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Protein

RNA polymerase II-associated factor 1 homolog

Gene

Paf1

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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. 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. Connects PAF1C with the RNF20/40 E3 ubiquitin-protein ligase complex. Involved in polyadenylation of mRNA precursors (By similarity).By similarity1 Publication

GO - Molecular functioni

  • chromatin binding Source: MGI
  • RNA polymerase II core binding Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation, Wnt signaling pathway

Enzyme and pathway databases

ReactomeiR-MMU-112382. Formation of RNA Pol II elongation complex.
R-MMU-112387. Elongation arrest and recovery.
R-MMU-674695. RNA Polymerase II Pre-transcription Events.
R-MMU-75955. RNA Polymerase II Transcription Elongation.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA polymerase II-associated factor 1 homolog
Gene namesi
Name:Paf1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 7

Organism-specific databases

MGIiMGI:1923988. Paf1.

Subcellular locationi

  • Nucleus

  • Note: Punctuate distribution throughout the nucleus except in nucleoli and the perinuclear chromatin.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003264011 – 535RNA polymerase II-associated factor 1 homologAdd BLAST535

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei117PhosphoserineBy similarity1
Modified residuei456PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ8K2T8.
MaxQBiQ8K2T8.
PaxDbiQ8K2T8.
PeptideAtlasiQ8K2T8.
PRIDEiQ8K2T8.

PTM databases

iPTMnetiQ8K2T8.
PhosphoSitePlusiQ8K2T8.

Expressioni

Gene expression databases

BgeeiENSMUSG00000003437.
GenevisibleiQ8K2T8. MM.

Interactioni

Subunit structurei

Component of the PAF1 complex, which consists of CDC73, PAF1, LEO1, CTR9, RTF1 and WDR61. Interacts with POLR2A, TCEA1, TTC37, KMT2A/MLL1, SUPT5H, RNF20 and RNF40. Interacts with UBE2E1 (By similarity).By similarity

GO - Molecular functioni

Protein-protein interaction databases

BioGridi207692. 4 interactors.
IntActiQ8K2T8. 6 interactors.
MINTiMINT-1691618.
STRINGi10090.ENSMUSP00000003529.

Structurei

3D structure databases

ProteinModelPortaliQ8K2T8.
SMRiQ8K2T8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili352 – 400Sequence analysisAdd BLAST49

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi358 – 452Glu-richAdd BLAST95
Compositional biasi478 – 534Ser-richAdd BLAST57

Sequence similaritiesi

Belongs to the PAF1 family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiKOG2478. Eukaryota.
ENOG410YZXE. LUCA.
GeneTreeiENSGT00390000001474.
HOGENOMiHOG000115425.
HOVERGENiHBG053131.
InParanoidiQ8K2T8.
KOiK15174.
OMAiADKRPQR.
OrthoDBiEOG091G0C3Y.
PhylomeDBiQ8K2T8.
TreeFamiTF313642.

