region: PRK00855 1048332006009 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1048332006010 active sites [active] 1048332006011 tetramer interface [polypeptide binding]; other site 1048332006012 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 1048332006013 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 1048332006014 ANP binding site [chemical binding]; other site 1048332006015 Substrate Binding Site II [chemical binding]; other site 1048332006016 Substrate Binding Site I [chemical binding]; other site 1048332006017 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332006018 Integrase core domain; Region: rve; cl01316 1048332006019 potential frameshift: common BLAST hit: gi|222153771|ref|YP_002562948.1| response regulator protein 1048332006020 LytTr DNA-binding domain; Region: LytTR; cl04498 1048332006021 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1048332006022 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 1048332006023 active site 1048332006024 phosphorylation site [posttranslational modification] 1048332006025 intermolecular recognition site; other site 1048332006026 dimerization interface [polypeptide binding]; other site 1048332006027 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1048332006028 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1048332006029 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 1048332006030 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 1048332006031 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1048332006032 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1048332006033 active site 1048332006034 HIGH motif; other site 1048332006035 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1048332006036 active site 1048332006037 KMSKS motif; other site 1048332006038 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1048332006039 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1048332006040 peptide binding site [polypeptide binding]; other site 1048332006041 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 1048332006042 mRNA/rRNA interface [nucleotide binding]; other site 1048332006043 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1048332006044 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 1048332006045 23S rRNA interface [nucleotide binding]; other site 1048332006046 L7/L12 interface [polypeptide binding]; other site 1048332006047 putative thiostrepton binding site; other site 1048332006048 L25 interface [polypeptide binding]; other site 1048332006049 Protein of unknown function (DUF3397); Region: DUF3397; pfam11877 1048332006050 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 1048332006051 active site clefts [active] 1048332006052 zinc binding site [ion binding]; other site 1048332006053 dimer interface [polypeptide binding]; other site 1048332006054 Mitochondrial biogenesis AIM24; Region: AIM24; cl00884 1048332006055 DNA repair protein RadA; Provisional; Region: PRK11823 1048332006056 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332006057 Walker A motif; other site 1048332006058 ATP binding site [chemical binding]; other site 1048332006059 Walker B motif; other site 1048332006060 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 1048332006061 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 1048332006062 catalytic triad [active] 1048332006063 conserved cis-peptide bond; other site 1048332006064 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1048332006065 trimer interface [polypeptide binding]; other site 1048332006066 active site 1048332006067 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1048332006068 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 1048332006069 Uncharacterized conserved protein [Function unknown]; Region: COG2461 1048332006070 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 1048332006071 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 1048332006072 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1048332006073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332006074 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1048332006075 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1048332006076 active site 1048332006077 tetramer interface; other site 1048332006078 Rhomboid family; Region: Rhomboid; cl11446 1048332006079 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 1048332006080 M20 Peptidase Aminoacyclase-1 YkuR-like proteins, including YkuR and Ama/HipO/HyuC proteins; Region: M20_Acy1_YkuR_like; cd05670 1048332006081 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1048332006082 metal binding site [ion binding]; metal-binding site 1048332006083 putative dimer interface [polypeptide binding]; other site 1048332006084 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 1048332006085 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 1048332006086 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 1048332006087 trimer interface [polypeptide binding]; other site 1048332006088 active site 1048332006089 substrate binding site [chemical binding]; other site 1048332006090 CoA binding site [chemical binding]; other site 1048332006091 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 1048332006092 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 1048332006093 motif II; other site 1048332006094 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1048332006095 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 1048332006096 S-adenosylmethionine binding site [chemical binding]; other site 1048332006097 class IIb bacteriocin, lactobin A/cerein 7B family; Region: bact_IIb_cerein; TIGR03949 1048332006098 class IIb bacteriocin, lactobin A/cerein 7B family; Region: bact_IIb_cerein; TIGR03949 1048332006099 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 1048332006100 nucleoside/Zn binding site; other site 1048332006101 dimer interface [polypeptide binding]; other site 1048332006102 catalytic motif [active] 1048332006103 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 1048332006104 dimer interface [polypeptide binding]; other site 1048332006105 ssDNA binding site [nucleotide binding]; other site 1048332006106 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1048332006107 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 1048332006108 CPxP motif; other site 1048332006109 Sulphur transport; Region: Sulf_transp; cl01018 1048332006110 putative inner membrane protein; Provisional; Region: PRK11099 1048332006111 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 1048332006112 putative tRNA-binding site [nucleotide binding]; other site 1048332006113 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 1048332006114 