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Protein

RNA polymerase II-associated factor 1 homolog

Gene

Paf1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript 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 similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation, Wnt signaling pathway

Names & Taxonomyi

Protein namesi
Recommended name:
RNA polymerase II-associated factor 1 homolog
Gene namesi
Name:Paf1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 1

Organism-specific databases

RGDi1306219. 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)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 535535RNA polymerase II-associated factor 1 homologPRO_0000326403Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei456 – 4561PhosphoserineBy similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ4V886.
PRIDEiQ4V886.

PTM databases

iPTMnetiQ4V886.
PhosphoSiteiQ4V886.

Expressioni

Gene expression databases

GenevisibleiQ4V886. RN.

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

STRINGi10116.ENSRNOP00000026778.

Family & Domainsi

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili352 – 40049Sequence analysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi358 – 45295Glu-richAdd
BLAST
Compositional biasi478 – 53457Ser-richAdd
BLAST

Sequence similaritiesi

Belongs to the PAF1 family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiKOG2478. Eukaryota.
ENOG410YZXE. LUCA.
GeneTreeiENSGT00390000001474.
HOGENOMiHOG000115425.
HOVERGENiHBG053131.
InParanoidiQ4V886.
KOiK15174.
OMAiADKRPQR.
OrthoDBiEOG75XGMJ.
PhylomeDBiQ4V886.
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.

Q4V886-1 [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 AGGSDEEHEK
410 420 430 440 450
GSSSEKEGSE DERSGSESDR EEGDRDEASD KSGSGEDESS EDEARAARDK
460 470 480 490 500
EEIFGSDADS EDDADSDDED RGQAHRGSDN DSDSGSDGGG QRSRSQSRSR
510 520 530
SRSASPFPSG SEHSAQEDGS EAAASDSSEA DSDSD
Length:535
Mass (Da):60,546
Last modified:July 5, 2005 - v1
Checksum:i48432E1DA398806F
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC097494 mRNA. Translation: AAH97494.1.
RefSeqiNP_001020069.1. NM_001024898.1.
UniGeneiRn.161558.

Genome annotation databases

EnsembliENSRNOT00000026778; ENSRNOP00000026778; ENSRNOG00000019746.
GeneIDi361531.
KEGGirno:361531.
UCSCiRGD:1306219. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC097494 mRNA. Translation: AAH97494.1.
RefSeqiNP_001020069.1. NM_001024898.1.
UniGeneiRn.161558.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000026778.

PTM databases

iPTMnetiQ4V886.
PhosphoSiteiQ4V886.

Proteomic databases

PaxDbiQ4V886.
PRIDEiQ4V886.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000026778; ENSRNOP00000026778; ENSRNOG00000019746.
GeneIDi361531.
KEGGirno:361531.
UCSCiRGD:1306219. rat.

Organism-specific databases

CTDi54623.
RGDi1306219. Paf1.

Phylogenomic databases

eggNOGiKOG2478. Eukaryota.
ENOG410YZXE. LUCA.
GeneTreeiENSGT00390000001474.
HOGENOMiHOG000115425.
HOVERGENiHBG053131.
InParanoidiQ4V886.
KOiK15174.
OMAiADKRPQR.
OrthoDBiEOG75XGMJ.
PhylomeDBiQ4V886.
TreeFamiTF313642.

Miscellaneous databases

PROiQ4V886.

Gene expression databases

GenevisibleiQ4V886. RN.

Family and domain databases

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

Publicationsi

  1. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Placenta.

Entry informationi

Entry nameiPAF1_RAT
AccessioniPrimary (citable) accession number: Q4V886
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 18, 2008
Last sequence update: July 5, 2005
Last modified: June 8, 2016
This is version 72 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. 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.