Family and domain databases

InterProiIPR007133. RNA_pol_II-assoc_Paf1.
[Graphical view]
PANTHERiPTHR23188. PTHR23188. 1 hit.
PfamiPF03985. Paf1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q8K2T8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAPTIQTQAQ REDGHRPNSH RTLPERSGVV CRVKYCNSLP DIPFDPKFIT
60 70 80 90 100
YPFDQNRFVQ YKATSLEKQH KHDLLTEPDL GVTIDLINPD TYRIDPNVLL
110 120 130 140 150
DPADEKLLEE EIQAPTSSKR SQQHAKVVPW MRKTEYISTE FNRYGISNEK
160 170 180 190 200
PEVKIGVSVK QQFTEEEIYK DRDSQITAIE KTFEDAQKSI SQHYSKPRVT
210 220 230 240 250
PVEVMPVFPD FKMWINPCAQ VIFDSDPAPK DTSGAAALEM MSQAMIRGMM
260 270 280 290 300
DEEGNQFVAY FLPVEETLKK RKRDQEEEMD YAPDDVYDYK IAREYNWNVK
310 320 330 340 350
NKASKGYEEN YFFIFREGDG VYYNELETRV RLSKRRAKAG VQSGTNALLV
360 370 380 390 400
VKHRDMNEKE LEAQEARKAQ LENHEPEEEE EEEMEAEEKE AGGSDEEQEK
410 420 430 440 450
GSSSEKEGSE DEHSGSESDR EEGDRDEASD KSGSGEDESS EDEARAARDK
460 470 480 490 500
EEIFGSDADS EDDADSDDED RGQAHRGSDN DSDSGSDGGG QRSRSQSRSR
510 520 530
SRSASPFPSG SEHSAQEDGS EAAASDSSEA DSDSD
Length:535
Mass (Da):60,518
Last modified:October 1, 2002 - v1
Checksum:i7A5EAB1284988070
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti227P → L in BAA95098 (Ref. 1) Curated1
Sequence conflicti336R → Q in BAE22315 (Ref. 1) Curated1
Sequence conflicti505Missing in BAE22315 (Ref. 1) Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB041615 mRNA. Translation: BAA95098.1.
AK017762 mRNA. Translation: BAB30913.1.
AK134857 mRNA. Translation: BAE22315.1.
AK148538 mRNA. Translation: BAE28608.1.
BC029843 mRNA. Translation: AAH29843.1.
BC083337 mRNA. Translation: AAH83337.1.
CCDSiCCDS21043.1.
RefSeqiNP_062331.2. NM_019458.3.
UniGeneiMm.7916.

Genome annotation databases

EnsembliENSMUST00000003529; ENSMUSP00000003529; ENSMUSG00000003437.
GeneIDi54624.
KEGGimmu:54624.
UCSCiuc009fyu.1. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB041615 mRNA. Translation: BAA95098.1.
AK017762 mRNA. Translation: BAB30913.1.
AK134857 mRNA. Translation: BAE22315.1.
AK148538 mRNA. Translation: BAE28608.1.
BC029843 mRNA. Translation: AAH29843.1.
BC083337 mRNA. Translation: AAH83337.1.
CCDSiCCDS21043.1.
RefSeqiNP_062331.2. NM_019458.3.
UniGeneiMm.7916.

3D structure databases

ProteinModelPortaliQ8K2T8.
SMRiQ8K2T8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi207692. 4 interactors.
IntActiQ8K2T8. 6 interactors.
MINTiMINT-1691618.
STRINGi10090.ENSMUSP00000003529.

PTM databases

iPTMnetiQ8K2T8.
PhosphoSitePlusiQ8K2T8.

Proteomic databases

EPDiQ8K2T8.
MaxQBiQ8K2T8.
PaxDbiQ8K2T8.
PeptideAtlasiQ8K2T8.
PRIDEiQ8K2T8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000003529; ENSMUSP00000003529; ENSMUSG00000003437.
GeneIDi54624.
KEGGimmu:54624.
UCSCiuc009fyu.1. mouse.

Organism-specific databases

CTDi54623.
MGIiMGI:1923988. Paf1.

Phylogenomic databases

eggNOGiKOG2478. Eukaryota.
ENOG410YZXE. LUCA.
GeneTreeiENSGT00390000001474.
HOGENOMiHOG000115425.
HOVERGENiHBG053131.
InParanoidiQ8K2T8.
KOiK15174.
OMAiADKRPQR.
OrthoDBiEOG091G0C3Y.
PhylomeDBiQ8K2T8.
TreeFamiTF313642.

Enzyme and pathway databases

ReactomeiR-MMU-112382. Formation of RNA Pol II elongation complex.
R-MMU-112387. Elongation arrest and recovery.
R-MMU-674695. RNA Polymerase II Pre-transcription Events.
R-MMU-75955. RNA Polymerase II Transcription Elongation.

Miscellaneous databases

PROiQ8K2T8.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000003437.
GenevisibleiQ8K2T8. MM.

Family and domain databases

InterProiIPR007133. RNA_pol_II-assoc_Paf1.
[Graphical view]
PANTHERiPTHR23188. PTHR23188. 1 hit.
PfamiPF03985. Paf1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPAF1_MOUSE
AccessioniPrimary (citable) accession number: Q8K2T8
Secondary accession number(s): Q3UY97, Q9CS63, Q9JJ99
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 8, 2008
Last sequence update: October 1, 2002
Last modified: November 30, 2016
This is version 108 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.