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Protein

Valine--tRNA ligase

Gene

valS

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the attachment of valine to tRNA(Val). As ValRS can inadvertently accommodate and process structurally similar amino acids such as threonine, to avoid such errors, it has a "posttransfer" editing activity that hydrolyzes mischarged Thr-tRNA(Val) in a tRNA-dependent manner.

Catalytic activityi

ATP + L-valine + tRNA(Val) = AMP + diphosphate + L-valyl-tRNA(Val).

Kineticsi

  1. KM=0.1 µM for tRNA1 Publication
  2. KM=47 µM for valine1 Publication

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Binding sitei557ATPBy similarity1

    GO - Molecular functioni

    • aminoacyl-tRNA editing activity Source: EcoCyc
    • ATP binding Source: UniProtKB-HAMAP
    • magnesium ion binding Source: EcoCyc
    • valine-tRNA ligase activity Source: GO_Central

    GO - Biological processi

    • cytosolic valyl-tRNA aminoacylation Source: EcoCyc
    • positive regulation of translational fidelity Source: EcoCyc
    • valyl-tRNA aminoacylation Source: EcoCyc
    Complete GO annotation...

    Keywords - Molecular functioni

    Aminoacyl-tRNA synthetase, Ligase

    Keywords - Biological processi

    Protein biosynthesis

    Keywords - Ligandi

    ATP-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciEcoCyc:VALS-MONOMER.
    ECOL316407:JW4215-MONOMER.
    MetaCyc:VALS-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Valine--tRNA ligase (EC:6.1.1.9)
    Alternative name(s):
    Valyl-tRNA synthetase
    Short name:
    ValRS
    Gene namesi
    Name:valS
    Ordered Locus Names:b4258, JW4215
    OrganismiEscherichia coli (strain K12)
    Taxonomic identifieri83333 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
    Proteomesi
    • UP000000318 Componenti: Chromosome
    • UP000000625 Componenti: Chromosome

    Organism-specific databases

    EcoGeneiEG11067. valS.

    Subcellular locationi

    GO - Cellular componenti

    • cytosol Source: EcoCyc
    Complete GO annotation...

    Keywords - Cellular componenti

    Cytoplasm

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Mutagenesisi222T → P: Produces mischarged Thr-tRNA(Val) and Cys-tRNA(Val). 1 Publication1
    Mutagenesisi277K → A: Reduces posttransfer Thr-tRNA(Val) editing rate significantly and alters amino acid discrimination in the editing site, resulting in hydrolysis of the correctly charged cognate product. 1 Publication1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00001062241 – 951Valine--tRNA ligaseAdd BLAST951

    Proteomic databases

    EPDiP07118.
    PaxDbiP07118.
    PRIDEiP07118.

    Interactioni

    Subunit structurei

    Monomer.

    Protein-protein interaction databases

    BioGridi4262724. 7 interactors.
    DIPiDIP-11112N.
    IntActiP07118. 5 interactors.
    MINTiMINT-1260839.
    STRINGi511145.b4258.

    Structurei

    3D structure databases

    ProteinModelPortaliP07118.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Coiled coil

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Coiled coili880 – 944Sequence analysisAdd BLAST65

    Motif

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Motifi42 – 52"HIGH" regionAdd BLAST11
    Motifi554 – 558"KMSKS" region5

    Domaini

    ValRS has two distinct active sites: one for aminoacylation and one for editing. The misactivated threonine is translocated from the active site to the editing site.
    The C-terminal coiled-coil domain is crucial for aminoacylation activity.By similarity

    Sequence similaritiesi

    Keywords - Domaini

    Coiled coil

    Phylogenomic databases

    eggNOGiENOG4105CA4. Bacteria.
    COG0525. LUCA.
    HOGENOMiHOG000020094.
    InParanoidiP07118.
    KOiK01873.
    OMAiSQYRFDL.
    PhylomeDBiP07118.

