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Protein

RNA polymerase II-associated factor 1 homolog

Gene

Paf1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 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

Keywordsi

Biological processTranscription, Transcription regulation, Wnt signaling pathway

Enzyme and pathway databases

ReactomeiR-RNO-112382. Formation of RNA Pol II elongation complex.
R-RNO-674695. RNA Polymerase II Pre-transcription Events.
R-RNO-75955. RNA Polymerase II Transcription Elongation.
R-RNO-8866654. E3 ubiquitin ligases ubiquitinate target proteins.

Names & Taxonomyi

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

Organism-specific databases

RGDi1306219. Paf1.

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003264031 – 535RNA polymerase II-associated factor 1 homologAdd BLAST535

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei117PhosphoserineBy similarity1
Cross-linki133Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Cross-linki154Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)By similarity
Modified residuei456PhosphoserineBy similarity1

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

PaxDbiQ4V886.
PRIDEiQ4V886.

PTM databases

iPTMnetiQ4V886.
PhosphoSitePlusiQ4V886.

Expressioni

Gene expression databases

BgeeiENSRNOG00000019746.
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.

Structurei

3D structure databases

SMRiQ4V886.
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.
InParanoidiQ4V886.
KOiK15174.
OMAiVEMMSQA.
OrthoDBiEOG091G0C3Y.
PhylomeDBiQ4V886.
TreeFamiTF313642.

Family and domain databases

InterProiView protein in InterPro
IPR007133. RNA_pol_II-assoc_Paf1.
PANTHERiPTHR23188. PTHR23188. 1 hit.
PfamiView protein in Pfam
PF03985. Paf1. 1 hit.

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.

Similar proteinsi

Entry informationi

Entry nameiPAF1_RAT
AccessioniPrimary (citable) accession number: Q4V886
Entry historyiIntegrated into UniProtKB/Swiss-Prot: March 18, 2008
Last sequence update: July 5, 2005
Last modified: September 27, 2017
This is version 83 of the entry and version 1 of the sequence. See 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