catalytic residues [active] 1048332006115 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 1048332006116 M42 Peptidases, also known as glutamyl aminopeptidase family; Region: M42; cd05638 1048332006117 oligomer interface [polypeptide binding]; other site 1048332006118 active site 1048332006119 metal binding site [ion binding]; metal-binding site 1048332006120 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1048332006121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332006122 CAAX protease self-immunity; Region: Abi; cl00558 1048332006123 CAAX protease self-immunity; Region: Abi; cl00558 1048332006124 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 1048332006125 non-specific DNA binding site [nucleotide binding]; other site 1048332006126 salt bridge; other site 1048332006127 sequence-specific DNA binding site [nucleotide binding]; other site 1048332006128 Acetokinase family; Region: Acetate_kinase; cl01029 1048332006129 propionate/acetate kinase; Provisional; Region: PRK12379 1048332006130 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 1048332006131 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332006132 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 1048332006133 Type II secretory pathway pseudopilin; Region: PulG; pfam11773 1048332006134 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 1048332006135 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1048332006136 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 1048332006137 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332006138 Walker A motif; other site 1048332006139 ATP binding site [chemical binding]; other site 1048332006140 Walker B motif; other site 1048332006141 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 1048332006142 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1048332006143 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1048332006144 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 1048332006145 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1048332006146 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1048332006147 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1048332006148 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 1048332006149 G-loop; other site 1048332006150 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1048332006151 DNA binding site [nucleotide binding] 1048332006152 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1048332006153 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 1048332006154 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1048332006155 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 1048332006156 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 1048332006157 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 1048332006158 RPB1 interaction site [polypeptide binding]; other site 1048332006159 RPB10 interaction site [polypeptide binding]; other site 1048332006160 RPB11 interaction site [polypeptide binding]; other site 1048332006161 RPB3 interaction site [polypeptide binding]; other site 1048332006162 RPB12 interaction site [polypeptide binding]; other site 1048332006163 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1048332006164 Transglycosylase; Region: Transgly; cl07896 1048332006165 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 1048332006166 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1048332006167 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1048332006168 active site 1048332006169 HIGH motif; other site 1048332006170 dimer interface [polypeptide binding]; other site 1048332006171 KMSKS motif; other site 1048332006172 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 1048332006173 RNA binding surface [nucleotide binding]; other site 1048332006174 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332006175 Helix-turn-helix domains; Region: HTH; cl00088 1048332006176 Integrase core domain; Region: rve; cl01316 1048332006177 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1048332006178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332006179 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1048332006180 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1048332006181 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1048332006182 putative valine binding site [chemical binding]; other site 1048332006183 dimer interface [polypeptide binding]; other site 1048332006184 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1048332006185 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07282 1048332006186 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1048332006187 PYR/PP interface [polypeptide binding]; other site 1048332006188 dimer interface [polypeptide binding]; other site 1048332006189 TPP binding site [chemical binding]; other site 1048332006190 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 1048332006191 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 1048332006192 TPP-binding site [chemical binding]; other site 1048332006193 dimer interface [polypeptide binding]; other site 1048332006194 Dehydratase family; Region: ILVD_EDD; cl00340 1048332006195 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 1048332006196 DAK2 domain; Region: Dak2; cl03685 1048332006197 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 1048332006198 Asp23 family; Region: Asp23; cl00574 1048332006199 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1048332006200 MatE; Region: MatE; cl10513 1048332006201 MatE; Region: MatE; cl10513 1048332006202 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 1048332006203 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1048332006204 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1048332006205 catalytic residue [active] 1048332006206 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 1048332006207 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 1048332006208 putative catalytic cysteine [active] 1048332006209 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 1048332006210 putative active site [active] 1048332006211 metal binding site [ion binding]; metal-binding site 1048332006212 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1048332006213 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1048332006214 active site 1048332006215 Zn binding site [ion binding]; other site 1048332006216 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 1048332006217 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 1048332006218 Ca binding site [ion binding]; other site 1048332006219 active site 1048332006220 catalytic site [active] 1048332006221 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 