CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-000245
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Ubiquitin domain-containing protein UBFD1 
Protein Synonyms/Alias
 Ubiquitin-binding protein homolog 
Gene Name
 UBFD1 
Gene Synonyms/Alias
 UBPH 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
94DLKIIWNKTKHDVKFubiquitination[1, 2, 3, 4]
96KIIWNKTKHDVKFPLubiquitination[2, 3]
100NKTKHDVKFPLDSTGubiquitination[1, 3, 4, 5, 6]
111DSTGSELKQKIHSITubiquitination[1, 2, 3, 4, 5]
113TGSELKQKIHSITGLubiquitination[1, 4]
126GLPPAMQKVMYKGLVubiquitination[1, 2, 3, 4, 6, 7]
130AMQKVMYKGLVPEDKubiquitination[2, 3]
137KGLVPEDKTLREIKVubiquitination[2]
149IKVTSGAKIMVVGSTubiquitination[1, 2, 3, 4, 5]
167VLAVNTPKDAAQQDAubiquitination[2, 3, 5]
207EDVMPSVKGAQERLPubiquitination[2, 3]
224PLSGMYNKSGGKVRLubiquitination[2, 5]
245DQLWIGTKERTEKLPubiquitination[1, 2, 3, 4, 5, 7]
305IKDTVLGKWQYF***ubiquitination[1, 2, 3, 4, 5, 6, 7, 8]
Reference
 [1] A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles.
 Wagner SA, Beli P, Weinert BT, Nielsen ML, Cox J, Mann M, Choudhary C.
 Mol Cell Proteomics. 2011 Oct;10(10):M111.013284. [PMID: 21890473]
 [2] Refined preparation and use of anti-diglycine remnant (K-ε-GG) antibody enables routine quantification of 10,000s of ubiquitination sites in single proteomics experiments.
 Udeshi ND, Svinkina T, Mertins P, Kuhn E, Mani DR, Qiao JW, Carr SA.
 Mol Cell Proteomics. 2013 Mar;12(3):825-31. [PMID: 23266961]
 [3] Landscape of the PARKIN-dependent ubiquitylome in response to mitochondrial depolarization.
 Sarraf SA, Raman M, Guarani-Pereira V, Sowa ME, Huttlin EL, Gygi SP, Harper JW.
 Nature. 2013 Apr 18;496(7445):372-6. [PMID: 23503661]
 [4] hCKSAAP_UbSite: improved prediction of human ubiquitination sites by exploiting amino acid pattern and properties.
 Chen Z, Zhou Y, Song J, Zhang Z.
 Biochim Biophys Acta. 2013 Aug;1834(8):1461-7. [PMID: 23603789]
 [5] Systematic and quantitative assessment of the ubiquitin-modified proteome.
 Kim W, Bennett EJ, Huttlin EL, Guo A, Li J, Possemato A, Sowa ME, Rad R, Rush J, Comb MJ, Harper JW, Gygi SP.
 Mol Cell. 2011 Oct 21;44(2):325-40. [PMID: 21906983]
 [6] Ubiquitin ligase substrate identification through quantitative proteomics at both the protein and peptide levels.
 Lee KA, Hammerle LP, Andrews PS, Stokes MP, Mustelin T, Silva JC, Black RA, Doedens JR.
 J Biol Chem. 2011 Dec 2;286(48):41530-8. [PMID: 21987572]
 [7] Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass.
 Povlsen LK, Beli P, Wagner SA, Poulsen SL, Sylvestersen KB, Poulsen JW, Nielsen ML, Bekker-Jensen S, Mailand N, Choudhary C.
 Nat Cell Biol. 2012 Oct;14(10):1089-98. [PMID: 23000965]
 [8] Global analysis of lysine ubiquitination by ubiquitin remnant immunoaffinity profiling.
 Xu G, Paige JS, Jaffrey SR.
 Nat Biotechnol. 2010 Aug;28(8):868-73. [PMID: 20639865
Functional Description
 May play a role as NF-kappa-B regulator. 
Sequence Annotation
 DOMAIN 84 159 Ubiquitin-like.  
Keyword
 Complete proteome; Reference proteome. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 309 AA 
Protein Sequence
MAAAGAPDGM EEPGMDTEAE TVATEAPARP VNCLEAEAAA GAAAEDSGAA RGSLQPAPAQ 60
PPGDPAAQAS VSNGEDAGGG AGRELVDLKI IWNKTKHDVK FPLDSTGSEL KQKIHSITGL 120
PPAMQKVMYK GLVPEDKTLR EIKVTSGAKI MVVGSTINDV LAVNTPKDAA QQDAKAEENK 180
KEPLCRQKQH RKVLDKGKPE DVMPSVKGAQ ERLPTVPLSG MYNKSGGKVR LTFKLEQDQL 240
WIGTKERTEK LPMGSIKNVV SEPIEGHEDY HMMAFQLGPT EASYYWVYWV PTQYVDAIKD 300
TVLGKWQYF 309 
Gene Ontology
  
Interpro
 IPR000626; Ubiquitin.
 IPR019954; Ubiquitin_CS.
 IPR019955; Ubiquitin_supergroup. 
Pfam
 PF00240; ubiquitin 
SMART
 SM00213; UBQ 
PROSITE
 PS00299; UBIQUITIN_1
 PS50053; UBIQUITIN_2 
PRINTS