    Family and domain databases

    CDDicd07962. Anticodon_Ia_Val. 1 hit.
    Gene3Di1.10.287.380. 1 hit.
    1.10.730.10. 1 hit.
    3.40.50.620. 3 hits.
    3.90.740.10. 1 hit.
    HAMAPiMF_02004. Val_tRNA_synth_type1. 1 hit.
    InterProiIPR001412. aa-tRNA-synth_I_CS.
    IPR002300. aa-tRNA-synth_Ia.
    IPR033705. Anticodon_Ia_Val.
    IPR013155. M/V/L/I-tRNA-synth_anticd-bd.
    IPR014729. Rossmann-like_a/b/a_fold.
    IPR010978. tRNA-bd_arm.
    IPR009080. tRNAsynth_Ia_anticodon-bd.
    IPR019499. Val-tRNA_synth_tRNA-bd.
    IPR009008. Val/Leu/Ile-tRNA-synth_edit.
    IPR002303. Valyl-tRNA_ligase.
    [Graphical view]
    PANTHERiPTHR11946:SF5. PTHR11946:SF5. 3 hits.
    PfamiPF08264. Anticodon_1. 1 hit.
    PF00133. tRNA-synt_1. 1 hit.
    PF10458. Val_tRNA-synt_C. 1 hit.
    [Graphical view]
    PRINTSiPR00986. TRNASYNTHVAL.
    SUPFAMiSSF46589. SSF46589. 1 hit.
    SSF47323. SSF47323. 1 hit.
    SSF50677. SSF50677. 1 hit.
    TIGRFAMsiTIGR00422. valS. 1 hit.
    PROSITEiPS00178. AA_TRNA_LIGASE_I. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P07118-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MEKTYNPQDI EQPLYEHWEK QGYFKPNGDE SQESFCIMIP PPNVTGSLHM
    60 70 80 90 100
    GHAFQQTIMD TMIRYQRMQG KNTLWQVGTD HAGIATQMVV ERKIAAEEGK
    110 120 130 140 150
    TRHDYGREAF IDKIWEWKAE SGGTITRQMR RLGNSVDWER ERFTMDEGLS
    160 170 180 190 200
    NAVKEVFVRL YKEDLIYRGK RLVNWDPKLR TAISDLEVEN RESKGSMWHI
    210 220 230 240 250
    RYPLADGAKT ADGKDYLVVA TTRPETLLGD TGVAVNPEDP RYKDLIGKYV
    260 270 280 290 300
    ILPLVNRRIP IVGDEHADME KGTGCVKITP AHDFNDYEVG KRHALPMINI
    310 320 330 340 350
    LTFDGDIRES AQVFDTKGNE SDVYSSEIPA EFQKLERFAA RKAVVAAVDA
    360 370 380 390 400
    LGLLEEIKPH DLTVPYGDRG GVVIEPMLTD QWYVRADVLA KPAVEAVENG
    410 420 430 440 450
    DIQFVPKQYE NMYFSWMRDI QDWCISRQLW WGHRIPAWYD EAGNVYVGRN
    460 470 480 490 500
    EDEVRKENNL GADVVLRQDE DVLDTWFSSA LWTFSTLGWP ENTDALRQFH
    510 520 530 540 550
    PTSVMVSGFD IIFFWIARMI MMTMHFIKDE NGKPQVPFHT VYMTGLIRDD
    560 570 580 590 600
    EGQKMSKSKG NVIDPLDMVD GISLPELLEK RTGNMMQPQL ADKIRKRTEK
    610 620 630 640 650
    QFPNGIEPHG TDALRFTLAA LASTGRDINW DMKRLEGYRN FCNKLWNASR
    660 670 680 690 700
    FVLMNTEGQD CGFNGGEMTL SLADRWILAE FNQTIKAYRE ALDSFRFDIA
    710 720 730 740 750
    AGILYEFTWN QFCDWYLELT KPVMNGGTEA ELRGTRHTLV TVLEGLLRLA
    760 770 780 790 800
    HPIIPFITET IWQRVKVLCG ITADTIMLQP FPQYDASQVD EAALADTEWL
    810 820 830 840 850
    KQAIVAVRNI RAEMNIAPGK PLELLLRGCS ADAERRVNEN RGFLQTLARL
    860 870 880 890 900
    ESITVLPADD KGPVSVTKII DGAELLIPMA GLINKEDELA RLAKEVAKIE
    910 920 930 940 950
    GEISRIENKL ANEGFVARAP EAVIAKEREK LEGYAEAKAK LIEQQAVIAA

    L
    Length:951
    Mass (Da):108,192
    Last modified:November 1, 1997 - v2
    Checksum:i3FBE09CF1E7D40BC
    GO

    Experimental Info

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Sequence conflicti107R → A in AAA24657 (PubMed:3275660).Curated1
    Sequence conflicti148G → D in AAP43521 (Ref. 6) Curated1
    Sequence conflicti452D → E in AAP43521 (Ref. 6) Curated1
    Sequence conflicti465V → A in AAP43521 (Ref. 6) Curated1
    Sequence conflicti694S → T in CAA29322 (PubMed:3317277).Curated1
    Sequence conflicti833A → R in AAA24657 (PubMed:3275660).Curated1

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    X05891 Genomic DNA. Translation: CAA29322.1.
    J03497 Genomic DNA. Translation: AAA24657.1.
    U14003 Genomic DNA. Translation: AAA97155.1.
    U00096 Genomic DNA. Translation: AAC77215.1.
    AP009048 Genomic DNA. Translation: BAE78255.1.
    AY283771 Genomic DNA. Translation: AAP43521.1.
    PIRiE65238. SYECVT.
    RefSeqiNP_418679.1. NC_000913.3.
    WP_000416392.1. NZ_LN832404.1.

