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Q87S90

- SYI_VIBPA

UniProt

Q87S90 - SYI_VIBPA

Protein

Isoleucine--tRNA ligase

Gene

ileS

Organism
Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 79 (01 Oct 2014)
      Sequence version 1 (01 Jun 2003)
      Previous versions | rss
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    Functioni

    Catalyzes the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pretransfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'posttransfer' editing and involves deacylation of mischarged Val-tRNA(Ile).UniRule annotation

    Catalytic activityi

    ATP + L-isoleucine + tRNA(Ile) = AMP + diphosphate + L-isoleucyl-tRNA(Ile).UniRule annotation

    Cofactori

    Binds 1 zinc ion per subunit.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei566 – 5661Aminoacyl-adenylateUniRule annotation
    Binding sitei610 – 6101ATPUniRule annotation
    Metal bindingi905 – 9051ZincUniRule annotation
    Metal bindingi908 – 9081ZincUniRule annotation
    Metal bindingi925 – 9251ZincUniRule annotation
    Metal bindingi928 – 9281ZincUniRule annotation

    GO - Molecular functioni

    1. aminoacyl-tRNA editing activity Source: InterPro
    2. ATP binding Source: UniProtKB-HAMAP
    3. isoleucine-tRNA ligase activity Source: UniProtKB-HAMAP
    4. zinc ion binding Source: UniProtKB-HAMAP

    GO - Biological processi

    1. isoleucyl-tRNA aminoacylation Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Aminoacyl-tRNA synthetase, Ligase

    Keywords - Biological processi

    Protein biosynthesis

    Keywords - Ligandi

    ATP-binding, Metal-binding, Nucleotide-binding, Zinc

    Enzyme and pathway databases

    BioCyciVPAR223926:GHK4-546-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Isoleucine--tRNA ligaseUniRule annotation (EC:6.1.1.5UniRule annotation)
    Alternative name(s):
    Isoleucyl-tRNA synthetaseUniRule annotation
    Short name:
    IleRSUniRule annotation
    Gene namesi
    Name:ileSUniRule annotation
    Ordered Locus Names:VP0534
    OrganismiVibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
    Taxonomic identifieri223926 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
    ProteomesiUP000002493: Chromosome 1

    Subcellular locationi

    Cytoplasm UniRule annotation

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 942942Isoleucine--tRNA ligasePRO_0000098499Add
    BLAST

    Interactioni

    Subunit structurei

    Monomer.UniRule annotation

    Protein-protein interaction databases

    STRINGi223926.VP0534.

    Structurei

    3D structure databases

    ProteinModelPortaliQ87S90.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi58 – 6811"HIGH" regionAdd
    BLAST
    Motifi607 – 6115"KMSKS" region

    Domaini

    IleRS has two distinct active sites: one for aminoacylation and one for editing. The misactivated valine is translocated from the active site to the editing site, which sterically excludes the correctly activated isoleucine. The single editing site contains two valyl binding pockets, one specific for each substrate (Val-AMP or Val-tRNA(Ile)).UniRule annotation

    Sequence similaritiesi

    Belongs to the class-I aminoacyl-tRNA synthetase family. IleS type 1 subfamily.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0060.
    HOGENOMiHOG000246402.
    KOiK01870.
    OMAiKKRIELM.
    OrthoDBiEOG644ZM1.

