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P61960 (UFM1_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified March 19, 2014. Version 101. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (5) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Ubiquitin-fold modifier 1
Gene names
Name:UFM1
Synonyms:C13orf20
ORF Names:BM-002
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length85 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Ubiquitin-like modifier protein which binds to a number of target proteins, such as DDRGK1. Ref.1 Ref.8

Subcellular location

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

Sequence similarities

Belongs to the UFM1 family.

Ontologies

Keywords
   Biological processUbl conjugation pathway
   Cellular componentCytoplasm
Nucleus
   Coding sequence diversityAlternative splicing
   PTMIsopeptide bond
   Technical term3D-structure
Complete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processprotein ufmylation

Inferred from direct assay Ref.1. Source: UniProtKB

response to endoplasmic reticulum stress

Inferred from direct assay PubMed 23152784. Source: MGI

   Cellular_componentcytoplasm

Inferred from direct assay Ref.1. Source: UniProtKB

nucleus

Inferred from direct assay Ref.1. Source: UniProtKB

Complete GO annotation...

Binary interactions

With

Entry

#Exp.

IntAct

Notes

CDK5RAP3Q96JB51EBI-1045061,EBI-718818

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: P61960-1)

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.
Isoform 2 (identifier: P61960-2)

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

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 8383Ubiquitin-fold modifier 1
PRO_0000042122
Propeptide84 – 852Removed in mature form
PRO_0000042123

Amino acid modifications

Cross-link83Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins) Potential

Natural variations

Alternative sequence1 – 2020MSKVS…LPYKV → MIRAFPTTTPRSLHLFTSST FLARALPGAFPTGACEER in isoform 2.
VSP_041186

Experimental info

Mutagenesis831G → A: Confers resistance to cleavage. Ref.1
Sequence conflict121S → W in CAA94181. Ref.7
Sequence conflict78 – 803PRD → LEI in CAA94181. Ref.7

Secondary structure

................ 85
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified June 7, 2004. Version 1.
Checksum: EDB2412E5E5836D8

FASTA859,118
        10         20         30         40         50         60 
MSKVSFKITL TSDPRLPYKV LSVPESTPFT AVLKFAAEEF KVPAATSAII TNDGIGINPA 

        70         80 
QTAGNVFLKH GSELRIIPRD RVGSC 

« Hide

Isoform 2 [UniParc].

Checksum: BA4D1DE2215D5ACC
Show »

FASTA10310,960

References

« Hide 'large scale' references
[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. expand/collapse author list , 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]"Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes."
Kimura K., Wakamatsu A., Suzuki Y., Ota T., Nishikawa T., Yamashita R., Yamamoto J., Sekine M., Tsuritani K., Wakaguri H., Ishii S., Sugiyama T., Saito K., Isono Y., Irie R., Kushida N., Yoneyama T., Otsuka R. expand/collapse author list , Kanda K., Yokoi T., Kondo H., Wagatsuma M., Murakawa K., Ishida S., Ishibashi T., Takahashi-Fujii A., Tanase T., Nagai K., Kikuchi H., Nakai K., Isogai T., Sugano S.
Genome Res. 16:55-65(2006) [PubMed] [Europe PMC] [Abstract]
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. expand/collapse author list , 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]"A novel type of E3 ligase for the Ufm1 conjugation system."
Tatsumi K., Sou Y.S., Tada N., Nakamura E., Iemura S., Natsume T., Kang S.H., Chung C.H., Kasahara M., Kominami E., Yamamoto M., Tanaka K., Komatsu M.
J. Biol. Chem. 285:5417-5427(2010) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION.
[9]"Initial characterization of the human central proteome."
Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J.
BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[10]"Solution structure and dynamics of Ufm1, a ubiquitin-fold modifier 1."
Sasakawa H., Sakata E., Yamaguchi Y., Komatsu M., Tatsumi K., Kominami E., Tanaka K., Kato K.
Biochem. Biophys. Res. Commun. 343:21-26(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: STRUCTURE BY NMR.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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.
RefSeqNP_001273632.1. NM_001286703.1.
NP_001273633.1. NM_001286704.1.
NP_001273634.1. NM_001286705.1.
NP_001273635.1. NM_001286706.1.
NP_057701.1. NM_016617.3.
UniGeneHs.643655.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1WXSNMR-A1-85[»]
ProteinModelPortalP61960.
SMRP61960. Positions 1-85.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid119616. 48 interactions.
IntActP61960. 6 interactions.
MINTMINT-7005139.
STRING9606.ENSP00000239878.

PTM databases

PhosphoSiteP61960.

Polymorphism databases

DMDM48428799.

Proteomic databases

PaxDbP61960.
PRIDEP61960.

Protocols and materials databases

DNASU51569.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000239878; ENSP00000239878; ENSG00000120686. [P61960-1]
ENST00000379641; ENSP00000368962; ENSG00000120686. [P61960-2]
ENST00000379649; ENSP00000368970; ENSG00000120686. [P61960-2]
GeneID51569.
KEGGhsa:51569.
UCSCuc001uwu.3. human. [P61960-1]

Organism-specific databases

CTD51569.
GeneCardsGC13P038923.
HGNCHGNC:20597. UFM1.
HPAHPA039758.
MIM610553. gene.
neXtProtNX_P61960.
PharmGKBPA134863405.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG249065.
HOGENOMHOG000238677.
HOVERGENHBG094129.
KOK12162.
OMAVTFKIIL.
OrthoDBEOG7Q8CQW.
PhylomeDBP61960.
TreeFamTF312934.

Gene expression databases

BgeeP61960.
CleanExHS_UFM1.
GenevestigatorP61960.

Family and domain databases

InterProIPR005375. UFM1.
[Graphical view]
PfamPF03671. Ufm1. 1 hit.
[Graphical view]
PIRSFPIRSF038027. Ubiquitin-like_Ufm1. 1 hit.
ProtoNetSearch...

Other

ChiTaRSUFM1. human.
EvolutionaryTraceP61960.
GeneWikiUFM1.
GenomeRNAi51569.
NextBio55392.
PROP61960.
SOURCESearch...

Entry information

Entry nameUFM1_HUMAN
AccessionPrimary (citable) accession number: P61960
Secondary accession number(s): Q14346 expand/collapse secondary AC list , Q5VXS0, Q6IAG6, Q9CPX2, Q9NZF2
Entry history
Integrated into UniProtKB/Swiss-Prot: June 7, 2004
Last sequence update: June 7, 2004
Last modified: March 19, 2014
This is version 101 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

Uncharacterized protein families (UPF)

List of uncharacterized protein family (UPF) entries

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human chromosome 13

Human chromosome 13: entries, gene names and cross-references to MIM