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P38793

- TRM5_YEAST

UniProt

P38793 - TRM5_YEAST

Protein

tRNA (guanine(37)-N1)-methyltransferase

Gene

TRM5

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 116 (01 Oct 2014)
      Sequence version 1 (01 Feb 1995)
      Previous versions | rss
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    Functioni

    Specifically methylates the N1 position of guanosine-37 in various cytoplasmic and mitochondrial tRNAs. Methylation is not dependent on the nature of the nucleoside 5' of the target nucleoside. This is the first step in the biosynthesis of wybutosine (yW), a modified base adjacent to the anticodon of tRNAs and required for accurate decoding. Postspliced cytoplasmic tRNAs are imported into the nucleus, where this first step seems to take place, after which they are reexported to the cytoplasm, where the yW sythesis is completed by cytoplasmic enzymes.4 PublicationsUniRule annotation

    Catalytic activityi

    S-adenosyl-L-methionine + guanine(37) in tRNA = S-adenosyl-L-homocysteine + N(1)-methylguanine(37) in tRNA.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei268 – 2681S-adenosyl-L-methionineUniRule annotation
    Binding sitei399 – 3991S-adenosyl-L-methionineUniRule annotation

    GO - Molecular functioni

    1. tRNA (guanine(37)-N(1))-methyltransferase activity Source: UniProtKB-EC
    2. tRNA (guanine) methyltransferase activity Source: SGD

    GO - Biological processi

    1. tRNA methylation Source: SGD

    Keywords - Molecular functioni

    Methyltransferase, Transferase

    Keywords - Biological processi

    tRNA processing

    Keywords - Ligandi

    S-adenosyl-L-methionine

    Enzyme and pathway databases

    BioCyciMetaCyc:G3O-31120-MONOMER.
    YEAST:G3O-31120-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    tRNA (guanine(37)-N1)-methyltransferaseUniRule annotation (EC:2.1.1.228UniRule annotation)
    Alternative name(s):
    M1G-methyltransferaseUniRule annotation
    tRNA [GM37] methyltransferaseUniRule annotation
    tRNA methyltransferase 5UniRule annotation
    Gene namesi
    Name:TRM5UniRule annotation
    Ordered Locus Names:YHR070W
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome VIII

    Organism-specific databases

    CYGDiYHR070w.
    SGDiS000001112. TRM5.

    Subcellular locationi

    Mitochondrion matrix. Nucleus. Cytoplasm
    Note: Predominantly in the mitochondria and in the nucleus.

    GO - Cellular componenti

    1. cytoplasm Source: SGD
    2. mitochondrial matrix Source: SGD
    3. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm, Mitochondrion, Nucleus

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi1 – 3333Missing: Abolishes mitochondrial localization and activity, but not cytoplasmic activity of the enzyme. 1 PublicationAdd
    BLAST

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transit peptidei1 – 4444MitochondrionUniRule annotationAdd
    BLAST
    Chaini45 – 499455tRNA (guanine(37)-N1)-methyltransferasePRO_0000202899Add
    BLAST

    Proteomic databases

    MaxQBiP38793.
    PaxDbiP38793.

    Expressioni

    Gene expression databases

    GenevestigatoriP38793.

    Interactioni

    Subunit structurei

    Monomer.UniRule annotation

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    itself1EBI-24581,EBI-24581

    Protein-protein interaction databases

    BioGridi36502. 12 interactions.
    DIPiDIP-2950N.
    IntActiP38793. 2 interactions.
    MINTiMINT-582793.
    STRINGi4932.YHR070W.

    Structurei

    3D structure databases

    ProteinModelPortaliP38793.
    SMRiP38793. Positions 157-339.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni307 – 3082S-adenosyl-L-methionine bindingUniRule annotation
    Regioni335 – 3362S-adenosyl-L-methionine bindingUniRule annotation

    Sequence similaritiesi

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    eggNOGiCOG2520.
    GeneTreeiENSGT00390000008208.
    HOGENOMiHOG000195270.
    KOiK15429.
    OMAiHLNLREQ.
    OrthoDBiEOG75TMPT.

    Family and domain databases

    Gene3Di3.40.50.150. 2 hits.
    HAMAPiMF_03152. TRM5.
    InterProiIPR029063. SAM-dependent_MTases-like.
    IPR025792. tRNA_Gua_MeTrfase_euk.
    IPR003402. tRNA_Trfase_Trm5/Tyw2.
    [Graphical view]
    PfamiPF02475. Met_10. 1 hit.
    [Graphical view]
    SUPFAMiSSF53335. SSF53335. 2 hits.
    PROSITEiPS51684. SAM_MT_TRM5_TYW2. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    P38793-1 [UniParc]FASTAAdd to Basket

