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B3DYQ6

- SYI_METI4

UniProt

B3DYQ6 - SYI_METI4

Protein

Isoleucine--tRNA ligase

Gene

ileS

Organism
Methylacidiphilum infernorum (isolate V4) (Methylokorus infernorum (strain V4))
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 48 (01 Oct 2014)
      Sequence version 1 (22 Jul 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 sitei549 – 5491Aminoacyl-adenylateUniRule annotation
    Binding sitei593 – 5931ATPUniRule annotation
    Metal bindingi867 – 8671ZincUniRule annotation
    Metal bindingi870 – 8701ZincUniRule annotation
    Metal bindingi889 – 8891ZincUniRule annotation
    Metal bindingi892 – 8921ZincUniRule 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

    BioCyciMINF481448:GJEI-377-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:Minf_0370
    OrganismiMethylacidiphilum infernorum (isolate V4) (Methylokorus infernorum (strain V4))
    Taxonomic identifieri481448 [NCBI]
    Taxonomic lineageiBacteriaVerrucomicrobiaunclassified VerrucomicrobiaMethylacidiphilalesMethylacidiphilaceaeMethylacidiphilum
    ProteomesiUP000009149: 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 – 907907Isoleucine--tRNA ligasePRO_1000216241Add
    BLAST

    Interactioni

    Subunit structurei

    Monomer.UniRule annotation

    Protein-protein interaction databases

    STRINGi481448.Minf_0370.

    Structurei

    3D structure databases

    ProteinModelPortaliB3DYQ6.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi57 – 6711"HIGH" regionAdd
    BLAST
    Motifi590 – 5945"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.
    OMAiTALWQIT.
    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.
    InterProiIPR002300. 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.
    [Graphical view]
    PANTHERiPTHR11946:SF9. PTHR11946:SF9. 1 hit.
    PfamiPF08264. Anticodon_1. 1 hit.
    PF00133. tRNA-synt_1. 1 hit.
    [Graphical view]
    PRINTSiPR00984. TRNASYNTHILE.
    SUPFAMiSSF47323. SSF47323. 1 hit.
    SSF50677. SSF50677. 1 hit.
    TIGRFAMsiTIGR00392. ileS. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    B3DYQ6-1 [UniParc]FASTAAdd to Basket

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    MDYSLTVLLP KTDFPMKANL PQREPHWIEV WEKEKVYSTL LEKRKNCPQF    50
    ILHDGPPFAN GKAHMGSGLN KILKDIVLKS RNMLGFQCPY IPGWDCHGLP 100
    IEHKVMSEYP ALAADPLSIR NKCKEYARYW IEIQKEQFRR LGILGSWDNP 150
    YITMDPGYEA AELRLFAELV EKKWVYRGLR PVFWSVGCRT ALAEAEIEYQ 200
    KKEDIAIYVE FPVGEEELKK AGLPQGTSFL AWTTTPWTLP ANLALAVSPD 250
    LSYELRQVGG KKFIVAGKLA ESIPGFSHSV VLLSFPSGQN LEGLKYNHPL 300
    LPREGVVYTA DFVSGETGSG IVHIAPGHGM EDYQLGMVHG LEVYSPVDDQ 350
    GRFTKQCGIE KIVGLSVFEA NSILCAMLKE KGLLWAKYPY VHDYPFCWRS 400
    KTPIIFRSVP QWFIAIEAFK SLALKEIERV NWIPSRGENR IKGAVESRKD 450
    WCISRQRYWG VPIPAFYKKS GEAILDPSII RRFADKVEEE GTDLWFRLES 500
    KELCQLLGLA PSEDLVKGLD TLDVWIDSGS SHYSVLKPRG EDPADLYLEG 550
    SDQHRGWFQS SLLLSVASKG KAPYKSVLTH GFVVDLDGKK LSKSSGARDL 600
    SEQIQTYGAD LLRLWVASEE YAEDVPFSKE IFSRLSDSYR LIRNSLRILL 650
    GNLHDFNPQE QSLPDDRLRE IDRYFELCVN KLVKKTKAFY ENYEFSQVYQ 700
    ALTRFCSVEL SSFYIDILKD RLYCDGQNWL SRRSAQTVLY RTFECLVKLL 750
    APILPFTTEE AWRASGKTSS IHLELFPEER EIKEEEKLLK RWEKILQLRD 800
    LANRELEKAR KQKMIGKNLE AKLILFTDDF EAEDTALLTE VFLVSQLEII 850
    RSSKTEILVE KALGKKCPRC WKFSLFAQSN SDPQYPHVCP RCLKVLKGLP 900
    ESFLVSD 907
    Length:907
    Mass (Da):103,868
    Last modified:July 22, 2008 - v1
    Checksum:i74707C11A679ECDF
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000975 Genomic DNA. Translation: ACD82428.1.
    RefSeqiYP_001939026.1. NC_010794.1.

    Genome annotation databases

    EnsemblBacteriaiACD82428; ACD82428; Minf_0370.
    GeneIDi6351287.
    KEGGimin:Minf_0370.
    PATRICi22489765. VBIMetInf111569_0389.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000975 Genomic DNA. Translation: ACD82428.1 .
    RefSeqi YP_001939026.1. NC_010794.1.

    3D structure databases

    ProteinModelPortali B3DYQ6.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 481448.Minf_0370.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACD82428 ; ACD82428 ; Minf_0370 .
    GeneIDi 6351287.
    KEGGi min:Minf_0370.
    PATRICi 22489765. VBIMetInf111569_0389.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci MINF481448:GJEI-377-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 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.
    [Graphical view ]
    PANTHERi PTHR11946:SF9. PTHR11946:SF9. 1 hit.
    Pfami PF08264. Anticodon_1. 1 hit.
    PF00133. tRNA-synt_1. 1 hit.
    [Graphical view ]
    PRINTSi PR00984. TRNASYNTHILE.
    SUPFAMi SSF47323. SSF47323. 1 hit.
    SSF50677. SSF50677. 1 hit.
    TIGRFAMsi TIGR00392. ileS. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Complete genome sequence of the extremely acidophilic methanotroph isolate V4, Methylacidiphilum infernorum, a representative of the bacterial phylum Verrucomicrobia."
      Hou S., Makarova K.S., Saw J.H., Senin P., Ly B.V., Zhou Z., Ren Y., Wang J., Galperin M.Y., Omelchenko M.V., Wolf Y.I., Yutin N., Koonin E.V., Stott M.B., Mountain B.W., Crowe M.A., Smirnova A.V., Dunfield P.F.
      , Feng L., Wang L., Alam M.
      Biol. Direct 3:26-26(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Isolate V4.

    Entry informationi

    Entry nameiSYI_METI4
    AccessioniPrimary (citable) accession number: B3DYQ6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 22, 2009
    Last sequence update: July 22, 2008
    Last modified: October 1, 2014
    This is version 48 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