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Protein

Methionine--tRNA ligase, cytoplasmic

Gene

MES1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the attachment of methionine to tRNA(Met) in a two-step reaction: methionine is first activated by ATP to form Met-AMP and then transferred to the acceptor end of tRNA(Met).1 Publication

Catalytic activityi

ATP + L-methionine + tRNA(Met) = AMP + diphosphate + L-methionyl-tRNA(Met).3 Publications

Kineticsi

The presence of ARC1 reduces the KM for tRNA(Met) to less than 0.1 µM and increases the catalytic efficiency more than 500-fold.

  1. KM=6.6 µM for tRNA(Met) (in the absence of ARC1)3 Publications
  2. KM=10 µM for methionine3 Publications

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Binding sitei411ATPBy similarity1

    GO - Molecular functioni

    • ATP binding Source: UniProtKB-KW
    • methionine-tRNA ligase activity Source: SGD

    GO - Biological processi

    • methionyl-tRNA aminoacylation Source: SGD
    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

    BioCyciYEAST:G3O-30933-MONOMER.
    BRENDAi6.1.1.10. 984.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Methionine--tRNA ligase, cytoplasmic (EC:6.1.1.10)
    Alternative name(s):
    Methionyl-tRNA synthetase
    Short name:
    MetRS
    Gene namesi
    Name:MES1
    Ordered Locus Names:YGR264C
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    Proteomesi
    • UP000002311 Componenti: Chromosome VII

    Organism-specific databases

    EuPathDBiFungiDB:YGR264C.
    SGDiS000003496. MES1.

    Subcellular locationi

    • Cytoplasm 1 Publication

    • Note: Largely excluded from the nucleus.

    GO - Cellular componenti

    • cytoplasm Source: SGD
    • cytosol Source: GO_Central
    • methionyl glutamyl tRNA synthetase complex Source: SGD
    Complete GO annotation...

    Keywords - Cellular componenti

    Cytoplasm

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Mutagenesisi63A → H: Abolishes interaction with ARC1. 1 Publication1
    Mutagenesisi502G → D in mes1; renders the protein unstable in vitro, elevates the KM for methionine in vivo. 1 Publication1
    Mutagenesisi584N → D or Q: Abolishes aminoacylation activity. 1 Publication1
    Mutagenesisi588R → A, K or Q: Abolishes aminoacylation activity. 1 Publication1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Initiator methionineiRemoved2 Publications
    ChainiPRO_00001392692 – 751Methionine--tRNA ligase, cytoplasmicAdd BLAST750

    Amino acid modifications

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Modified residuei2N-acetylserine2 Publications1

    Keywords - PTMi

    Acetylation

    Proteomic databases

    MaxQBiP00958.
    PRIDEiP00958.

    PTM databases

    iPTMnetiP00958.

    Interactioni

    Subunit structurei

    Component of a yeast aminoacyl-tRNA synthase (aaRS) complex formed by methionyl-tRNA synthase MES1, glutamyl-tRNA synthase GUS1 and the tRNA aminoacylation cofactor ARC1 in a stoichiometric complex. Interacts (via N-ter) with ARC1 (via N-ter). Can also form a stable binary complex with ARC1 that is functional in terms of aminoacylation. ARC1 increases the affinity for cognate tRNAs due to the presence of a tRNA binding domain in the middle and C-terminal part of ARC1.5 Publications

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    ARC1P466727EBI-18762,EBI-7224

    Protein-protein interaction databases

    BioGridi33515. 37 interactors.
    DIPiDIP-2211N.
    IntActiP00958. 10 interactors.
    MINTiMINT-648422.

    Structurei

    Secondary structure

    1751
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Beta strandi3 – 5Combined sources3
    Beta strandi10 – 12Combined sources3
    Helixi15 – 31Combined sources17
    Beta strandi49 – 51Combined sources3
    Helixi61 – 68Combined sources8
    Turni73 – 76Combined sources4
    Helixi78 – 86Combined sources9
    Turni87 – 89Combined sources3
    Helixi90 – 92Combined sources3
    Beta strandi93 – 95Combined sources3
    Helixi98 – 111Combined sources14
    Helixi122 – 142Combined sources21
    Helixi148 – 157Combined sources10

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    2HSNX-ray2.20A2-160[»]
    ProteinModelPortaliP00958.
    SMRiP00958.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP00958.

