SCUD (Saccharomyces Cerevisiae Ubiquitination Database)


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Substrate Information

General Information
Standard nameDDI1
Systematic nameYER143W
AliasVSM1
DescriptionDNA damage-inducible protein 1

Ubiquitination Features
NumberSiteTypeE2E3 ClassE3 SubclassSubstrate ReceptorUbiquitin ReceptorDUBEffect
1K171;K257        
2K171;K257        
3         
4        Proteasomal Degradation
5         
* Blank: not determined, NA: not applicable.

References
[1]EvidencePurification & Protein ID
Methodpurification (ubiquitin-chain by UBA domain-containing protein, 6xHis-ubiquitin (two-step)), LC/MS
Reference"A proteomics approach to understanding protein ubiquitination."
Peng J, Schwartz D, Elias JE, Thoreen CC, Cheng D, Marsischky G, Roelofs J, Finley D, Gygi SP.
Nat Biotechnol. 21(8):921-6 (2003) [12872131]
[2]EvidencePurification & Protein ID
Methodpurification (6xHis-Myc-ubiquitin), LC/MS
Reference"A subset of membrane-associated proteins is ubiquitinated in response to mutations in the endoplasmic reticulum degradation machinery."
Hitchcock AL, Auld K, Gygi SP, Silver PA.
Proc Natl Acad Sci U S A. 100(22):12735-40 (2003) [14557538]
[3]EvidencePurification & Protein ID
Methodpurification (HB-ubiquitin (a tandem affinity tag under denaturing conditions)), LC/MS
Reference"A tandem affinity tag for two-step purification under fully denaturing conditions: application in ubiquitin profiling and protein complex identification combined with in vivocross-linking."
Tagwerker C, Flick K, Cui M, Guerrero C, Dou Y, Auer B, Baldi P, Huang L, Kaiser P.
Mol Cell Proteomics. 5(4):737-48 (2006) [16432255]
[4]EvidencePurification & Protein ID
Methodpurification (ubiquitin-chain by UBA domain-containing protein, 6xHis-ubiquitin (two-step)), LC/MS, validation (statistical quantitative analysis)
Reference"Quantitative profiling of ubiquitylated proteins reveals proteasome substrates and the substrate repertoire influenced by the Rpn10 receptor pathway."
Mayor T, Graumann J, Bryan J, MacCoss MJ, Deshaies RJ.
Mol Cell Proteomics. 6(11):1885-95 (2007) [17644757]
[5]EvidencePurification & Protein ID
Methodpurification (6xHis-Myc-ubiquitin), LC/MS, validation (virtual Western blot)
Reference"Systematic approach for validating the ubiquitinated proteome."
Seyfried NT, Xu P, Duong DM, Cheng D, Hanfelt J, Peng J.
Anal Chem. 80(11):4161-9 (2008) [18433149]

Cross References
Swiss-Prot accessionP40087
SGD YER143W
Gene Ontology (GO)
Cellular componentGO:0005886plasma membraneIDA:SGD.
Molecular functionGO:0000149SNARE bindingIDA:SGD.
Biological processGO:0006511ubiquitin-dependent protein catabolic processIMP:SGD.
Biological processGO:0016192vesicle-mediated transportIGI:SGD.
EC number  

Additional Features
Other Post Translational Modifications (PTM)
Residue indexType
346Phosphothreonine.

Sequence Information
Sequence length428
Molecular weight47354

	---------+----------+----------+----------+----------+
MDLTISNELT GEIYGPIEVS EDMALTDLIA LLQADCGFDK TKHDLYYNMD   50
ILDSNRTQSL KELGLKTDDL LLIRGKISNS IQTDAATLSD EAFIEQFRQE   100
LLNNQMLRSQ LILQIPGLND LVNDPLLFRE RLGPLILQRR YGGYNTAMNP   150
FGIPQDEYTR LMANPDDPDN KKRIAELLDQ QAIDEQLRNA IEYTPEMFTQ   200
VPMLYINIEI NNYPVKAFVD TGAQTTIMST RLAKKTGLSR MIDKRFIGEA   250
RGVGTGKIIG RIHQAQVKIE TQYIPCSFTV LDTDIDVLIG LDMLKRHLAC   300
VDLKENVLRI AEVETSFLSE AEIPKSFQEG LPAPTSVTTS SDKPLTPTKT   350
SSTLPPQPGA VPALAPRTGM GPTPTGRSTA GATTATGRTF PEQTIKQLMD   400
LGFPRDAVVK ALKQTNGNAE FAASLLFQ                           428

	* Ubiquitinated lysine is denoted as red color.