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P61960

- UFM1_HUMAN

UniProt

P61960 - UFM1_HUMAN

Protein

Ubiquitin-fold modifier 1

Gene

UFM1

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
  1. Functioni

    Ubiquitin-like modifier protein which binds to a number of target proteins, such as DDRGK1.2 Publications

    GO - Biological processi

    1. protein ufmylation Source: UniProtKB
    2. response to endoplasmic reticulum stress Source: MGI

    Keywords - Biological processi

    Ubl conjugation pathway

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ubiquitin-fold modifier 1
    Gene namesi
    Name:UFM1
    Synonyms:C13orf20
    ORF Names:BM-002
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 13

    Organism-specific databases

    HGNCiHGNC:20597. UFM1.

    Subcellular locationi

    Nucleus 1 Publication. Cytoplasm 1 Publication
    Note: Predominantly nuclear. Also expressed diffusely in the cytoplasm.

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB
    2. extracellular vesicular exosome Source: UniProt
    3. nucleus Source: UniProtKB

    Keywords - Cellular componenti

    Cytoplasm, Nucleus

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi83 – 831G → A: Confers resistance to cleavage. 1 Publication

    Organism-specific databases

    PharmGKBiPA134863405.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 8383Ubiquitin-fold modifier 1PRO_0000042122Add
    BLAST
    Propeptidei84 – 852Removed in mature formPRO_0000042123

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Cross-linki83 – 83Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins)Sequence Analysis

    Keywords - PTMi

    Isopeptide bond

    Proteomic databases

    MaxQBiP61960.
    PaxDbiP61960.
    PRIDEiP61960.

    PTM databases

    PhosphoSiteiP61960.

    Expressioni

    Gene expression databases

    BgeeiP61960.
    CleanExiHS_UFM1.
    GenevestigatoriP61960.

    Organism-specific databases

    HPAiHPA039758.

    Interactioni

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    CDK5RAP3Q96JB51EBI-1045061,EBI-718818

    Protein-protein interaction databases

    BioGridi119616. 48 interactions.
    IntActiP61960. 6 interactions.
    MINTiMINT-7005139.
    STRINGi9606.ENSP00000239878.

    Structurei

    Secondary structure

    1
    85
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi4 – 118
    Beta strandi14 – 163
    Beta strandi20 – 234
    Beta strandi25 – 284
    Helixi29 – 3911
    Beta strandi44 – 5310
    Helixi63 – 697
    Beta strandi72 – 798

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1WXSNMR-A1-85[»]
    ProteinModelPortaliP61960.
    SMRiP61960. Positions 1-85.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP61960.

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the UFM1 family.Curated

    Phylogenomic databases

    eggNOGiNOG249065.
    HOGENOMiHOG000238677.
    HOVERGENiHBG094129.
    KOiK12162.
    OrthoDBiEOG7Q8CQW.
    PhylomeDBiP61960.
    TreeFamiTF312934.

    Family and domain databases

    InterProiIPR029071. Ubiquitin-rel_dom.
    IPR005375. UFM1.
    [Graphical view]
    PfamiPF03671. Ufm1. 1 hit.
    [Graphical view]
    PIRSFiPIRSF038027. Ubiquitin-like_Ufm1. 1 hit.
    SUPFAMiSSF54236. SSF54236. 1 hit.

    Sequences (2)i

    Sequence statusi: Complete.

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

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: P61960-1) [UniParc]FASTAAdd to Basket

    This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

    « Hide

    MSKVSFKITL TSDPRLPYKV LSVPESTPFT AVLKFAAEEF KVPAATSAII   50
    TNDGIGINPA QTAGNVFLKH GSELRIIPRD RVGSC 85
    Length:85
    Mass (Da):9,118
    Last modified:June 7, 2004 - v1
    Checksum:iEDB2412E5E5836D8
    GO
    Isoform 2 (identifier: P61960-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         1-20: MSKVSFKITLTSDPRLPYKV → MIRAFPTTTPRSLHLFTSSTFLARALPGAFPTGACEER