    Family and domain databases

    Gene3Di1.10.730.10. 1 hit.
    3.40.50.620. 2 hits.
    3.90.740.10. 1 hit.
    HAMAPiMF_02002. Ile_tRNA_synth_type1.
    InterProiIPR001412. aa-tRNA-synth_I_CS.
    IPR002300. aa-tRNA-synth_Ia.
    IPR002301. Ile-tRNA-ligase.
    IPR023585. Ile-tRNA-ligase_type1.
    IPR014729. Rossmann-like_a/b/a_fold.
    IPR009080. tRNAsynth_1a_anticodon-bd.
    IPR013155. V/L/I-tRNA-synth_anticodon-bd.
    IPR009008. Val/Leu/Ile-tRNA-synth_edit.
    IPR010663. Znf_DNA_glyclase/IsotRNA_synth.
    [Graphical view]
    PANTHERiPTHR11946:SF9. PTHR11946:SF9. 1 hit.
    PfamiPF08264. Anticodon_1. 1 hit.
    PF00133. tRNA-synt_1. 1 hit.
    PF06827. zf-FPG_IleRS. 1 hit.
    [Graphical view]
    PRINTSiPR00984. TRNASYNTHILE.
    SUPFAMiSSF47323. SSF47323. 1 hit.
    SSF50677. SSF50677. 1 hit.
    TIGRFAMsiTIGR00392. ileS. 1 hit.
    PROSITEiPS00178. AA_TRNA_LIGASE_I. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q87S90-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSEYKDTLNL PETGFPMRGN LANREPEMLE RWYKEDLYGE IRKAKKGKKS    50
    FVLHDGPPYA NGDIHIGHAL NKILKDIIIK SKTLSGFDAP YIPGWDCHGL 100
    PIELMVEKKV GKPGQKVTAA EFREKCREYA AGQVEGQKES FKRLGIMGEW 150
    DKPYRTMDFA TEANIIRALG KIASNGHLLK GFKPVHWCTD CGSALAEAEV 200
    EYKDKVSPSI DVRFKTADEA ALLSKFELTE GHEGKGDVSI VIWTTTPWTL 250
    PANRAVCLRD DLEYVLIQVE GDNPERIIVA AELAKDVMDR AGIEHFHNLG 300
    FAKGADLELS QFQHPFYDFT VPAILGDHVT TDSGTGVVHT APGHGQEDFA 350
    VGQKYNLEVA NPVGSNGVYL PDTELFAGQH VFKANDAVVE TLKEKGALLH 400
    HHAYEHSYPH CWRHKTPIIF RATPQWFVSM DQAGLRAKAL ESIKGVQWMP 450
    EWGQSRIEGM IEGRPEWCIS RQRTWGVPIA LFVHKETAEL HPNTLELIEK 500
    VAKLVEEKGI QAWWDVDAAE LLGDEAEQYE KVLDTLDVWF DSGVTHFSVV 550
    DAREEYNGNS ADLYLEGSDQ HRGWFQSSLI SSIAMKGVAP YKQVLTHGFV 600
    VDGHGRKMSK SIGNVVAPKD VTNKLGADIL RLWVASTDYT GEVAVSDEIL 650
    KRSADAYRRI RNTARFFLAN LNGFNPATDI VPAEEMVALD RWAVGRALAA 700
    QEEIIKAYDE YNIHAVTQRL MQFCSIEMGS FYLDVIKDRQ YTAKQGGHAQ 750
    RSCQTALYYI VEALVRWMAP IMSFTADEIW NEMPGEREKF VFTGEWFDGL 800
    FGLAEGEELN NEFWTEIQKV RGAVNKLLEA ARAEKTIGGA LQAELTLFAD 850
    DALAAKINKL EDELRFVLLT SAAAVKPLSE KSDAAQATDI EGLFVEVKAT 900
    EAEKCDRCWH HTPDVGTIAG HEKICGRCVS NVDGKGEVRK FA 942
    Length:942
    Mass (Da):105,278
    Last modified:June 1, 2003 - v1
    Checksum:i5C98264329EF0922
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000031 Genomic DNA. Translation: BAC58797.1.
    RefSeqiNP_796913.1. NC_004603.1.

    Genome annotation databases

    EnsemblBacteriaiBAC58797; BAC58797; BAC58797.
    GeneIDi1188002.
    KEGGivpa:VP0534.
    PATRICi20139266. VBIVibPar50997_0507.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000031 Genomic DNA. Translation: BAC58797.1 .
    RefSeqi NP_796913.1. NC_004603.1.

    3D structure databases

    ProteinModelPortali Q87S90.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 223926.VP0534.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAC58797 ; BAC58797 ; BAC58797 .
    GeneIDi 1188002.
    KEGGi vpa:VP0534.
    PATRICi 20139266. VBIVibPar50997_0507.

    Phylogenomic databases

    eggNOGi COG0060.
    HOGENOMi HOG000246402.
    KOi K01870.
    OMAi KKRIELM.
    OrthoDBi EOG644ZM1.

    Enzyme and pathway databases

    BioCyci VPAR223926:GHK4-546-MONOMER.

    Family and domain databases

    Gene3Di 1.10.730.10. 1 hit.
    3.40.50.620. 2 hits.
    3.90.740.10. 1 hit.
    HAMAPi MF_02002. Ile_tRNA_synth_type1.
    InterProi IPR001412. aa-tRNA-synth_I_CS.
    IPR002300. aa-tRNA-synth_Ia.
    IPR002301. Ile-tRNA-ligase.
    IPR023585. Ile-tRNA-ligase_type1.
    IPR014729. Rossmann-like_a/b/a_fold.
    IPR009080. tRNAsynth_1a_anticodon-bd.
    IPR013155. V/L/I-tRNA-synth_anticodon-bd.
    IPR009008. Val/Leu/Ile-tRNA-synth_edit.
    IPR010663. Znf_DNA_glyclase/IsotRNA_synth.
    [Graphical view ]
    PANTHERi PTHR11946:SF9. PTHR11946:SF9. 1 hit.
    Pfami PF08264. Anticodon_1. 1 hit.
    PF00133. tRNA-synt_1. 1 hit.
    PF06827. zf-FPG_IleRS. 1 hit.
    [Graphical view ]
    PRINTSi PR00984. TRNASYNTHILE.
    SUPFAMi SSF47323. SSF47323. 1 hit.
    SSF50677. SSF50677. 1 hit.
    TIGRFAMsi TIGR00392. ileS. 1 hit.
    PROSITEi PS00178. AA_TRNA_LIGASE_I. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Genome sequence of Vibrio parahaemolyticus: a pathogenic mechanism distinct from that of V. cholerae."
      Makino K., Oshima K., Kurokawa K., Yokoyama K., Uda T., Tagomori K., Iijima Y., Najima M., Nakano M., Yamashita A., Kubota Y., Kimura S., Yasunaga T., Honda T., Shinagawa H., Hattori M., Iida T.
      Lancet 361:743-749(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: RIMD 2210633.

    Entry informationi

    Entry nameiSYI_VIBPA
    AccessioniPrimary (citable) accession number: Q87S90
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 20, 2005
    Last sequence update: June 1, 2003
    Last modified: October 1, 2014
    This is version 79 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Aminoacyl-tRNA synthetases
      List of aminoacyl-tRNA synthetase entries
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3