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Protein

Putative RNA polymerase II subunit B1 CTD phosphatase Rpap2

Gene

Rpap2

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Protein phosphatase that displays CTD phosphatase activity and regulates transcription of snRNA genes. Recognizes and binds phosphorylated 'Ser-7' of the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit POLR2A, and mediates dephosphorylation of 'Ser-5' of the CTD, thereby promoting transcription of snRNA genes (By similarity).By similarity

Catalytic activityi

[a protein]-serine/threonine phosphate + H2O = [a protein]-serine/threonine + phosphate.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri77 – 16084RTR1-typeAdd
BLAST

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Hydrolase, Protein phosphatase

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Putative RNA polymerase II subunit B1 CTD phosphatase Rpap2 (EC:3.1.3.16)
Alternative name(s):
RNA polymerase II-associated protein 2
Gene namesi
Name:Rpap2
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Chromosome 5

Organism-specific databases

MGIiMGI:2141142. Rpap2.

Subcellular locationi

  • Cytoplasm By similarity
  • Nucleus By similarity

  • Note: Shuttles between the cytoplasm and the nucleus in a CRM1-dependent manner.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11RemovedBy similarity
Chaini2 – 614613Putative RNA polymerase II subunit B1 CTD phosphatase Rpap2PRO_0000250649Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanineBy similarity
Modified residuei481 – 4811PhosphoserineBy similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

MaxQBiQ8VC34.
PaxDbiQ8VC34.
PRIDEiQ8VC34.

PTM databases

PhosphoSiteiQ8VC34.

Expressioni

Gene expression databases

BgeeiQ8VC34.
CleanExiMM_RPAP2.
ExpressionAtlasiQ8VC34. baseline and differential.
GenevisibleiQ8VC34. MM.

Interactioni

Subunit structurei

Associates with the RNA polymerase II complex. Interacts with transcribing RNA polymerase II phosphorylated on 'Ser-7' on CTD (By similarity).By similarity

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000070209.

Structurei

3D structure databases

ProteinModelPortaliQ8VC34.
SMRiQ8VC34. Positions 53-172.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili41 – 6828Sequence AnalysisAdd
BLAST

Sequence similaritiesi

Belongs to the RPAP2 family.Curated
Contains 1 RTR1-type zinc finger.Curated

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri77 – 16084RTR1-typeAdd
BLAST

Keywords - Domaini

Coiled coil, Zinc-finger

Phylogenomic databases

eggNOGiNOG241465.
GeneTreeiENSGT00390000017965.
HOGENOMiHOG000253960.
HOVERGENiHBG080953.
InParanoidiQ8VC34.
OMAiVKLCGYP.
OrthoDBiEOG7XWPQD.
PhylomeDBiQ8VC34.
TreeFamiTF331431.

Family and domain databases

InterProiIPR007308. DUF408.
[Graphical view]
PfamiPF04181. RPAP2_Rtr1. 1 hit.
[Graphical view]
PROSITEiPS51479. ZF_RTR1. 1 hit.
[Graphical view]

Sequences (5)i

Sequence statusi: Complete.

