Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

RNA polymerase II-associated protein 3

Gene

RPAP3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Forms an interface between the RNA polymerase II enzyme and chaperone/scaffolding protein, suggesting that it is required to connect RNA polymerase II to regulators of protein complex formation.1 Publication

Enzyme and pathway databases

BioCyciZFISH:ENSG00000005175-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA polymerase II-associated protein 3
Gene namesi
Name:RPAP3
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 12

Organism-specific databases

HGNCiHGNC:26151. RPAP3.

Subcellular locationi

GO - Cellular componenti

  • R2TP complex Source: UniProtKB
Complete GO annotation...

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000005175.
PharmGKBiPA162401982.

Polymorphism and mutation databases

BioMutaiRPAP3.
DMDMi158564023.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedCombined sources
ChainiPRO_00003027942 – 665RNA polymerase II-associated protein 3Add BLAST664

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylthreonineCombined sources1
Modified residuei87PhosphoserineCombined sources1
Modified residuei116PhosphoserineCombined sources1
Modified residuei119PhosphoserineCombined sources1
Modified residuei121PhosphoserineCombined sources1
Modified residuei481PhosphoserineCombined sources1
Cross-linki498Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ9H6T3.
MaxQBiQ9H6T3.
PaxDbiQ9H6T3.
PeptideAtlasiQ9H6T3.
PRIDEiQ9H6T3.

PTM databases

iPTMnetiQ9H6T3.
PhosphoSitePlusiQ9H6T3.

Miscellaneous databases

PMAP-CutDBQ9H6T3.

Expressioni

Gene expression databases

BgeeiENSG00000005175.
CleanExiHS_RPAP3.
GenevisibleiQ9H6T3. HS.

Organism-specific databases

HPAiHPA038311.
HPA038312.

Interactioni

Subunit structurei

Tightly associated with the RNA polymerase II complex (PubMed:17643375). Component of the R2TP complex composed at least of PIHD1, RUVBL1, RUVBL2 and RPAP3 (PubMed:20864032). Interacts with PIH1D1 (PubMed:21078300).3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
HSP90AA1P079003EBI-356928,EBI-296047
PFDN2Q9UHV92EBI-356928,EBI-359873
TERF1P542742EBI-356928,EBI-710997
URI1O947632EBI-356928,EBI-357067
UXTQ9UBK92EBI-356928,EBI-357355
WDR92Q96MX65EBI-356928,EBI-2434101

Protein-protein interaction databases

BioGridi122783. 78 interactors.
DIPiDIP-47508N.
IntActiQ9H6T3. 56 interactors.
MINTiMINT-1140426.
STRINGi9606.ENSP00000005386.

Structurei

Secondary structure

1665
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi130 – 145Combined sources16
Helixi149 – 162Combined sources14
Helixi168 – 179Combined sources12
Helixi183 – 196Combined sources14
Helixi201 – 213Combined sources13
Helixi217 – 230Combined sources14
Helixi235 – 249Combined sources15
Helixi268 – 277Combined sources10
Helixi278 – 280Combined sources3
Helixi281 – 294Combined sources14
Helixi298 – 310Combined sources13
Helixi317 – 328Combined sources12
Helixi333 – 345Combined sources13
Helixi350 – 363Combined sources14
Helixi366 – 379Combined sources14

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4CGVX-ray2.54A/B/C/D120-255[»]
4CGWX-ray3.00A/B265-381[»]
ProteinModelPortaliQ9H6T3.
SMRiQ9H6T3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati8 – 41TPR 1Add BLAST34
Repeati133 – 166TPR 2Add BLAST34
Repeati168 – 200TPR 3Add BLAST33
Repeati201 – 234TPR 4Add BLAST34
Repeati282 – 315TPR 5Add BLAST34
Repeati317 – 349TPR 6Add BLAST33
Repeati350 – 383TPR 7Add BLAST34

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi63 – 70Poly-Lys8

Sequence similaritiesi

Belongs to the RPAP3 family.Curated
Contains 7 TPR repeats.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, TPR repeat

Phylogenomic databases

eggNOGiKOG4648. Eukaryota.
ENOG4111KG3. LUCA.
GeneTreeiENSGT00840000129761.
HOGENOMiHOG000154181.
HOVERGENiHBG059892.
InParanoidiQ9H6T3.
OMAiQDFMRDL.
OrthoDBiEOG091G0IS5.
PhylomeDBiQ9H6T3.
TreeFamiTF106243.