    Family & Domainsi

    Region

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Regioni36 – 92Interaction with ARC1Add BLAST57

    Motif

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Motifi205 – 215"HIGH" regionAdd BLAST11
    Motifi525 – 529"KMSKS" region5

    Sequence similaritiesi

    Phylogenomic databases

    GeneTreeiENSGT00550000075017.
    HOGENOMiHOG000200402.
    InParanoidiP00958.
    KOiK01874.
    OMAiRVYVWID.
    OrthoDBiEOG092C1KCQ.

    Family and domain databases

    CDDicd00814. MetRS_core. 1 hit.
    Gene3Di1.10.730.10. 1 hit.
    2.20.28.20. 1 hit.
    3.40.50.620. 2 hits.
    HAMAPiMF_00098. Met_tRNA_synth_type1. 1 hit.
    InterProiIPR001412. aa-tRNA-synth_I_CS.
    IPR018285. Met-tRNA-synth_N.
    IPR023458. Met-tRNA_ligase_1.
    IPR014758. Met-tRNA_synth.
    IPR015413. Methionyl/Leucyl_tRNA_Synth.
    IPR033911. MetRS_core.
    IPR029038. MetRS_Zn.
    IPR014729. Rossmann-like_a/b/a_fold.
    IPR009080. tRNAsynth_Ia_anticodon-bd.
    [Graphical view]
    PfamiPF09635. MetRS-N. 1 hit.
    PF09334. tRNA-synt_1g. 1 hit.
    [Graphical view]
    PRINTSiPR01041. TRNASYNTHMET.
    SUPFAMiSSF47323. SSF47323. 1 hit.
    SSF57770. SSF57770. 1 hit.
    TIGRFAMsiTIGR00398. metG. 1 hit.
    PROSITEiPS00178. AA_TRNA_LIGASE_I. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    P00958-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MSFLISFDKS KKHPAHLQLA NNLKIALALE YASKNLKPEV DNDNAAMELR
    60 70 80 90 100
    NTKEPFLLFD ANAILRYVMD DFEGQTSDKY QFALASLQNL LYHKELPQQH
    110 120 130 140 150
    VEVLTNKAIE NYLVELKEPL TTTDLILFAN VYALNSSLVH SKFPELPSKV
    160 170 180 190 200
    HNAVALAKKH VPRDSSSFKN IGAVKIQADL TVKPKDSEIL PKPNERNILI
    210 220 230 240 250
    TSALPYVNNV PHLGNIIGSV LSADIFARYC KGRNYNALFI CGTDEYGTAT
    260 270 280 290 300
    ETKALEEGVT PRQLCDKYHK IHSDVYKWFQ IGFDYFGRTT TDKQTEIAQH
    310 320 330 340 350
    IFTKLNSNGY LEEQSMKQLY CPVHNSYLAD RYVEGECPKC HYDDARGDQC
    360 370 380 390 400
    DKCGALLDPF ELINPRCKLD DASPEPKYSD HIFLSLDKLE SQISEWVEKA
    410 420 430 440 450
    SEEGNWSKNS KTITQSWLKD GLKPRCITRD LVWGTPVPLE KYKDKVLYVW
    460 470 480 490 500
    FDATIGYVSI TSNYTKEWKQ WWNNPEHVSL YQFMGKDNVP FHTVVFPGSQ
    510 520 530 540 550
    LGTEENWTML HHLNTTEYLQ YENGKFSKSR GVGVFGNNAQ DSGISPSVWR
    560 570 580 590 600
    YYLASVRPES SDSHFSWDDF VARNNSELLA NLGNFVNRLI KFVNAKYNGV
    610 620 630 640 650
    VPKFDPKKVS NYDGLVKDIN EILSNYVKEM ELGHERRGLE IAMSLSARGN
    660 670 680 690 700
    QFLQENKLDN TLFSQSPEKS DAVVAVGLNI IYAVSSIITP YMPEIGEKIN
    710 720 730 740 750
    KMLNAPALKI DDRFHLAILE GHNINKAEYL FQRIDEKKID EWRAKYGGQQ

    V
    Length:751
    Mass (Da):85,678
    Last modified:January 23, 2007 - v4
    Checksum:i11679C1AB8BB5E39
    GO

    Experimental Info

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Sequence conflicti122T → A in CAA24627 (PubMed:6341994).Curated1
    Sequence conflicti122T → A (PubMed:3905796).Curated1

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    V01316 Genomic DNA. Translation: CAA24627.1.
    Y07777 Genomic DNA. Translation: CAA69086.1.
    Z73049 Genomic DNA. Translation: CAA97293.1.
    BK006941 Genomic DNA. Translation: DAA08354.1.
    PIRiS64597. SYBYMT.
    RefSeqiNP_011780.3. NM_001181393.3.

