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B0U3Q9

- SYI_XYLFM

UniProt

B0U3Q9 - SYI_XYLFM

Protein

Isoleucine--tRNA ligase

Gene

ileS

Organism
Xylella fastidiosa (strain M12)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 52 (01 Oct 2014)
      Sequence version 1 (08 Apr 2008)
      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 sitei577 – 5771Aminoacyl-adenylateUniRule annotation
    Binding sitei621 – 6211ATPUniRule annotation
    Metal bindingi906 – 9061ZincUniRule annotation
    Metal bindingi909 – 9091ZincUniRule annotation
    Metal bindingi926 – 9261ZincUniRule annotation
    Metal bindingi929 – 9291ZincUniRule 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

    BioCyciXFAS405440:GH0D-1613-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:Xfasm12_1578
    OrganismiXylella fastidiosa (strain M12)
    Taxonomic identifieri405440 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaXanthomonadalesXanthomonadaceaeXylella
    ProteomesiUP000008539: Chromosome

    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 – 943943Isoleucine--tRNA ligasePRO_1000189218Add
    BLAST

    Interactioni

    Subunit structurei

    Monomer.UniRule annotation

    Protein-protein interaction databases

    STRINGi405440.Xfasm12_1578.

    Structurei

    3D structure databases

    ProteinModelPortaliB0U3Q9.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi59 – 6911"HIGH" regionAdd
    BLAST
    Motifi618 – 6225"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.
    OMAiKPVHWCL.
    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.

    B0U3Q9-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSQDYKTTLH LPATDFPMRG DLPKREPAIL ERWERDDFYA QLRAHAKGRP    50
    LFLLHDGPPY ANGQIHLGHA VNKILKDIII KSKHLDGFDA PYIPGWDCHG 100
    LPIEIAIEKK YGKVGVTLDA VQFRQKCREY AAEQIQLQRR DFKRLGVIGD 150
    WDAPYKTLDF RFEADEIRAL AKIVDKGHLI RGTKPVHWCF DCGSALAEAE 200
    IEYTDKTSPM VDVAYPALDP SALAAVFNAT LPPDVQLAVP IWTTTPWTLP 250
    ASLAISVGPT LDYVLVEGPT HSGQRRWLIL AEALAAKALA RYGIAELLIH 300
    GSAKGAAMEQ HILAHPFYPD RTIPLLLGNH VSAEDGTGAV HTAPGHGQED 350
    HQVFQQYGLL NRYSAAELNP VDARGVYLST TPPLGELTLA GLHIWKANPL 400
    IVDALRLRGV LLAAAEMHHS YPHCWRHKTP IVFRATPQWF ISMEQAALRS 450
    AALKAITHVT WYPQWGQARI LSMIENRPDW TISRQRTWGV PIPLFVHRHS 500
    GAPHPRSAAL MRQIADRVEQ QGVDIWYSLD QTELLGTEAD QYEKITDILD 550
    VWFDSGITHE AVLLERGLPK PADLYLEGAD QHRGWFQSSL LTGVAMDNAA 600
    PYKQCLTHGF TVDQHGRKMS KSLGNGIEPQ DIIKTLGADI LRLWIASTDY 650
    SNEMSLSQEI LKRTTDAYRR IRNTTRFLLG NLHGFDPTLH LVPLSDMIAL 700
    DRWIVHRAFE LQQTIKAAYT RYDFAEIIQK ILNFCSVDLG SLYLDVTKDR 750
    LYTMHENAPG RRSAQTAMYH LTAAFVRWIA PILSFTADEL WSYLPGDHAD 800
    NVLFTTWYDG LAPLPPNAPL TAADFDKLLT LRDHVTKVLE PMRANGVIGA 850
    ALEAEITVAA DADTAARWQP LTEELRFLFI TGDVTVTPAN TDGFFVSAQA 900
    TTKAKCARCW HYRADIGAHP THPELCGRCI TNVDGPGEQR HWF 943
    Length:943
    Mass (Da):105,672
    Last modified:April 8, 2008 - v1
    Checksum:iA61A5E6210A0C42A
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000941 Genomic DNA. Translation: ACA12488.1.
    RefSeqiYP_001776118.1. NC_010513.1.

    Genome annotation databases

    EnsemblBacteriaiACA12488; ACA12488; Xfasm12_1578.
    GeneIDi6119406.
    KEGGixfm:Xfasm12_1578.
    PATRICi24139794. VBIXylFas124301_1844.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000941 Genomic DNA. Translation: ACA12488.1 .
    RefSeqi YP_001776118.1. NC_010513.1.

    3D structure databases

    ProteinModelPortali B0U3Q9.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 405440.Xfasm12_1578.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACA12488 ; ACA12488 ; Xfasm12_1578 .
    GeneIDi 6119406.
    KEGGi xfm:Xfasm12_1578.
    PATRICi 24139794. VBIXylFas124301_1844.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci XFAS405440:GH0D-1613-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. "Whole genome sequences of two Xylella fastidiosa strains (M12 and M23) causing almond leaf scorch disease in California."
      Chen J., Xie G., Han S., Chertkov O., Sims D., Civerolo E.L.
      J. Bacteriol. 192:4534-4534(2010) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: M12.

    Entry informationi

    Entry nameiSYI_XYLFM
    AccessioniPrimary (citable) accession number: B0U3Q9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 28, 2009
    Last sequence update: April 8, 2008
    Last modified: October 1, 2014
    This is version 52 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

    Documents

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

    External Data

    Dasty 3