CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-021563
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Ribosome production factor 1 
Protein Synonyms/Alias
 Brix domain-containing protein 5; Ribosome biogenesis protein RPF1 
Gene Name
 RPF1 
Gene Synonyms/Alias
 BXDC5 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
3*****MAKAGDKSSSubiquitination[1]
7*MAKAGDKSSSSGKKubiquitination[1]
87AAKKKLKKEREALGDubiquitination[1]
95EREALGDKAPPKPVPubiquitination[1]
138EFASYFNKQTSPKILubiquitination[1, 2, 3]
182RRGLALKKIIPQCIAubiquitination[4, 5]
237KEIKRRGKDPTEHIPubiquitination[5, 6]
302YIFRSEKKVGIQELGubiquitination[5, 7]
321LKLRSLQKGTFDSKYubiquitination[5]
327QKGTFDSKYGEYEWVubiquitination[5]
336GEYEWVHKPREMDTSubiquitination[2, 5, 7]
Reference
 [1] 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]
 [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] 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]
 [5] 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]
 [6] 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]
 [7] 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
Functional Description
 May be required for ribosome biogenesis. 
Sequence Annotation
 DOMAIN 142 325 Brix.
 REGION 303 320 RNA-binding (By similarity).  
Keyword
 Complete proteome; Nucleus; Polymorphism; Reference proteome; Ribosome biogenesis; RNA-binding; rRNA processing; rRNA-binding. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 349 AA 
Protein Sequence
MAKAGDKSSS SGKKSLKRKA AAEELQEAAG AGDGATENGV QPPKAAAFPP GFSISEIKNK 60
QRRHLMFTRW KQQQRKEKLA AKKKLKKERE ALGDKAPPKP VPKTIDNQRV YDETTVDPND 120
EEVAYDEATD EFASYFNKQT SPKILITTSD RPHGRTVRLC EQLSTVIPNS HVYYRRGLAL 180
KKIIPQCIAR DFTDLIVINE DRKTPNGLIL SHLPNGPTAH FKMSSVRLRK EIKRRGKDPT 240
EHIPEIILNN FTTRLGHSIG RMFASLFPHN PQFIGRQVAT FHNQRDYIFF RFHRYIFRSE 300
KKVGIQELGP RFTLKLRSLQ KGTFDSKYGE YEWVHKPREM DTSRRKFHL 349 
Gene Ontology
 GO:0005730; C:nucleolus; IDA:UniProtKB.
 GO:0003723; F:RNA binding; IDA:UniProtKB.
 GO:0019843; F:rRNA binding; IEA:UniProtKB-KW.
 GO:0006364; P:rRNA processing; IEA:UniProtKB-KW. 
Interpro
 IPR004154; Anticodon-bd.
 IPR007109; Brix. 
Pfam
 PF04427; Brix 
SMART
 SM00879; Brix 
PROSITE
 PS50833; BRIX 
PRINTS