    Show »
    Length:103
    Mass (Da):10,960
    Checksum:iBA4D1DE2215D5ACC
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti12 – 121S → W in CAA94181. 1 PublicationCurated
    Sequence conflicti78 – 803PRD → LEI in CAA94181. 1 PublicationCurated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei1 – 2020MSKVS…LPYKV → MIRAFPTTTPRSLHLFTSST FLARALPGAFPTGACEER in isoform 2. 1 PublicationVSP_041186Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB154404 mRNA. Translation: BAD15373.1.
    AF208844 mRNA. Translation: AAF64258.1.
    CR457189 mRNA. Translation: CAG33470.1.
    DA664581 mRNA. No translation available.
    AL356863 Genomic DNA. Translation: CAH70411.1.
    AL356863 Genomic DNA. Translation: CAH70414.1.
    BC005193 mRNA. Translation: AAH05193.1.
    Z70222 mRNA. Translation: CAA94181.1.
    CCDSiCCDS66533.1. [P61960-2]
    CCDS9366.1. [P61960-1]
    RefSeqiNP_001273632.1. NM_001286703.1.
    NP_001273633.1. NM_001286704.1. [P61960-2]
    NP_001273634.1. NM_001286705.1.
    NP_001273635.1. NM_001286706.1.
    NP_057701.1. NM_016617.3. [P61960-1]
    UniGeneiHs.643655.

    Genome annotation databases

    EnsembliENST00000239878; ENSP00000239878; ENSG00000120686. [P61960-1]
    ENST00000379649; ENSP00000368970; ENSG00000120686. [P61960-2]
    GeneIDi51569.
    KEGGihsa:51569.
    UCSCiuc001uwu.3. human. [P61960-1]

    Polymorphism databases

    DMDMi48428799.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB154404 mRNA. Translation: BAD15373.1 .
    AF208844 mRNA. Translation: AAF64258.1 .
    CR457189 mRNA. Translation: CAG33470.1 .
    DA664581 mRNA. No translation available.
    AL356863 Genomic DNA. Translation: CAH70411.1 .
    AL356863 Genomic DNA. Translation: CAH70414.1 .
    BC005193 mRNA. Translation: AAH05193.1 .
    Z70222 mRNA. Translation: CAA94181.1 .
    CCDSi CCDS66533.1. [P61960-2 ]
    CCDS9366.1. [P61960-1 ]
    RefSeqi NP_001273632.1. NM_001286703.1.
    NP_001273633.1. NM_001286704.1. [P61960-2 ]
    NP_001273634.1. NM_001286705.1.
    NP_001273635.1. NM_001286706.1.
    NP_057701.1. NM_016617.3. [P61960-1 ]
    UniGenei Hs.643655.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1WXS NMR - A 1-85 [» ]
    ProteinModelPortali P61960.
    SMRi P61960. Positions 1-85.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 119616. 48 interactions.
    IntActi P61960. 6 interactions.
    MINTi MINT-7005139.
    STRINGi 9606.ENSP00000239878.

    PTM databases

    PhosphoSitei P61960.

    Polymorphism databases

    DMDMi 48428799.

    Proteomic databases

    MaxQBi P61960.
    PaxDbi P61960.
    PRIDEi P61960.

    Protocols and materials databases

    DNASUi 51569.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000239878 ; ENSP00000239878 ; ENSG00000120686 . [P61960-1 ]
    ENST00000379649 ; ENSP00000368970 ; ENSG00000120686 . [P61960-2 ]
    GeneIDi 51569.
    KEGGi hsa:51569.
    UCSCi uc001uwu.3. human. [P61960-1 ]

    Organism-specific databases

    CTDi 51569.
    GeneCardsi GC13P038923.
    HGNCi HGNC:20597. UFM1.
    HPAi HPA039758.
    MIMi 610553. gene.
    neXtProti NX_P61960.
    PharmGKBi PA134863405.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG249065.
    HOGENOMi HOG000238677.
    HOVERGENi HBG094129.
    KOi K12162.
    OrthoDBi EOG7Q8CQW.
    PhylomeDBi P61960.
    TreeFami TF312934.

    Miscellaneous databases

    ChiTaRSi UFM1. human.
    EvolutionaryTracei P61960.
    GeneWikii UFM1.
    GenomeRNAii 51569.
    NextBioi 55392.
    PROi P61960.
    SOURCEi Search...

    Gene expression databases

    Bgeei P61960.
    CleanExi HS_UFM1.
    Genevestigatori P61960.