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    MKIALPVFQK FNRLISSCKM SGVFPYNPPV NRQMRELDRS FFITKIPMCA    50
    VKFPEPKNIS VFSKNFKNCI LRVPRIPHVV KLNSSKPKDE LTSVQNKKLK 100
    TADGNNTPVT KGVLLHESIH SVEDAYGKLP EDALAFLKEN SAEIVPHEYV 150
    LDYDFWKAEE ILRAVLPEQF LEEVPTGFTI TGHIAHLNLR TEFKPFDSLI 200
    GQVILDKNNK IECVVDKVSS IATQFRTFPM KVIAGKSDSL VVEQKESNCT 250
    FKFDFSKVYW NSRLHTEHER LVKQYFQPGQ VVCDVFAGVG PFAVPAGKKD 300
    VIVLANDLNP ESYKYLKENI ALNKVAKTVK SFNMDGADFI RQSPQLLQQW 350
    IQDEEGGKIT IPLPLKKRHR SQQHNDQQPP QPRTKELIIP SHISHYVMNL 400
    PDSAISFLGN FRGIFAAHTK GATDTIQMPW VHVHCFEKYP PGDQVTEDEL 450
    HARVHARIIA ALKVTADDLP LNAVSLHLVR KVAPTKPMYC ASFQLPANV 499
    Length:499
    Mass (Da):56,514
    Last modified:February 1, 1995 - v1
    Checksum:i4ADFE01440FF2188
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U00061 Genomic DNA. Translation: AAB68376.1.
    BK006934 Genomic DNA. Translation: DAA06763.1.
    PIRiS46697.
    RefSeqiNP_011937.1. NM_001179200.1.

    Genome annotation databases

    EnsemblFungiiYHR070W; YHR070W; YHR070W.
    GeneIDi856467.
    KEGGisce:YHR070W.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    U00061 Genomic DNA. Translation: AAB68376.1 .
    BK006934 Genomic DNA. Translation: DAA06763.1 .
    PIRi S46697.
    RefSeqi NP_011937.1. NM_001179200.1.

    3D structure databases

    ProteinModelPortali P38793.
    SMRi P38793. Positions 157-339.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 36502. 12 interactions.
    DIPi DIP-2950N.
    IntActi P38793. 2 interactions.
    MINTi MINT-582793.
    STRINGi 4932.YHR070W.

    Proteomic databases

    MaxQBi P38793.
    PaxDbi P38793.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YHR070W ; YHR070W ; YHR070W .
    GeneIDi 856467.
    KEGGi sce:YHR070W.

    Organism-specific databases

    CYGDi YHR070w.
    SGDi S000001112. TRM5.

    Phylogenomic databases

    eggNOGi COG2520.
    GeneTreei ENSGT00390000008208.
    HOGENOMi HOG000195270.
    KOi K15429.
    OMAi HLNLREQ.
    OrthoDBi EOG75TMPT.

    Enzyme and pathway databases

    BioCyci MetaCyc:G3O-31120-MONOMER.
    YEAST:G3O-31120-MONOMER.

    Miscellaneous databases

    NextBioi 982126.
    PROi P38793.

    Gene expression databases

    Genevestigatori P38793.

    Family and domain databases

    Gene3Di 3.40.50.150. 2 hits.
    HAMAPi MF_03152. TRM5.
    InterProi IPR029063. SAM-dependent_MTases-like.
    IPR025792. tRNA_Gua_MeTrfase_euk.
    IPR003402. tRNA_Trfase_Trm5/Tyw2.
    [Graphical view ]
    Pfami PF02475. Met_10. 1 hit.
    [Graphical view ]
    SUPFAMi SSF53335. SSF53335. 2 hits.
    PROSITEi PS51684. SAM_MT_TRM5_TYW2. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    2. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    3. "A primordial tRNA modification required for the evolution of life?"
      Bjork G.R., Jacobsson K., Nilsson K., Johansson M.J., Bystroem A.S., Persson O.P.
      EMBO J. 20:231-239(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    4. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
    5. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    6. "Yeast mitochondrial initiator tRNA is methylated at guanosine 37 by the Trm5-encoded tRNA (guanine-N1-)-methyltransferase."
      Lee C., Kramer G., Graham D.E., Appling D.R.
      J. Biol. Chem. 282:27744-27753(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, SUBCELLULAR LOCATION, MUTAGENESIS OF 1-MET--GLN-33.
    7. "The use of Saccharomyces cerevisiae proteomic libraries to identify RNA-modifying proteins."
      Jackman J.E., Grayhack E.J., Phizicky E.M.
      Methods Mol. Biol. 488:383-393(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    8. "Retrograde nuclear import of tRNA precursors is required for modified base biogenesis in yeast."
      Ohira T., Suzuki T.
      Proc. Natl. Acad. Sci. U.S.A. 108:10502-10507(2011) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, SUBCELLULAR LOCATION.

    Entry informationi

    Entry nameiTRM5_YEAST
    AccessioniPrimary (citable) accession number: P38793
    Secondary accession number(s): D3DL19
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 1995
    Last sequence update: February 1, 1995
    Last modified: October 1, 2014
    This is version 116 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Present with 4120 molecules/cell in log phase SD medium.1 Publication
    It is unsure how the mitochondrial and cytoplasmic forms of this protein are produced. The cytoplasmic form may be produced by alternative initiation at a downstream in-frame AUG codon at position 34, lacking a mitochondrial transit peptide.

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families
    2. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    3. Yeast chromosome VIII
      Yeast (Saccharomyces cerevisiae) chromosome VIII: entries and gene names

    External Data

    Dasty 3