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B8J3R3

- SYI_DESDA

UniProt

B8J3R3 - SYI_DESDA

Protein

Isoleucine--tRNA ligase

Gene

ileS

Organism
Desulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 41 (01 Oct 2014)
      Sequence version 1 (03 Mar 2009)
      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 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

    BioCyciDDES525146:GIWF-397-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:Ddes_0385
    OrganismiDesulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949)
    Taxonomic identifieri525146 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
    ProteomesiUP000002598: 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 – 938938Isoleucine--tRNA ligasePRO_1000189150Add
    BLAST

    Interactioni

    Subunit structurei

    Monomer.UniRule annotation

    Protein-protein interaction databases

    STRINGi525146.Ddes_0385.

    Structurei

    3D structure databases

    ProteinModelPortaliB8J3R3.
    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.
    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.

    B8J3R3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSDYKKTLNL PQTAFPMKAN LAQREPEAIK KWEAANACAA MVEASGSEGT    50
    YILHDGPPYA NGHLHMGHAL NKILKDIIVK SRNMAGYASW YVPGWDCHGL 100
    PIEHKVEQDL KEKKKSLPAH VVRKLCREYA NKWLDVQRKE FKRLGVLGDW 150
    DHPYISMDPA YEAVTAGELA KFVAAGGVAR AKKPIYWCCS CHTALAEAEV 200
    EYNDHTSPSV YVRFALPDEG LKKVFAAADP ARAHVVIWTT TPWTLPDNMA 250
    VCLHPEFTYA LVEAEGSQYI LAEELVASCA ETFGWSEYTI LDRATGERLE 300
    GLKARHPFYD RQSSLVLGLH VTLDAGTGCV HTAPGHGRED YDVALKYGLE 350
    IYSPMDDAGR FLPAVEFFAG LNVFEANPKV VEKLEEVGAL LQKGKIRHSY 400
    PHCWRCKEPV IFRATTQWFI SMEKNDLRTR ALKAIDEEVR WIPAWGRERI 450
    HNMVEFRPDW CISRQRQWGV PILALLCEDC GEAWNDPAWM QEIAARFAKH 500
    PTGCDYWYEA ELKDVVPEGL ACPHCGGNHW KRETDILDVW FDSGTSFAAV 550
    LEKRPELGFP ADLYLEGSDQ HRGWFHSSLL VSEGTRGCAP YRAVLTHGYV 600
    VDGDGRKMSK SVGNVIAPQE LIEKFGAEIV RLWVSSVEYR EDIRLSDEIL 650
    GRLVDAYRRI RNTCRFIMGN LSDITAHDLL SLDRLQPLDR FALDVAGRVH 700
    ERVQQAYMDF DFHKVYHTLH NYCVTDLSSV YLDILKDRLY ASAPHSDERR 750
    SAQTALWHIL CLLLRDMAPV LSFTAEEIFS HLPESLRGPE TTVFALPPLA 800
    AAPYLLDEGT RDDWNVLLAV RGAVTKAIEP MRREGIIGHS LDTRITLFVA 850
    DELRQRLEGL HTDLRAVCIV SQLHLEALDR APQAAYRDEE VAGLAIGVEK 900
    ARGEKCERCW IYSTELGSDA SHPALCPRCT AVIKGMES 938
    Length:938
    Mass (Da):105,767
    Last modified:March 3, 2009 - v1
    Checksum:i9B0797693ACB46A0
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001358 Genomic DNA. Translation: ACL48298.1.
    RefSeqiWP_012624028.1. NC_011883.1.
    YP_002478976.1. NC_011883.1.

    Genome annotation databases

    EnsemblBacteriaiACL48298; ACL48298; Ddes_0385.
    GeneIDi7284048.
    KEGGidds:Ddes_0385.
    PATRICi21734148. VBIDesDes50650_0452.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001358 Genomic DNA. Translation: ACL48298.1 .
    RefSeqi WP_012624028.1. NC_011883.1.
    YP_002478976.1. NC_011883.1.

    3D structure databases

    ProteinModelPortali B8J3R3.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 525146.Ddes_0385.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACL48298 ; ACL48298 ; Ddes_0385 .
    GeneIDi 7284048.
    KEGGi dds:Ddes_0385.
    PATRICi 21734148. VBIDesDes50650_0452.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci DDES525146:GIWF-397-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. "Complete sequence of Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774."
      US DOE Joint Genome Institute
      Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Tice H., Bruce D., Goodwin L., Pitluck S., Sims D., Lu M., Kiss H., Meineke L., Brettin T., Detter J.C., Han C., Larimer F., Land M., Hauser L.
      , Kyrpides N., Ovchinnikova G., Hazen T.C.
      Submitted (JAN-2009) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 27774 / DSM 6949.

    Entry informationi

    Entry nameiSYI_DESDA
    AccessioniPrimary (citable) accession number: B8J3R3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 28, 2009
    Last sequence update: March 3, 2009
    Last modified: October 1, 2014
    This is version 41 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