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P37292

- GLYM_YEAST

UniProt

P37292 - GLYM_YEAST

Protein

Serine hydroxymethyltransferase, mitochondrial

Gene

SHM1

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 127 (01 Oct 2014)
      Sequence version 2 (06 Dec 2005)
      Previous versions | rss
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    Functioni

    Interconversion of serine and glycine.

    Catalytic activityi

    5,10-methylenetetrahydrofolate + glycine + H2O = tetrahydrofolate + L-serine.

    Cofactori

    Pyridoxal phosphate.

    Pathwayi

    GO - Molecular functioni

    1. glycine hydroxymethyltransferase activity Source: SGD
    2. pyridoxal phosphate binding Source: InterPro

    GO - Biological processi

    1. glycine metabolic process Source: InterPro
    2. L-serine metabolic process Source: InterPro
    3. one-carbon metabolic process Source: SGD
    4. serine family amino acid biosynthetic process Source: SGD
    5. tetrahydrofolate interconversion Source: UniProtKB-UniPathway

    Keywords - Molecular functioni

    Transferase

    Keywords - Biological processi

    One-carbon metabolism

    Keywords - Ligandi

    Pyridoxal phosphate

    Enzyme and pathway databases

    BioCyciMetaCyc:YBR263W-MONOMER.
    YEAST:YBR263W-MONOMER.
    UniPathwayiUPA00193.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Serine hydroxymethyltransferase, mitochondrial (EC:2.1.2.1)
    Short name:
    SHMT
    Alternative name(s):
    Glycine hydroxymethyltransferase
    Serine methylase
    Gene namesi
    Name:SHM1
    Synonyms:SHMT1
    Ordered Locus Names:YBR263W
    ORF Names:YBR1732
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome II

    Organism-specific databases

    CYGDiYBR263w.
    SGDiS000000467. SHM1.

    Subcellular locationi

    GO - Cellular componenti

    1. mitochondrion Source: SGD

    Keywords - Cellular componenti

    Mitochondrion

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transit peptidei1 – 2020MitochondrionSequence AnalysisAdd
    BLAST
    Chaini21 – 490470Serine hydroxymethyltransferase, mitochondrialPRO_0000032568Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei265 – 2651N6-(pyridoxal phosphate)lysineBy similarity

    Proteomic databases

    MaxQBiP37292.
    PaxDbiP37292.
    PeptideAtlasiP37292.
    PRIDEiP37292.

    Expressioni

    Gene expression databases

    GenevestigatoriP37292.

    Interactioni

    Subunit structurei

    Homotetramer By similarity. Interacts with NAP1.By similarity1 Publication

    Protein-protein interaction databases

    BioGridi32958. 34 interactions.
    DIPiDIP-4952N.
    IntActiP37292. 4 interactions.
    MINTiMINT-548725.
    STRINGi4932.YBR263W.

    Structurei

    3D structure databases

    ProteinModelPortaliP37292.
    SMRiP37292. Positions 23-488.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the SHMT family.Curated

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    eggNOGiCOG0112.
    GeneTreeiENSGT00390000002762.
    HOGENOMiHOG000239405.
    KOiK00600.
    OMAiCGAYLMS.
    OrthoDBiEOG7PVWZT.

    Family and domain databases

    Gene3Di3.40.640.10. 1 hit.
    3.90.1150.10. 1 hit.
    HAMAPiMF_00051. SHMT.
    InterProiIPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    IPR015422. PyrdxlP-dep_Trfase_major_sub2.
    IPR001085. Ser_HO-MeTrfase.
    IPR019798. Ser_HO-MeTrfase_PLP_BS.
    [Graphical view]
    PANTHERiPTHR11680. PTHR11680. 1 hit.
    PfamiPF00464. SHMT. 1 hit.
    [Graphical view]
    PIRSFiPIRSF000412. SHMT. 1 hit.
    SUPFAMiSSF53383. SSF53383. 1 hit.
    PROSITEiPS00096. SHMT. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    P37292-1 [UniParc]FASTAAdd to Basket

    « Hide

    MFPRASALAK CMATVHRRGL LTSGAQSLVS KPVSEGDPEM FDILQQERHR    50
    QKHSITLIPS ENFTSKAVMD LLGSELQNKY SEGYPGERYY GGNEIIDKSE 100
    SLCQARALEL YGLDPAKWGV NVQPLSGAPA NLYVYSAIMN VGERLMGLDL 150
    PDGGHLSHGY QLKSGTPISF ISKYFQSMPY HVDHTTGLID YDNLQVLAKA 200
    FRPKVIVAGT SAYSRLIDYA RFKEISQGCG AYLMSDMAHI SGLVAANVVP 250
    SPFEHSDIVT TTTHKSLRGP RGAMIFFRKG IKSVTKKGKE IPYELEKKIN 300
    FSVFPGHQGG PHNHTIGAMA VALKQAMSPE FKEYQQKIVD NSKWFAQELT 350
    KMGYKLVSGG TDNHLIVIDL SGTQVDGARV ETILSALNIA ANKNTIPGDK 400
    SALFPSGLRI GTPAMTTRGF GREEFSQVAK YIDSAVKLAE NLKTLEPTTK 450
    LDARSRLNEF KKLCNESSEV AALSGEISKW VGQYPVPGDI 490
    Length:490
    Mass (Da):53,686
    Last modified:December 6, 2005 - v2
    Checksum:i8DECF1ECD6349450
    GO

    Sequence cautioni

    The sequence CAA49927.1 differs from that shown. Reason: Erroneous initiation.
    The sequence CAA85226.1 differs from that shown. Reason: Erroneous initiation.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti72 – 721L → S in AAA21024. (PubMed:8132653)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L22528 Genomic DNA. Translation: AAA21024.1.
    X70529 Genomic DNA. Translation: CAA49927.1. Different initiation.
    Z36131 Genomic DNA. Translation: CAA85226.1. Different initiation.
    BK006936 Genomic DNA. Translation: DAA07380.1.
    PIRiS29348.
    RefSeqiNP_009822.4. NM_001178611.3.