    Family and domain databases

    InterProi IPR029071. Ubiquitin-rel_dom.
    IPR005375. UFM1.
    [Graphical view ]
    Pfami PF03671. Ufm1. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF038027. Ubiquitin-like_Ufm1. 1 hit.
    SUPFAMi SSF54236. SSF54236. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "A novel protein-conjugating system for Ufm1, a ubiquitin-fold modifier."
      Komatsu M., Chiba T., Tatsumi K., Iemura S., Tanida I., Okazaki N., Ueno T., Kominami E., Natsume T., Tanaka K.
      EMBO J. 23:1977-1986(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, SUBCELLULAR LOCATION, MUTAGENESIS OF GLY-83.
    2. "Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells."
      Zhang Q.-H., Ye M., Wu X.-Y., Ren S.-X., Zhao M., Zhao C.-J., Fu G., Shen Y., Fan H.-Y., Lu G., Zhong M., Xu X.-R., Han Z.-G., Zhang J.-W., Tao J., Huang Q.-H., Zhou J., Hu G.-X.
      , Gu J., Chen S.-J., Chen Z.
      Genome Res. 10:1546-1560(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
      Tissue: Bone marrow.
    3. "Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)."
      Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B.
      Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
      Tissue: Neuroblastoma.
    5. "The DNA sequence and analysis of human chromosome 13."
      Dunham A., Matthews L.H., Burton J., Ashurst J.L., Howe K.L., Ashcroft K.J., Beare D.M., Burford D.C., Hunt S.E., Griffiths-Jones S., Jones M.C., Keenan S.J., Oliver K., Scott C.E., Ainscough R., Almeida J.P., Ambrose K.D., Andrews D.T.
      , Ashwell R.I.S., Babbage A.K., Bagguley C.L., Bailey J., Bannerjee R., Barlow K.F., Bates K., Beasley H., Bird C.P., Bray-Allen S., Brown A.J., Brown J.Y., Burrill W., Carder C., Carter N.P., Chapman J.C., Clamp M.E., Clark S.Y., Clarke G., Clee C.M., Clegg S.C., Cobley V., Collins J.E., Corby N., Coville G.J., Deloukas P., Dhami P., Dunham I., Dunn M., Earthrowl M.E., Ellington A.G., Faulkner L., Frankish A.G., Frankland J., French L., Garner P., Garnett J., Gilbert J.G.R., Gilson C.J., Ghori J., Grafham D.V., Gribble S.M., Griffiths C., Hall R.E., Hammond S., Harley J.L., Hart E.A., Heath P.D., Howden P.J., Huckle E.J., Hunt P.J., Hunt A.R., Johnson C., Johnson D., Kay M., Kimberley A.M., King A., Laird G.K., Langford C.J., Lawlor S., Leongamornlert D.A., Lloyd D.M., Lloyd C., Loveland J.E., Lovell J., Martin S., Mashreghi-Mohammadi M., McLaren S.J., McMurray A., Milne S., Moore M.J.F., Nickerson T., Palmer S.A., Pearce A.V., Peck A.I., Pelan S., Phillimore B., Porter K.M., Rice C.M., Searle S., Sehra H.K., Shownkeen R., Skuce C.D., Smith M., Steward C.A., Sycamore N., Tester J., Thomas D.W., Tracey A., Tromans A., Tubby B., Wall M., Wallis J.M., West A.P., Whitehead S.L., Willey D.L., Wilming L., Wray P.W., Wright M.W., Young L., Coulson A., Durbin R.M., Hubbard T., Sulston J.E., Beck S., Bentley D.R., Rogers J., Ross M.T.
      Nature 428:522-528(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    6. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
      Tissue: Kidney.
    7. "Characterization of different mRNA types expressed in human brain."
      Dmitrenko V.V., Garifulin O.M., Kavsan V.M.
      Submitted (MAR-1996) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 1-80 (ISOFORM 1).
      Tissue: Brain.
    8. Cited for: FUNCTION.
    9. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    10. Cited for: STRUCTURE BY NMR.

    Entry informationi

    Entry nameiUFM1_HUMAN
    AccessioniPrimary (citable) accession number: P61960
    Secondary accession number(s): Q14346
    , Q5VXS0, Q6IAG6, Q9CPX2, Q9NZF2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: June 7, 2004
    Last sequence update: June 7, 2004
    Last modified: October 1, 2014
    This is version 106 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Human chromosome 13
      Human chromosome 13: entries, gene names and cross-references to MIM
    2. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    3. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    4. SIMILARITY comments
      Index of protein domains and families
    5. Uncharacterized protein families (UPF)
      List of uncharacterized protein family (UPF) entries

    External Data

    Dasty 3