1048332006222 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 1048332006223 active site turn [active] 1048332006224 phosphorylation site [posttranslational modification] 1048332006225 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1048332006226 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 1048332006227 HPr interaction site; other site 1048332006228 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1048332006229 active site 1048332006230 phosphorylation site [posttranslational modification] 1048332006231 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332006232 Helix-turn-helix domains; Region: HTH; cl00088 1048332006233 Integrase core domain; Region: rve; cl01316 1048332006234 Protein of unknown function (DUF436); Region: DUF436; cl01860 1048332006235 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1048332006236 DNA-binding site [nucleotide binding]; DNA binding site 1048332006237 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 1048332006238 UTRA domain; Region: UTRA; cl01230 1048332006239 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332006240 Helix-turn-helix domains; Region: HTH; cl00088 1048332006241 Integrase core domain; Region: rve; cl01316 1048332006242 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 1048332006243 hypothetical protein; Provisional; Region: PRK08185 1048332006244 intersubunit interface [polypeptide binding]; other site 1048332006245 active site 1048332006246 zinc binding site [ion binding]; other site 1048332006247 Na+ binding site [ion binding]; other site 1048332006248 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 1048332006249 Helix-turn-helix domains; Region: HTH; cl00088 1048332006250 Integrase core domain; Region: rve; cl01316 1048332006251 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 1048332006252 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 1048332006253 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1048332006254 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1048332006255 alphaNTD homodimer interface [polypeptide binding]; other site 1048332006256 alphaNTD - beta interaction site [polypeptide binding]; other site 1048332006257 alphaNTD - beta' interaction site [polypeptide binding]; other site 1048332006258 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 1048332006259 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 1048332006260 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 1048332006261 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1048332006262 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 1048332006263 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 1048332006264 rRNA binding site [nucleotide binding]; other site 1048332006265 predicted 30S ribosome binding site; other site 1048332006266 adenylate kinase; Reviewed; Region: adk; PRK00279 1048332006267 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 1048332006268 AMP-binding site [chemical binding]; other site 1048332006269 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1048332006270 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1048332006271 SecY translocase; Region: SecY; pfam00344 1048332006272 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 1048332006273 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 1048332006274 23S rRNA binding site [nucleotide binding]; other site 1048332006275 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1048332006276 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1048332006277 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1048332006278 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 1048332006279 5S rRNA interface [nucleotide binding]; other site 1048332006280 L27 interface [polypeptide binding]; other site 1048332006281 23S rRNA interface [nucleotide binding]; other site 1048332006282 L5 interface [polypeptide binding]; other site 1048332006283 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1048332006284 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1048332006285 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1048332006286 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 1048332006287 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 1048332006288 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1048332006289 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1048332006290 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1048332006291 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1048332006292 KOW motif; Region: KOW; cl00354 1048332006293 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 1048332006294 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 1048332006295 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 1048332006296 23S rRNA interface [nucleotide binding]; other site 1048332006297 putative translocon interaction site; other site 1048332006298 signal recognition particle (SRP54) interaction site; other site 1048332006299 L23 interface [polypeptide binding]; other site 1048332006300 trigger factor interaction site; other site 1048332006301 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 1048332006302 23S rRNA interface [nucleotide binding]; other site 1048332006303 5S rRNA interface [nucleotide binding]; other site 1048332006304 putative antibiotic binding site [chemical binding]; other site 1048332006305 L25 interface [polypeptide binding]; other site 1048332006306 L27 interface [polypeptide binding]; other site 1048332006307 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1048332006308 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 1048332006309 G-X-X-G motif; other site 1048332006310 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1048332006311 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 1048332006312 putative translocon binding site; other site 1048332006313 protein-rRNA interface [nucleotide binding]; other site 1048332006314 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 1048332006315 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1048332006316 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1048332006317 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1048332006318 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 1048332006319 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 1048332006320 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 1048332006321 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 1048332006322 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1048332006323 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 1048332006324 Walker A motif; other site 1048332006325 ATP binding site [chemical binding]; other