    Genome annotation databases

    EnsemblFungiiYGR264C; YGR264C; YGR264C.
    GeneIDi853181.
    KEGGisce:YGR264C.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    V01316 Genomic DNA. Translation: CAA24627.1.
    Y07777 Genomic DNA. Translation: CAA69086.1.
    Z73049 Genomic DNA. Translation: CAA97293.1.
    BK006941 Genomic DNA. Translation: DAA08354.1.
    PIRiS64597. SYBYMT.
    RefSeqiNP_011780.3. NM_001181393.3.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    2HSNX-ray2.20A2-160[»]
    ProteinModelPortaliP00958.
    SMRiP00958.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    BioGridi33515. 37 interactors.
    DIPiDIP-2211N.
    IntActiP00958. 10 interactors.
    MINTiMINT-648422.

    PTM databases

    iPTMnetiP00958.

    Proteomic databases

    MaxQBiP00958.
    PRIDEiP00958.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblFungiiYGR264C; YGR264C; YGR264C.
    GeneIDi853181.
    KEGGisce:YGR264C.

    Organism-specific databases

    EuPathDBiFungiDB:YGR264C.
    SGDiS000003496. MES1.

    Phylogenomic databases

    GeneTreeiENSGT00550000075017.
    HOGENOMiHOG000200402.
    InParanoidiP00958.
    KOiK01874.
    OMAiRVYVWID.
    OrthoDBiEOG092C1KCQ.

    Enzyme and pathway databases

    BioCyciYEAST:G3O-30933-MONOMER.
    BRENDAi6.1.1.10. 984.

    Miscellaneous databases

    EvolutionaryTraceiP00958.
    PROiP00958.

    Family and domain databases

    CDDicd00814. MetRS_core. 1 hit.
    Gene3Di1.10.730.10. 1 hit.
    2.20.28.20. 1 hit.
    3.40.50.620. 2 hits.
    HAMAPiMF_00098. Met_tRNA_synth_type1. 1 hit.
    InterProiIPR001412. aa-tRNA-synth_I_CS.
    IPR018285. Met-tRNA-synth_N.
    IPR023458. Met-tRNA_ligase_1.
    IPR014758. Met-tRNA_synth.
    IPR015413. Methionyl/Leucyl_tRNA_Synth.
    IPR033911. MetRS_core.
    IPR029038. MetRS_Zn.
    IPR014729. Rossmann-like_a/b/a_fold.
    IPR009080. tRNAsynth_Ia_anticodon-bd.
    [Graphical view]
    PfamiPF09635. MetRS-N. 1 hit.
    PF09334. tRNA-synt_1g. 1 hit.
    [Graphical view]
    PRINTSiPR01041. TRNASYNTHMET.
    SUPFAMiSSF47323. SSF47323. 1 hit.
    SSF57770. SSF57770. 1 hit.
    TIGRFAMsiTIGR00398. metG. 1 hit.
    PROSITEiPS00178. AA_TRNA_LIGASE_I. 1 hit.
    [Graphical view]
    ProtoNetiSearch...

    Entry informationi

    Entry nameiSYMC_YEAST
    AccessioniPrimary (citable) accession number: P00958
    Secondary accession number(s): D6VV43
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 21, 1986
    Last sequence update: January 23, 2007
    Last modified: November 30, 2016
    This is version 168 of the entry and version 4 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Present with 85000 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

    Documents

    1. Aminoacyl-tRNA synthetases
      List of aminoacyl-tRNA synthetase entries
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. SIMILARITY comments
      Index of protein domains and families
    4. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    5. Yeast chromosome VII
      Yeast (Saccharomyces cerevisiae) chromosome VII: entries and gene names

    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.