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SYFB_DICD3
ID   SYFB_DICD3              Reviewed;         795 AA.
AC   P37984; E0SDD9;
DT   01-OCT-1994, integrated into UniProtKB/Swiss-Prot.
DT   30-NOV-2010, sequence version 2.
DT   03-AUG-2022, entry version 116.
DE   RecName: Full=Phenylalanine--tRNA ligase beta subunit;
DE            EC=6.1.1.20;
DE   AltName: Full=Phenylalanyl-tRNA synthetase beta subunit;
DE            Short=PheRS;
GN   Name=pheT; OrderedLocusNames=Dda3937_03678;
OS   Dickeya dadantii (strain 3937) (Erwinia chrysanthemi (strain 3937)).
OC   Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales;
OC   Pectobacteriaceae; Dickeya.
OX   NCBI_TaxID=198628;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=3937;
RX   PubMed=21217001; DOI=10.1128/jb.01513-10;
RA   Glasner J.D., Yang C.H., Reverchon S., Hugouvieux-Cotte-Pattat N.,
RA   Condemine G., Bohin J.P., Van Gijsegem F., Yang S., Franza T., Expert D.,
RA   Plunkett G. III, San Francisco M.J., Charkowski A.O., Py B., Bell K.,
RA   Rauscher L., Rodriguez-Palenzuela P., Toussaint A., Holeva M.C., He S.Y.,
RA   Douet V., Boccara M., Blanco C., Toth I., Anderson B.D., Biehl B.S.,
RA   Mau B., Flynn S.M., Barras F., Lindeberg M., Birch P.R., Tsuyumu S.,
RA   Shi X., Hibbing M., Yap M.N., Carpentier M., Dassa E., Umehara M.,
RA   Kim J.F., Rusch M., Soni P., Mayhew G.F., Fouts D.E., Gill S.R.,
RA   Blattner F.R., Keen N.T., Perna N.T.;
RT   "Genome sequence of the plant-pathogenic bacterium Dickeya dadantii 3937.";
RL   J. Bacteriol. 193:2076-2077(2011).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 603-795.
RC   STRAIN=3937;
RA   Douillie A., Toussaint A., Faelen M.;
RL   Submitted (AUG-1993) to the EMBL/GenBank/DDBJ databases.
CC   -!- CATALYTIC ACTIVITY:
CC       Reaction=ATP + L-phenylalanine + tRNA(Phe) = AMP + diphosphate + H(+) +
CC         L-phenylalanyl-tRNA(Phe); Xref=Rhea:RHEA:19413, Rhea:RHEA-COMP:9668,
CC         Rhea:RHEA-COMP:9699, ChEBI:CHEBI:15378, ChEBI:CHEBI:30616,
CC         ChEBI:CHEBI:33019, ChEBI:CHEBI:58095, ChEBI:CHEBI:78442,
CC         ChEBI:CHEBI:78531, ChEBI:CHEBI:456215; EC=6.1.1.20;
CC   -!- COFACTOR:
CC       Name=Mg(2+); Xref=ChEBI:CHEBI:18420; Evidence={ECO:0000250};
CC       Note=Binds 2 magnesium ions per tetramer. {ECO:0000250};
CC   -!- SUBUNIT: Tetramer of two alpha and two beta subunits. {ECO:0000250}.
CC   -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000250}.
CC   -!- SIMILARITY: Belongs to the phenylalanyl-tRNA synthetase beta subunit
CC       family. Type 1 subfamily. {ECO:0000305}.
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DR   EMBL; CP002038; ADM98631.1; -; Genomic_DNA.
DR   EMBL; X74749; CAA52767.1; -; Genomic_DNA.
DR   PIR; S37139; S37139.
DR   RefSeq; WP_013318079.1; NC_014500.1.
DR   AlphaFoldDB; P37984; -.
DR   SMR; P37984; -.
DR   STRING; 198628.Dda3937_03678; -.
DR   EnsemblBacteria; ADM98631; ADM98631; Dda3937_03678.
DR   GeneID; 9733866; -.
DR   KEGG; ddd:Dda3937_03678; -.
DR   PATRIC; fig|198628.6.peg.2409; -.
DR   eggNOG; COG0072; Bacteria.
DR   eggNOG; COG0073; Bacteria.
DR   HOGENOM; CLU_016891_0_0_6; -.
DR   OMA; ISYNWLK; -.
DR   OrthoDB; 53568at2; -.
DR   BioCyc; DDAD198628:DDA3937_RS11410-MON; -.
DR   Proteomes; UP000006859; Chromosome.
DR   GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
DR   GO; GO:0005524; F:ATP binding; IEA:UniProtKB-UniRule.
DR   GO; GO:0000287; F:magnesium ion binding; IEA:UniProtKB-UniRule.
DR   GO; GO:0004826; F:phenylalanine-tRNA ligase activity; IEA:UniProtKB-UniRule.
DR   GO; GO:0000049; F:tRNA binding; IEA:UniProtKB-KW.
DR   GO; GO:0006432; P:phenylalanyl-tRNA aminoacylation; IEA:UniProtKB-UniRule.
DR   CDD; cd00769; PheRS_beta_core; 1.
DR   CDD; cd02796; tRNA_bind_bactPheRS; 1.
DR   Gene3D; 2.40.50.140; -; 1.
DR   Gene3D; 3.30.70.380; -; 1.
DR   Gene3D; 3.30.930.10; -; 1.
DR   Gene3D; 3.50.40.10; -; 1.
DR   HAMAP; MF_00283; Phe_tRNA_synth_beta1; 1.
DR   InterPro; IPR045864; aa-tRNA-synth_II/BPL/LPL.
DR   InterPro; IPR005146; B3/B4_tRNA-bd.