site 1048332006326 Walker B motif; other site 1048332006327 arginine finger; other site 1048332006328 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1048332006329 OpgC protein; Region: OpgC_C; cl00792 1048332006330 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1048332006331 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 1048332006332 catalytic triad [active] 1048332006333 catalytic triad [active] 1048332006334 oxyanion hole [active] 1048332006335 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 1048332006336 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1048332006337 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 1048332006338 active site 1048332006339 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1048332006340 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 1048332006341 GDP-binding site [chemical binding]; other site 1048332006342 ACT binding site; other site 1048332006343 IMP binding site; other site 1048332006344 topology modulation protein; Provisional; Region: PRK07261 1048332006345 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332006346 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1048332006347 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1048332006348 active site 1048332006349 metal binding site [ion binding]; metal-binding site 1048332006350 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 1048332006351 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 1048332006352 non-specific DNA binding site [nucleotide binding]; other site 1048332006353 salt bridge; other site 1048332006354 sequence-specific DNA binding site [nucleotide binding]; other site 1048332006355 Replication initiation factor; Region: Rep_trans; pfam02486 1048332006356 Domain of unknown function (DUF3173); Region: DUF3173; pfam11372 1048332006357 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 1048332006358 Int/Topo IB signature motif; other site 1048332006359 recombination factor protein RarA; Reviewed; Region: PRK13342 1048332006360 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 1048332006361 Walker A motif; other site 1048332006362 ATP binding site [chemical binding]; other site 1048332006363 Walker B motif; other site 1048332006364 arginine finger; other site 1048332006365 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1048332006366 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 1048332006367 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 1048332006368 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 1048332006369 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 1048332006370 Predicted membrane protein (DUF2079); Region: DUF2079; pfam09852 1048332006371 Uncharacterized membrane protein (DUF2298); Region: DUF2298; cl02250 1048332006372 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 1048332006373 ATP cone domain; Region: ATP-cone; pfam03477 1048332006374 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1048332006375 effector binding site; other site 1048332006376 active site 1048332006377 Zn binding site [ion binding]; other site 1048332006378 glycine loop; other site 1048332006379 Predicted acetyltransferase [General function prediction only]; Region: COG3981 1048332006380 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 1048332006381 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 1048332006382 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 1048332006383 FeS/SAM binding site; other site 1048332006384 Protein of unknown function (DUF328); Region: DUF328; cl01143 1048332006385 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1048332006386 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1048332006387 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1048332006388 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 1048332006389 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1048332006390 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 1048332006391 dimer interface [polypeptide binding]; other site 1048332006392 anticodon binding site; other site 1048332006393 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 1048332006394 homodimer interface [polypeptide binding]; other site 1048332006395 motif 1; other site 1048332006396 active site 1048332006397 motif 2; other site 1048332006398 GAD domain; Region: GAD; pfam02938 1048332006399 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 1048332006400 motif 3; other site 1048332006401 HI0933-like protein; Region: HI0933_like; pfam03486 1048332006402 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1048332006403 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 1048332006404 dimer interface [polypeptide binding]; other site 1048332006405 motif 1; other site 1048332006406 active site 1048332006407 motif 2; other site 1048332006408 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 1048332006409 anticodon binding site; other site 1048332006410 potential frameshift: common BLAST hit: gi|226948150|ref|YP_002803241.1| PTS system beta-glucoside-specific transporter subunit IIABC 1048332006411 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1048332006412 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 1048332006413 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 1048332006414 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 1048332006415 active site turn [active] 1048332006416 phosphorylation site [posttranslational modification] 1048332006417 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 1048332006418 substrate binding site [chemical binding]; other site 1048332006419 THF binding site; other site 1048332006420 zinc-binding site [ion binding]; other site 1048332006421 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 1048332006422 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 1048332006423 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1048332006424 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1048332006425 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 1048332006426 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1048332006427 Helix-turn-helix domains; Region: HTH; cl00088 1048332006428 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332006429 Plasmid replication protein; Region: Rep_2; pfam01719 1048332006430 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1048332006431 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 1048332006432 Int/Topo IB signature motif; other site 1048332006433 Transposase domain (DUF772); Region: DUF772; cl15789 1048332006434 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1048332006435 Transposase domain (DUF772); Region: DUF772; cl15789 