CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-001527
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 Splicing factor, arginine/serine-rich 15 
Protein Synonyms/Alias
 CTD-binding SR-like protein RA4; SR-related and CTD-associated factor 4 
Gene Name
 SCAF4 
Gene Synonyms/Alias
 KIAA1172; SFRS15 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
49HVVQIVEKFIKKCKPacetylation[1]
81RHQFGTDKDVFGPRFubiquitination[2]
119RVLNLWQKNGVFKIEubiquitination[2, 3, 4, 5, 6]
583KIAWALNKGIKADYKubiquitination[3, 7]
Reference
 [1] Lysine acetylation targets protein complexes and co-regulates major cellular functions.
 Choudhary C, Kumar C, Gnad F, Nielsen ML, Rehman M, Walther TC, Olsen JV, Mann M.
 Science. 2009 Aug 14;325(5942):834-40. [PMID: 19608861]
 [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] 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]
 [4] 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]
 [5] 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]
 [6] 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]
 [7] 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
Functional Description
 May act to physically and functionally link transcription and pre-mRNA processing (By similarity). 
Sequence Annotation
 DOMAIN 1 139 CID.
 DOMAIN 508 582 RRM.
 MOD_RES 49 49 N6-acetyllysine.
 MOD_RES 154 154 Phosphoserine.
 MOD_RES 656 656 Phosphoserine.  
Keyword
 Acetylation; Alternative splicing; Complete proteome; Nucleus; Phosphoprotein; Polymorphism; Reference proteome; RNA-binding. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 1147 AA 
Protein Sequence
MDAVNAFNQE LFSLMDMKPP ISRAKMILIT KAAIKAIKLY KHVVQIVEKF IKKCKPEYKV 60
PGLYVIDSIV RQSRHQFGTD KDVFGPRFSK NITATFQYLY LCPSEDKSKI VRVLNLWQKN 120
GVFKIEIIQP LLDMAAGTSN AAPVAENVTN NEGSPPPPVK VSSEPPTQAT PNSVPAVPQL 180
PSSDAFAAVA QLFQTTQGQQ LQQILQTFQQ PPKPQSPALD NAVMAQVQAI TAQLKTTPTQ 240
PSEQKAAFPP PEQKTAFDKK LLDRFDYDDE PEAVEESKKE DTTAVTTTAP AAAVPPAPTA 300
TVPAAAAPAA ASPPPPQAPF GFPGDGMQQP AYTQHQNMDQ FQPRMMGIQQ DPMHHQVPLP 360
PNGQMPGFGL LPTPPFPPMA QPVIPPTPPV QQPFQASFQA QNEPLTQKPH QQEMEVEQPC 420
IQEVKRHMSD NRKSRSRSAS RSPKRRRSRS GSRSRRSRHR RSRSRSRDRR RHSPRSRSQE 480
RRDREKERER RQKGLPQVKP ETASVCSTTL WVGQLDKRTT QQDVASLLEE FGPIESINMI 540
PPRGCAYIVM VHRQDAYRAL QKLSRGNYKV NQKSIKIAWA LNKGIKADYK QYWDVELGVT 600
YIPWDKVKPE ELESFCEGGM LDSDTLNPDW KGIPKKPENE VAQNGGAETS HTEPVSPIPK 660
PLPVPVPPIP VPAPITVPPP QVPPHQPGPP VVGALQPPAF TPPLGIPPPG FGPGVPPPPP 720
PPPFLRPGFN PMHLPPGFLP PGPPPPITPP VSIPPPHTPP ISIPNSTIAG INEDTTKDLS 780
IGNPIPTVVS GARGNAESGD SVKMYGSAVP PAAPTNLPTP PVTQPVSLLG TQGVAPGPVI 840
GLQAPSTGLL GARPGLIPLQ RPPGMPPPHL QRFPLMPPRP MPPHMMHRGP PPGPGGFAMP 900
PPHGMKGPFP PHGPFVRPGG MPGLGGPGPG PGGPEDRDGR QQPPQQPQQQ PQPQAPQQPQ 960
QQQQQQPPPS QQPPPTQQQP QQFRNDNRQQ FNSGRDQERF GRRSFGNRVE NDRERYGNRN 1020
DDRDNSNRDR REWGRRSPDR DRHRDLEERN RRSSGHRDRE RDSRDRESRR EKEEARGKEK 1080
PEVTDRAGGN KTVEPPISQV GNVDTASELE KGVSEAAVLK PSEELPAEAT SSVEPEKDSG 1140
SAAEAPR 1147 
Gene Ontology
 GO:0005634; C:nucleus; IDA:HPA.
 GO:0000166; F:nucleotide binding; IEA:InterPro.
 GO:0003723; F:RNA binding; IEA:UniProtKB-KW. 
Interpro
 IPR006569; CID_dom.
 IPR008942; ENTH_VHS.
 IPR012677; Nucleotide-bd_a/b_plait.
 IPR006903; RNA_pol_II-bd.
 IPR000504; RRM_dom. 
Pfam
 PF04818; CTD_bind
 PF00076; RRM_1 
SMART
 SM00582; RPR
 SM00360; RRM 
PROSITE
 PS51391; CID
 PS50102; RRM 
PRINTS