UniProt Accession

 B0YJC4_HUMAN; B0YJC4 

Genbank Protein ID

 AL133415; EF445046 

Genbank Nucleotide ID

 ACA06103.1 

Protein Name

 Vimentin 

Protein Synonyms/Alias

 Vimentin variant 3 

Gene Name

 VIM 

Gene Synonyms/Alias

  

Created Date

 July 27, 2013 

Organism

 Homo sapiens (Human) 

NCBI Taxa ID

 9606 

Lysine Modification

Position	Peptide	Type	References
97	DAINTEFKNTRTNEK	ubiquitination	[1, 2, 3, 4, 5, 6]
104	KNTRTNEKVELQELN	acetylation	[7, 8]
104	KNTRTNEKVELQELN	ubiquitination	[1, 2, 3, 4, 5, 6, 9]
120	RFANYIDKVRFLEQQ	acetylation	[6, 8]
120	RFANYIDKVRFLEQQ	ubiquitination	[1, 2, 3, 4, 5, 6, 9, 10]
129	RFLEQQNKILLAELE	ubiquitination	[1, 2, 3, 4, 5, 6, 9]
139	LAELEQLKGQGKSRL	acetylation	[6, 8]
139	LAELEQLKGQGKSRL	ubiquitination	[1, 2, 3, 4, 5, 6, 9]
143	EQLKGQGKSRLGDLY	ubiquitination	[1, 2, 6, 9]
168	VDQLTNDKARVEVER	acetylation	[6, 8]
168	VDQLTNDKARVEVER	ubiquitination	[1, 2, 4, 9]
188	DIMRLREKLQEEMLQ	ubiquitination	[1, 2, 3, 4, 5, 6, 9]
223	ARLDLERKVESLQEE	acetylation	[7]
223	ARLDLERKVESLQEE	ubiquitination	[6, 9]
235	QEEIAFLKKLHEEEI	acetylation	[6, 8]
235	QEEIAFLKKLHEEEI	ubiquitination	[1, 2, 3, 5, 9]
236	EEIAFLKKLHEEEIQ	ubiquitination	[3, 6, 9]
262	QIDVDVSKPDLTAAL	ubiquitination	[3]
282	QYESVAAKNLQEAEE	ubiquitination	[1, 2, 3, 4, 5, 6, 9]
292	QEAEEWYKSKFADLS	acetylation	[8]
292	QEAEEWYKSKFADLS	ubiquitination	[1, 4, 5, 6, 9]
294	AEEWYKSKFADLSEA	acetylation	[8]
294	AEEWYKSKFADLSEA	ubiquitination	[1, 2, 4, 5, 6, 9]
313	NDALRQAKQESTEYR	acetylation	[8]
313	NDALRQAKQESTEYR	ubiquitination	[1, 2, 6, 9]
334	TCEVDALKGTNESLE	acetylation	[6]
334	TCEVDALKGTNESLE	ubiquitination	[2, 3, 4, 5, 6, 9, 11]
373	QDEIQNMKEEMARHL	acetylation	[8]
373	QDEIQNMKEEMARHL	ubiquitination	[1, 2, 3, 4, 5, 6, 9]
402	IEIATYRKLLEGEES	acetylation	[6, 8]
402	IEIATYRKLLEGEES	ubiquitination	[2, 3, 4, 5, 6, 9, 11, 12]

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] 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]
 [3] Global identification of modular cullin-RING ligase substrates.
 Emanuele MJ, Elia AE, Xu Q, Thoma CR, Izhar L, Leng Y, Guo A, Chen YN, Rush J, Hsu PW, Yen HC, Elledge SJ.
 Cell. 2011 Oct 14;147(2):459-74. [PMID: 21963094]
 [4] Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition.
 Udeshi ND, Mani DR, Eisenhaure T, Mertins P, Jaffe JD, Clauser KR, Hacohen N, Carr SA.
 Mol Cell Proteomics. 2012 May;11(5):148-59. [PMID: 22505724]
 [5] 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]
 [6] Integrated proteomic analysis of post-translational modifications by serial enrichment.
 Mertins P, Qiao JW, Patel J, Udeshi ND, Clauser KR, Mani DR, Burgess MW, Gillette MA, Jaffe JD, Carr SA.
 Nat Methods. 2013 Jul;10(7):634-7. [PMID: 23749302]
 [7] Monoclonal antibody cocktail as an enrichment tool for acetylome analysis.
 Shaw PG, Chaerkady R, Zhang Z, Davidson NE, Pandey A.
 Anal Chem. 2011 May 15;83(10):3623-6. [PMID: 21466224]
 [8] Proteomic investigations reveal a role for RNA processing factor THRAP3 in the DNA damage response.
 Beli P, Lukashchuk N, Wagner SA, Weinert BT, Olsen JV, Baskcomb L, Mann M, Jackson SP, Choudhary C.
 Mol Cell. 2012 Apr 27;46(2):212-25. [PMID: 22424773]
 [9] 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]
 [10] A data set of human endogenous protein ubiquitination sites.
 Shi Y, Chan DW, Jung SY, Malovannaya A, Wang Y, Qin J.
 Mol Cell Proteomics. 2011 May;10(5):M110.002089. [PMID: 20972266]
 [11] Proteome-wide identification of ubiquitylation sites by conjugation of engineered lysine-less ubiquitin.
 Oshikawa K, Matsumoto M, Oyamada K, Nakayama KI.
 J Proteome Res. 2012 Feb 3;11(2):796-807. [PMID: 22053931]
 [12] Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level.
 Danielsen JM, Sylvestersen KB, Bekker-Jensen S, Szklarczyk D, Poulsen JW, Horn H, Jensen LJ, Mailand N, Nielsen ML.
 Mol Cell Proteomics. 2011 Mar;10(3):M110.003590. [PMID: 21139048] 

Functional Description

  

Sequence Annotation

  

Keyword

 Coiled coil; Complete proteome; Intermediate filament; Reference proteome. 

Sequence Source

 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 

Protein Length

 431 AA 

Protein Sequence

Gene Ontology

 GO:0005882; C:intermediate filament; IEA:UniProtKB-KW.
 GO:0045111; C:intermediate filament cytoskeleton; IDA:HPA.
 GO:0005198; F:structural molecule activity; IEA:InterPro. 

Interpro

 IPR016044; F.
 IPR001664; IF.
 IPR006821; Intermed_filament_DNA-bd.
 IPR018039; Intermediate_filament_CS. 

Pfam

 PF00038; Filament
 PF04732; Filament_head 

SMART

  

PROSITE

 PS00226; IF 

PRINTS