1048332006436 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 1048332006437 putative active site [active] 1048332006438 putative CoA binding site [chemical binding]; other site 1048332006439 nudix motif; other site 1048332006440 metal binding site [ion binding]; metal-binding site 1048332006441 Helix-turn-helix domains; Region: HTH; cl00088 1048332006442 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 1048332006443 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 1048332006444 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1048332006445 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1048332006446 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 1048332006447 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1048332006448 Helix-turn-helix domains; Region: HTH; cl00088 1048332006449 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 1048332006450 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1048332006451 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1048332006452 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 1048332006453 RNA binding surface [nucleotide binding]; other site 1048332006454 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 1048332006455 replicative DNA helicase; Provisional; Region: PRK05748 1048332006456 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1048332006457 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 1048332006458 Walker A motif; other site 1048332006459 ATP binding site [chemical binding]; other site 1048332006460 Walker B motif; other site 1048332006461 DNA binding loops [nucleotide binding] 1048332006462 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1048332006463 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1048332006464 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1048332006465 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 1048332006466 DHH family; Region: DHH; pfam01368 1048332006467 DHHA1 domain; Region: DHHA1; pfam02272 1048332006468 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1048332006469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1048332006470 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1048332006471 MarC family integral membrane protein; Region: MarC; cl00919 1048332006472 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1048332006473 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 1048332006474 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 1048332006475 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 1048332006476 putative peptidoglycan binding site; other site 1048332006477 Cobalt transport protein; Region: CbiQ; cl00463 1048332006478 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13649 1048332006479 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 1048332006480 Walker A/P-loop; other site 1048332006481 ATP binding site [chemical binding]; other site 1048332006482 Q-loop/lid; other site 1048332006483 ABC transporter signature motif; other site 1048332006484 Walker B; other site 1048332006485 D-loop; other site 1048332006486 H-loop/switch region; other site 1048332006487 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13650 1048332006488 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 1048332006489 Walker A/P-loop; other site 1048332006490 ATP binding site [chemical binding]; other site 1048332006491 Q-loop/lid; other site 1048332006492 ABC transporter signature motif; other site 1048332006493 Walker B; other site 1048332006494 D-loop; other site 1048332006495 H-loop/switch region; other site 1048332006496 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1048332006497 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 1048332006498 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1048332006499 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1048332006500 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1048332006501 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1048332006502 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1048332006503 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 1048332006504 recombination protein F; Reviewed; Region: recF; PRK00064 1048332006505 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 1048332006506 Walker A/P-loop; other site 1048332006507 ATP binding site [chemical binding]; other site 1048332006508 Q-loop/lid; other site 1048332006509 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 1048332006510 ABC transporter signature motif; other site 1048332006511 Walker B; other site 1048332006512 D-loop; other site 1048332006513 H-loop/switch region; other site 1048332006514 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1048332006515 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 1048332006516 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 1048332006517 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 1048332006518 active site 1048332006519 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1048332006520 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1048332006521 active site 1048332006522 HIGH motif; other site 1048332006523 dimer interface [polypeptide binding]; other site 1048332006524 KMSKS motif; other site 1048332006525 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1048332006526 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1048332006527 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 1048332006528 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1048332006529 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 1048332006530 Walker A/P-loop; other site 1048332006531 ATP binding site [chemical binding]; other site 1048332006532 Q-loop/lid; other site 1048332006533 ABC transporter signature motif; other site 1048332006534 Walker B; other site 1048332006535 D-loop; other site 1048332006536 H-loop/switch region; other site 1048332006537 ABC transporter; Region: ABC_tran_2; pfam12848 1048332006538 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 1048332006539 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 1048332006540 Transposase IS200 like; Region: Y1_Tnp; cl00848 1048332006541 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 1048332006542 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 1048332006543 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 1048332006544 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 1048332006545 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 1048332006546 protein binding site [polypeptide binding]; other site 1048332006547 ParB-like partition proteins; Region: parB_part; TIGR00180 1048332006548 ParB-like nuclease domain; Region: ParBc; cl02129