Family and domain databases

Gene3Di1.25.40.10. 2 hits.
InterProiIPR025986. RPAP3-like_C.
IPR013026. TPR-contain_dom.
IPR011990. TPR-like_helical_dom.
IPR001440. TPR_1.
IPR019734. TPR_repeat.
[Graphical view]
PfamiPF13877. RPAP3_C. 1 hit.
PF00515. TPR_1. 2 hits.
PF13176. TPR_7. 1 hit.
PF13181. TPR_8. 1 hit.
[Graphical view]
SMARTiSM00028. TPR. 6 hits.
[Graphical view]
SUPFAMiSSF48452. SSF48452. 2 hits.
PROSITEiPS50005. TPR. 5 hits.
PS50293. TPR_REGION. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9H6T3-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MTSANKAIEL QLQVKQNAEE LQDFMRDLEN WEKDIKQKDM ELRRQNGVPE
60 70 80 90 100
ENLPPIRNGN FRKKKKGKAK ESSKKTREEN TKNRIKSYDY EAWAKLDVDR
110 120 130 140 150
ILDELDKDDS THESLSQESE SEEDGIHVDS QKALVLKEKG NKYFKQGKYD
160 170 180 190 200
EAIDCYTKGM DADPYNPVLP TNRASAYFRL KKFAVAESDC NLAVALNRSY
210 220 230 240 250
TKAYSRRGAA RFALQKLEEA KKDYERVLEL EPNNFEATNE LRKISQALAS
260 270 280 290 300
KENSYPKEAD IVIKSTEGER KQIEAQQNKQ QAISEKDRGN GFFKEGKYER
310 320 330 340 350
AIECYTRGIA ADGANALLPA NRAMAYLKIQ KYEEAEKDCT QAILLDGSYS
360 370 380 390 400
KAFARRGTAR TFLGKLNEAK QDFETVLLLE PGNKQAVTEL SKIKKELIEK
410 420 430 440 450
GHWDDVFLDS TQRQNVVKPI DNPPHPGSTK PLKKVIIEET GNLIQTIDVP
460 470 480 490 500
DSTTAAAPEN NPINLANVIA ATGTTSKKNS SQDDLFPTSD TPRAKVLKIE
510 520 530 540 550
EVSDTSSLQP QASLKQDVCQ SYSEKMPIEI EQKPAQFATT VLPPIPANSF
560 570 580 590 600
QLESDFRQLK SSPDMLYQYL KQIEPSLYPK LFQKNLDPDV FNQIVKILHD
610 620 630 640 650
FYIEKEKPLL IFEILQRLSE LKRFDMAVMF MSETEKKIAR ALFNHIDKSG
660
LKDSSVEELK KRYGG
Length:665
Mass (Da):75,719
Last modified:September 11, 2007 - v2
Checksum:i70D5A965E4F1EE35
GO
Isoform 2 (identifier: Q9H6T3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     396-429: Missing.

Note: No experimental confirmation available.
Show »
Length:631
Mass (Da):71,866
Checksum:iB175E5AE9E55FC08
GO
Isoform 3 (identifier: Q9H6T3-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-159: Missing.

Note: No experimental confirmation available.
Show »
Length:506
Mass (Da):57,108
Checksum:i5E45C03E06E599EE
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti484D → V in BAB15170 (PubMed:14702039).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_057354564D → Y.Corresponds to variant rs11168196dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0448821 – 159Missing in isoform 3. 1 PublicationAdd BLAST159
Alternative sequenceiVSP_027957396 – 429Missing in isoform 2. 1 PublicationAdd BLAST34

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK025561 mRNA. Translation: BAB15170.1.
AK299465 mRNA. Translation: BAG61431.1.
AC004241 Genomic DNA. No translation available.
CH471111 Genomic DNA. Translation: EAW57938.1.
BC056415 mRNA. Translation: AAH56415.1.
CCDSiCCDS53782.1. [Q9H6T3-3]
CCDS53783.1. [Q9H6T3-2]
CCDS8753.1. [Q9H6T3-1]
RefSeqiNP_001139547.1. NM_001146075.1. [Q9H6T3-2]
NP_001139548.1. NM_001146076.1. [Q9H6T3-3]
NP_078880.2. NM_024604.2. [Q9H6T3-1]
UniGeneiHs.437855.