    Genome annotation databases

    EnsemblBacteriaiAAC77215; AAC77215; b4258.
    BAE78255; BAE78255; BAE78255.
    GeneIDi948785.
    KEGGiecj:JW4215.
    eco:b4258.
    PATRICi32124087. VBIEscCol129921_4388.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    X05891 Genomic DNA. Translation: CAA29322.1.
    J03497 Genomic DNA. Translation: AAA24657.1.
    U14003 Genomic DNA. Translation: AAA97155.1.
    U00096 Genomic DNA. Translation: AAC77215.1.
    AP009048 Genomic DNA. Translation: BAE78255.1.
    AY283771 Genomic DNA. Translation: AAP43521.1.
    PIRiE65238. SYECVT.
    RefSeqiNP_418679.1. NC_000913.3.
    WP_000416392.1. NZ_LN832404.1.

    3D structure databases

    ProteinModelPortaliP07118.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    BioGridi4262724. 7 interactors.
    DIPiDIP-11112N.
    IntActiP07118. 5 interactors.
    MINTiMINT-1260839.
    STRINGi511145.b4258.

    Proteomic databases

    EPDiP07118.
    PaxDbiP07118.
    PRIDEiP07118.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblBacteriaiAAC77215; AAC77215; b4258.
    BAE78255; BAE78255; BAE78255.
    GeneIDi948785.
    KEGGiecj:JW4215.
    eco:b4258.
    PATRICi32124087. VBIEscCol129921_4388.

    Organism-specific databases

    EchoBASEiEB1060.
    EcoGeneiEG11067. valS.

    Phylogenomic databases

    eggNOGiENOG4105CA4. Bacteria.
    COG0525. LUCA.
    HOGENOMiHOG000020094.
    InParanoidiP07118.
    KOiK01873.
    OMAiSQYRFDL.
    PhylomeDBiP07118.

    Enzyme and pathway databases

    BioCyciEcoCyc:VALS-MONOMER.
    ECOL316407:JW4215-MONOMER.
    MetaCyc:VALS-MONOMER.

    Miscellaneous databases

    PROiP07118.

    Family and domain databases

    CDDicd07962. Anticodon_Ia_Val. 1 hit.
    Gene3Di1.10.287.380. 1 hit.
    1.10.730.10. 1 hit.
    3.40.50.620. 3 hits.
    3.90.740.10. 1 hit.
    HAMAPiMF_02004. Val_tRNA_synth_type1. 1 hit.
    InterProiIPR001412. aa-tRNA-synth_I_CS.
    IPR002300. aa-tRNA-synth_Ia.
    IPR033705. Anticodon_Ia_Val.
    IPR013155. M/V/L/I-tRNA-synth_anticd-bd.
    IPR014729. Rossmann-like_a/b/a_fold.
    IPR010978. tRNA-bd_arm.
    IPR009080. tRNAsynth_Ia_anticodon-bd.
    IPR019499. Val-tRNA_synth_tRNA-bd.
    IPR009008. Val/Leu/Ile-tRNA-synth_edit.
    IPR002303. Valyl-tRNA_ligase.
    [Graphical view]
    PANTHERiPTHR11946:SF5. PTHR11946:SF5. 3 hits.
    PfamiPF08264. Anticodon_1. 1 hit.
    PF00133. tRNA-synt_1. 1 hit.
    PF10458. Val_tRNA-synt_C. 1 hit.
    [Graphical view]
    PRINTSiPR00986. TRNASYNTHVAL.
    SUPFAMiSSF46589. SSF46589. 1 hit.
    SSF47323. SSF47323. 1 hit.
    SSF50677. SSF50677. 1 hit.
    TIGRFAMsiTIGR00422. valS. 1 hit.
    PROSITEiPS00178. AA_TRNA_LIGASE_I. 1 hit.
    [Graphical view]
    ProtoNetiSearch...

    Entry informationi

    Entry nameiSYV_ECOLI
    AccessioniPrimary (citable) accession number: P07118
    Secondary accession number(s): P78142, Q2M651, Q7X4V7
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 1, 1988
    Last sequence update: November 1, 1997
    Last modified: November 2, 2016
    This is version 152 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Direct protein sequencing, Reference proteome

    Documents

    1. Aminoacyl-tRNA synthetases
      List of aminoacyl-tRNA synthetase entries
    2. Escherichia coli
      Escherichia coli (strain K12): entries and cross-references to EcoGene
    3. SIMILARITY comments
      Index of protein domains and families

    Similar proteinsi

    Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
    100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
    90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
    50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.