DR   InterPro; IPR009061; DNA-bd_dom_put_sf.
DR   InterPro; IPR005121; Fdx_antiC-bd.
DR   InterPro; IPR036690; Fdx_antiC-bd_sf.
DR   InterPro; IPR012340; NA-bd_OB-fold.
DR   InterPro; IPR045060; Phe-tRNA-ligase_IIc_bsu.
DR   InterPro; IPR004532; Phe-tRNA-ligase_IIc_bsu_bact.
DR   InterPro; IPR020825; Phe-tRNA_synthase-like_B3/B4.
DR   InterPro; IPR041616; PheRS_beta_core.
DR   InterPro; IPR002547; tRNA-bd_dom.
DR   InterPro; IPR033714; tRNA_bind_bactPheRS.
DR   InterPro; IPR005147; tRNA_synthase_B5-dom.
DR   PANTHER; PTHR10947; PTHR10947; 1.
DR   Pfam; PF03483; B3_4; 1.
DR   Pfam; PF03484; B5; 1.
DR   Pfam; PF03147; FDX-ACB; 1.
DR   Pfam; PF01588; tRNA_bind; 1.
DR   Pfam; PF17759; tRNA_synthFbeta; 1.
DR   SMART; SM00873; B3_4; 1.
DR   SMART; SM00874; B5; 1.
DR   SMART; SM00896; FDX-ACB; 1.
DR   SUPFAM; SSF46955; SSF46955; 1.
DR   SUPFAM; SSF50249; SSF50249; 1.
DR   SUPFAM; SSF54991; SSF54991; 1.
DR   SUPFAM; SSF55681; SSF55681; 1.
DR   TIGRFAMs; TIGR00472; pheT_bact; 1.
DR   PROSITE; PS51483; B5; 1.
DR   PROSITE; PS51447; FDX_ACB; 1.
DR   PROSITE; PS50886; TRBD; 1.
PE   3: Inferred from homology;
KW   Aminoacyl-tRNA synthetase; ATP-binding; Cytoplasm; Ligase; Magnesium;
KW   Metal-binding; Nucleotide-binding; Protein biosynthesis;
KW   Reference proteome; RNA-binding; tRNA-binding.
FT   CHAIN           1..795
FT                   /note="Phenylalanine--tRNA ligase beta subunit"
FT                   /id="PRO_0000126884"
FT   DOMAIN          39..148
FT                   /note="tRNA-binding"
FT   DOMAIN          401..476
FT                   /note="B5"
FT   DOMAIN          701..794
FT                   /note="FDX-ACB"
FT   BINDING         454
FT                   /ligand="Mg(2+)"
FT                   /ligand_id="ChEBI:CHEBI:18420"
FT                   /ligand_note="shared with alpha subunit"
FT                   /evidence="ECO:0000250"
FT   BINDING         460
FT                   /ligand="Mg(2+)"
FT                   /ligand_id="ChEBI:CHEBI:18420"
FT                   /ligand_note="shared with alpha subunit"
FT                   /evidence="ECO:0000250"
FT   BINDING         463
FT                   /ligand="Mg(2+)"
FT                   /ligand_id="ChEBI:CHEBI:18420"
FT                   /ligand_note="shared with alpha subunit"
FT                   /evidence="ECO:0000250"
FT   BINDING         464
FT                   /ligand="Mg(2+)"
FT                   /ligand_id="ChEBI:CHEBI:18420"
FT                   /ligand_note="shared with alpha subunit"
FT                   /evidence="ECO:0000250"
FT   CONFLICT        674
FT                   /note="D -> A (in Ref. 2; CAA52767)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        708
FT                   /note="R -> A (in Ref. 2; CAA52767)"
FT                   /evidence="ECO:0000305"
SQ   SEQUENCE   795 AA;  86564 MW;  38A59E9B8835D130 CRC64;
     MKFSELWLRE WVNPAISSDA LSEQITMAGL EVDGVEPVAG AFHGVVVGEV VECAQHPNAD
     KLRVTKVNVG GDRLLDIVCG APNCRQGLKV AVATVGAVLP GDFKIKAAKL RGEPSEGMLC
     SFSELGISDD HSGIIELPAD APLGTDIREY LKLDDNTIEI SVTPNRADCL GILGVARDVA
     VLNELALTAP ATEPVTATIA DRFPIQVDAT EACPRYLGRV VKGINVKAAT PLWMREKLRR
     CGIRSIDPVV DVTNYVLLEL GQPMHAFDLN RLEGGIVVRM AKEGETLRLL DGTDATLSAD
     TLVIADHQKA LAMGGIFGGE HSGVNGETQD VLLECAYFNP LSITGRARRY GLHTDASHRY
     ERGVDPALQH QAMERATRLL LDICGGEAGP VVEAVSEKDL PARATIALRR DKLDRLIGHV
     ISDEKVSDIL NRLGCQVTQT ADGWQAVAPS WRFDMAIEED LVEEVARVYG YNNIPNIPTQ
     APLKMTQHRE ADLALKRVKT LLVDHGFQEA ITYSFVDPKI QSLIHPGEDA LILPSPISVE
     MSAMRLSLWS GLLGAVVHNQ NRQQSRLRLF ESGLRFVPDQ RADLGVRQET MLAGVITGTR
     YEEHWDLARQ AVDFYDLKGD LEAVLALTGK LSVLEFRAES HPALHPGQTA AIYLAGERIG
     YIGVIHPELE RKLDLNGRTV VFEVLWDKLA ERVVPEAADI SRFPANRRDI AVVVAESVPA
     GDVLAECKKV GANQLVGVNL FDVYRGKGVA EGYKSLAISL VLQDTARTLA EEEIAATVAQ
     CVAALKQRFQ ASLRD
 
 
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