Genome annotation databases

EnsembliENST00000005386; ENSP00000005386; ENSG00000005175. [Q9H6T3-1]
ENST00000380650; ENSP00000370024; ENSG00000005175. [Q9H6T3-2]
ENST00000432584; ENSP00000401823; ENSG00000005175. [Q9H6T3-3]
GeneIDi79657.
KEGGihsa:79657.
UCSCiuc001rpr.4. human. [Q9H6T3-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK025561 mRNA. Translation: BAB15170.1.
AK299465 mRNA. Translation: BAG61431.1.
AC004241 Genomic DNA. No translation available.
CH471111 Genomic DNA. Translation: EAW57938.1.
BC056415 mRNA. Translation: AAH56415.1.
CCDSiCCDS53782.1. [Q9H6T3-3]
CCDS53783.1. [Q9H6T3-2]
CCDS8753.1. [Q9H6T3-1]
RefSeqiNP_001139547.1. NM_001146075.1. [Q9H6T3-2]
NP_001139548.1. NM_001146076.1. [Q9H6T3-3]
NP_078880.2. NM_024604.2. [Q9H6T3-1]
UniGeneiHs.437855.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4CGVX-ray2.54A/B/C/D120-255[»]
4CGWX-ray3.00A/B265-381[»]
ProteinModelPortaliQ9H6T3.
SMRiQ9H6T3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi122783. 78 interactors.
DIPiDIP-47508N.
IntActiQ9H6T3. 56 interactors.
MINTiMINT-1140426.
STRINGi9606.ENSP00000005386.

PTM databases

iPTMnetiQ9H6T3.
PhosphoSitePlusiQ9H6T3.

Polymorphism and mutation databases

BioMutaiRPAP3.
DMDMi158564023.

Proteomic databases

EPDiQ9H6T3.
MaxQBiQ9H6T3.
PaxDbiQ9H6T3.
PeptideAtlasiQ9H6T3.
PRIDEiQ9H6T3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000005386; ENSP00000005386; ENSG00000005175. [Q9H6T3-1]
ENST00000380650; ENSP00000370024; ENSG00000005175. [Q9H6T3-2]
ENST00000432584; ENSP00000401823; ENSG00000005175. [Q9H6T3-3]
GeneIDi79657.
KEGGihsa:79657.
UCSCiuc001rpr.4. human. [Q9H6T3-1]

Organism-specific databases

CTDi79657.
GeneCardsiRPAP3.
H-InvDBHIX0010575.
HGNCiHGNC:26151. RPAP3.
HPAiHPA038311.
HPA038312.
MIMi611477. gene.
neXtProtiNX_Q9H6T3.
OpenTargetsiENSG00000005175.
PharmGKBiPA162401982.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG4648. Eukaryota.
ENOG4111KG3. LUCA.
GeneTreeiENSGT00840000129761.
HOGENOMiHOG000154181.
HOVERGENiHBG059892.
InParanoidiQ9H6T3.
OMAiQDFMRDL.
OrthoDBiEOG091G0IS5.
PhylomeDBiQ9H6T3.
TreeFamiTF106243.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000005175-MONOMER.

Miscellaneous databases

ChiTaRSiRPAP3. human.
GenomeRNAii79657.
PMAP-CutDBQ9H6T3.
PROiQ9H6T3.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000005175.
CleanExiHS_RPAP3.
GenevisibleiQ9H6T3. HS.

Family and domain databases

Gene3Di1.25.40.10. 2 hits.
InterProiIPR025986. RPAP3-like_C.
IPR013026. TPR-contain_dom.
IPR011990. TPR-like_helical_dom.
IPR001440. TPR_1.
IPR019734. TPR_repeat.
[Graphical view]
PfamiPF13877. RPAP3_C. 1 hit.
PF00515. TPR_1. 2 hits.
PF13176. TPR_7. 1 hit.
PF13181. TPR_8. 1 hit.
[Graphical view]
SMARTiSM00028. TPR. 6 hits.
[Graphical view]
SUPFAMiSSF48452. SSF48452. 2 hits.
PROSITEiPS50005. TPR. 5 hits.
PS50293. TPR_REGION. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRPAP3_HUMAN
AccessioniPrimary (citable) accession number: Q9H6T3
Secondary accession number(s): B4DRW9, Q6PHR5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: September 11, 2007
Last modified: November 30, 2016
This is version 123 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 12
    Human chromosome 12: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. 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.