    Genome annotation databases

    EnsemblFungiiYBR263W; YBR263W; YBR263W.
    GeneIDi852565.
    KEGGisce:YBR263W.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L22528 Genomic DNA. Translation: AAA21024.1 .
    X70529 Genomic DNA. Translation: CAA49927.1 . Different initiation.
    Z36131 Genomic DNA. Translation: CAA85226.1 . Different initiation.
    BK006936 Genomic DNA. Translation: DAA07380.1 .
    PIRi S29348.
    RefSeqi NP_009822.4. NM_001178611.3.

    3D structure databases

    ProteinModelPortali P37292.
    SMRi P37292. Positions 23-488.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 32958. 34 interactions.
    DIPi DIP-4952N.
    IntActi P37292. 4 interactions.
    MINTi MINT-548725.
    STRINGi 4932.YBR263W.

    Proteomic databases

    MaxQBi P37292.
    PaxDbi P37292.
    PeptideAtlasi P37292.
    PRIDEi P37292.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YBR263W ; YBR263W ; YBR263W .
    GeneIDi 852565.
    KEGGi sce:YBR263W.

    Organism-specific databases

    CYGDi YBR263w.
    SGDi S000000467. SHM1.

    Phylogenomic databases

    eggNOGi COG0112.
    GeneTreei ENSGT00390000002762.
    HOGENOMi HOG000239405.
    KOi K00600.
    OMAi CGAYLMS.
    OrthoDBi EOG7PVWZT.

    Enzyme and pathway databases

    UniPathwayi UPA00193 .
    BioCyci MetaCyc:YBR263W-MONOMER.
    YEAST:YBR263W-MONOMER.

    Miscellaneous databases

    NextBioi 971682.

    Gene expression databases

    Genevestigatori P37292.

    Family and domain databases

    Gene3Di 3.40.640.10. 1 hit.
    3.90.1150.10. 1 hit.
    HAMAPi MF_00051. SHMT.
    InterProi IPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    IPR015422. PyrdxlP-dep_Trfase_major_sub2.
    IPR001085. Ser_HO-MeTrfase.
    IPR019798. Ser_HO-MeTrfase_PLP_BS.
    [Graphical view ]
    PANTHERi PTHR11680. PTHR11680. 1 hit.
    Pfami PF00464. SHMT. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF000412. SHMT. 1 hit.
    SUPFAMi SSF53383. SSF53383. 1 hit.
    PROSITEi PS00096. SHMT. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Cloning and molecular characterization of three genes, including two genes encoding serine hydroxymethyltransferases, whose inactivation is required to render yeast auxotrophic for glycine."
      McNeil J.B., McIntosh E.M., Taylor B.V., Zhang F.-R., Tang S., Bognar A.L.
      J. Biol. Chem. 269:9155-9165(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 208353 / W303-1A.
    2. "The complete sequence of a 19,482 bp segment located on the right arm of chromosome II from Saccharomyces cerevisiae."
      Doignon F., Biteau N., Crouzet M., Aigle M.
      Yeast 9:189-199(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    3. "Complete DNA sequence of yeast chromosome II."
      Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., Cziepluch C.
      , Demolis N., Delaveau T., Doignon F., Domdey H., Duesterhus S., Dubois E., Dujon B., El Bakkoury M., Entian K.-D., Feuermann M., Fiers W., Fobo G.M., Fritz C., Gassenhuber J., Glansdorff N., Goffeau A., Grivell L.A., de Haan M., Hein C., Herbert C.J., Hollenberg C.P., Holmstroem K., Jacq C., Jacquet M., Jauniaux J.-C., Jonniaux J.-L., Kallesoee T., Kiesau P., Kirchrath L., Koetter P., Korol S., Liebl S., Logghe M., Lohan A.J.E., Louis E.J., Li Z.Y., Maat M.J., Mallet L., Mannhaupt G., Messenguy F., Miosga T., Molemans F., Mueller S., Nasr F., Obermaier B., Perea J., Pierard A., Piravandi E., Pohl F.M., Pohl T.M., Potier S., Proft M., Purnelle B., Ramezani Rad M., Rieger M., Rose M., Schaaff-Gerstenschlaeger I., Scherens B., Schwarzlose C., Skala J., Slonimski P.P., Smits P.H.M., Souciet J.-L., Steensma H.Y., Stucka R., Urrestarazu L.A., van der Aart Q.J.M., Van Dyck L., Vassarotti A., Vetter I., Vierendeels F., Vissers S., Wagner G., de Wergifosse P., Wolfe K.H., Zagulski M., Zimmermann F.K., Mewes H.-W., Kleine K.
      EMBO J. 13:5795-5809(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    4. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    5. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    6. "Phosphorylation by casein kinase 2 regulates Nap1 localization and function."
      Calvert M.E.K., Keck K.M., Ptak C., Shabanowitz J., Hunt D.F., Pemberton L.F.
      Mol. Cell. Biol. 28:1313-1325(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH NAP1, IDENTIFICATION BY MASS SPECTROMETRY.

    Entry informationi

    Entry nameiGLYM_YEAST
    AccessioniPrimary (citable) accession number: P37292
    Secondary accession number(s): D6VQR0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 1, 1994
    Last sequence update: December 6, 2005
    Last modified: October 1, 2014
    This is version 127 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    In eukaryotes there are two forms of the enzymes: a cytosolic one and a mitochondrial one.
    Present with 17700 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

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

    External Data

    Dasty 3