CPLM 1.0 - Compendium of Protein Lysine Modification
TagContent
CPLM ID CPLM-017492
UniProt Accession
Genbank Protein ID
Genbank Nucleotide ID
Protein Name
 RNA polymerase II-associated factor 1 homolog 
Protein Synonyms/Alias
 hPAF1; Pancreatic differentiation protein 2 
Gene Name
 PAF1 
Gene Synonyms/Alias
 PD2 
Created Date
 July 27, 2013 
Organism
 Homo sapiens (Human) 
NCBI Taxa ID
 9606 
Lysine Modification
Position
Peptide
Type
References
34SGVVCRVKYCNSLPDubiquitination[1]
62QNRFVQYKATSLEKQubiquitination[1]
133KVVPWMRKTEYISTEubiquitination[1]
150RYGISNEKPEVKIGVubiquitination[1]
170FTEEEIYKDRDSQITubiquitination[1]
181SQITAIEKTFEDAQKubiquitination[1]
196SISQHYSKPRVTPVEubiquitination[1]
272EETLKKRKRDQEEEMubiquitination[1]
290PDDVYDYKIAREYNWubiquitination[2, 3]
305NVKNKASKGYEENYFubiquitination[2, 3]
Reference
 [1] 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]
 [2] 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]
 [3] 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
 Component of the PAF1 complex (PAF1C) which has multiple functions during transcription by RNA polymerase II and is implicated in regulation of development and maintenance of embryonic stem cell pluripotency. PAF1C associates with RNA polymerase II through interaction with POLR2A CTD non- phosphorylated and 'Ser-2'- and 'Ser-5'-phosphorylated forms and is involved in transcriptional elongation, acting both indepentently and synergistically with TCEA1 and in cooperation with the DSIF complex and HTATSF1. PAF1C is required for transcription of Hox and Wnt target genes. PAF1C is involved in hematopoiesis and stimulates transcriptional activity of KMT2A/MLL1; it promotes leukemogenesis through association with KMT2A/MLL1-rearranged oncoproteins, such as KMT2A/MLL1-MLLT3/AF9 and KMT2A/MLL1-MLLT1/ENL. PAF1C is involved in histone modifications such as ubiquitination of histone H2B and methylation on histone H3 'Lys-4' (H3K4me3). PAF1C recruits the RNF20/40 E3 ubiquitin-protein ligase complex and the E2 enzyme UBE2A or UBE2B to chromatin which mediate monoubiquitination of 'Lys-120' of histone H2B (H2BK120ub1); UB2A/B-mediated H2B ubiquitination is proposed to be coupled to transcription. PAF1C is involved in mRNA 3' end formation probably through association with cleavage and poly(A) factors. In case of infection by influenza A strain H3N2, PAF1C associates with viral NS1 protein, thereby regulating gene transcription. Connects PAF1C with the RNF20/40 E3 ubiquitin-protein ligase complex. Involved in polyadenylation of mRNA precursors. Has oncogenic activity in vivo and in vitro. 
Sequence Annotation
  
Keyword
 Alternative splicing; Coiled coil; Complete proteome; Nucleus; Reference proteome; Transcription; Transcription regulation; Tumor suppressor; Wnt signaling pathway. 
Sequence Source
 UniProt (SWISSPROT/TrEMBL); GenBank; EMBL 
Protein Length
 531 AA 
Protein Sequence
MAPTIQTQAQ REDGHRPNSH RTLPERSGVV CRVKYCNSLP DIPFDPKFIT YPFDQNRFVQ 60
YKATSLEKQH KHDLLTEPDL GVTIDLINPD TYRIDPNVLL DPADEKLLEE EIQAPTSSKR 120
SQQHAKVVPW MRKTEYISTE FNRYGISNEK PEVKIGVSVK QQFTEEEIYK DRDSQITAIE 180
KTFEDAQKSI SQHYSKPRVT PVEVMPVFPD FKMWINPCAQ VIFDSDPAPK DTSGAAALEM 240
MSQAMIRGMM DEEGNQFVAY FLPVEETLKK RKRDQEEEMD YAPDDVYDYK IAREYNWNVK 300
NKASKGYEEN YFFIFREGDG VYYNELETRV RLSKRRAKAG VQSGTNALLV VKHRDMNEKE 360
LEAQEARKAQ LENHEPEEEE EEEMETEEKE AGGSDEEQEK GSSSEKEGSE DEHSGSESER 420
EEGDRDEASD KSGSGEDESS EDEARAARDK EEIFGSDADS EDDADSDDED RGQAQGGSDN 480
DSDSGSNGGG QRSRSHSRSA SPFPSGSEHS AQEDGSEAAA SDSSEADSDS D 531 
Gene Ontology
 GO:0016593; C:Cdc73/Paf1 complex; IDA:UniProtKB.
 GO:0005739; C:mitochondrion; IDA:HPA.
 GO:0003682; F:chromatin binding; IEA:Compara.
 GO:0000993; F:RNA polymerase II core binding; IDA:UniProtKB.
 GO:0071222; P:cellular response to lipopolysaccharide; ISS:UniProtKB.
 GO:0001711; P:endodermal cell fate commitment; ISS:UniProtKB.
 GO:0033523; P:histone H2B ubiquitination; IDA:UniProtKB.
 GO:0010390; P:histone monoubiquitination; IDA:UniProtKB.
 GO:0006378; P:mRNA polyadenylation; IMP:UniProtKB.
 GO:0045638; P:negative regulation of myeloid cell differentiation; IDA:UniProtKB.
 GO:0000122; P:negative regulation of transcription from RNA polymerase II promoter; ISS:UniProtKB.
 GO:0031442; P:positive regulation of mRNA 3'-end processing; IMP:UniProtKB.
 GO:0032968; P:positive regulation of transcription elongation from RNA polymerase II promoter; IDA:UniProtKB.
 GO:0045944; P:positive regulation of transcription from RNA polymerase II promoter; IDA:UniProtKB.
 GO:0019827; P:stem cell maintenance; IEA:Compara.
 GO:0006351; P:transcription, DNA-dependent; IEA:UniProtKB-KW.
 GO:0016055; P:Wnt receptor signaling pathway; IEA:UniProtKB-KW. 
Interpro
 IPR007133; RNA_pol_II-assoc_Paf1. 
Pfam
 PF03985; Paf1 
SMART
  
PROSITE
  
PRINTS