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

This entry describes 5 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8VC34-1) [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
MADSAVPCSL GPSTRASSTH RDATGTKQTR ALKRGDASKR QAELEAAIQR
60 70 80 90 100
KVEFERKAVR IVEQLLEENI TEEFLKECGM FITPAHYSDV VDERSIIKLC
110 120 130 140 150
GYPLCQKKLG VIPKQKYRIS TKTNKVYDIT ERKSFCSNFC YRASKFFETQ
160 170 180 190 200
IPKTPVWVRE EERPPDFQLL KKGQSGSSGE VVQFFRDAVT AADVDGSGAL
210 220 230 240 250
EAQCDPASSS SWSERASDEE EQGFVSSLLP GNRPKAVDTR PQPHTKSSIM
260 270 280 290 300
RKKAAQNVDS KEGEQTVSEV TEQLDNCRLD SQEKVATCKR PLKKESTQIS
310 320 330 340 350
SPGPLCDRFN TSAISEHKHG VSQVTLVGIS KKSAEHFRSK FAKSNPGSGS
360 370 380 390 400
ASGLVHVRPE VAKANLLRVL SDTLTEWKTE ETLKFLYGQN HDSVCLKPSS
410 420 430 440 450
ASEPDEELDE DDISCDPGSC GPALSQAQNT LDATLPFRGS DTAIKPLPSY
460 470 480 490 500
ESLKKETEML NLRVREFYRG RCVLNEDTTK SQDSKESVLQ RDPSFPLIDS
510 520 530 540 550
SSQNQIRRRI VLEKLSKVLP GLLGPLQITM GDIYTELKNL IQTFRLSNRN
560 570 580 590 600
IIHKPVEWTL IAVVLLLLLT PILGIQKHSP KNVVFTQFIA TLLTELHLKF
610
EDLEKLTMIF RTSC
Length:614
Mass (Da):68,530
Last modified:October 3, 2006 - v2
Checksum:i3029373A246478D7
GO
Isoform 2 (identifier: Q8VC34-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     569-570: LT → IL
     571-614: Missing.

Note: No experimental confirmation available.
Show »
Length:570
Mass (Da):63,458
Checksum:iFC6E023D8CCD2587
GO
Isoform 3 (identifier: Q8VC34-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     569-614: Missing.

Note: No experimental confirmation available.
Show »
Length:568
Mass (Da):63,232
Checksum:i423D8CCD2587F3F5
GO
Isoform 4 (identifier: Q8VC34-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-79: Missing.
     569-614: Missing.

Note: No experimental confirmation available.
Show »
Length:489
Mass (Da):54,504
Checksum:iF61E7558CBA75A2F
GO
Isoform 5 (identifier: Q8VC34-5) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-77: Missing.
     78-78: C → M

Note: No experimental confirmation available.
Show »
Length:537
Mass (Da):59,990
Checksum:i69F5ECA9B2C0AEA4
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti201 – 2011E → D in AAH21895 (PubMed:15489334).Curated
Sequence conflicti318 – 3181K → T in AAH21895 (PubMed:15489334).Curated
Sequence conflicti444 – 4441I → V in BAE26681 (PubMed:16141072).Curated
Sequence conflicti524 – 5241G → V in BAE38864 (PubMed:16141072).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 7979Missing in isoform 4. 1 PublicationVSP_020682Add
BLAST
Alternative sequencei1 – 7777Missing in isoform 5. 1 PublicationVSP_020683Add
BLAST
Alternative sequencei78 – 781C → M in isoform 5. 1 PublicationVSP_020684
Alternative sequencei569 – 61446Missing in isoform 3 and isoform 4. 1 PublicationVSP_020685Add
BLAST
Alternative sequencei569 – 5702LT → IL in isoform 2. 1 PublicationVSP_020686
Alternative sequencei571 – 61444Missing in isoform 2. 1 PublicationVSP_020687Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK034418 mRNA. Translation: BAC28703.1.
AK049889 mRNA. Translation: BAC33973.1.
AK145830 mRNA. Translation: BAE26681.1.
AK161901 mRNA. Translation: BAE36627.1.
AK166574 mRNA. Translation: BAE38864.1.
BC021895 mRNA. Translation: AAH21895.1.
CCDSiCCDS19506.1. [Q8VC34-1]
CCDS51588.1. [Q8VC34-3]
CCDS51589.1. [Q8VC34-4]
CCDS71630.1. [Q8VC34-2]
CCDS71631.1. [Q8VC34-5]
RefSeqiNP_001156933.1. NM_001163461.2. [Q8VC34-3]
NP_001156934.1. NM_001163462.2. [Q8VC34-4]
NP_001276498.1. NM_001289569.1. [Q8VC34-5]
NP_001276499.1. NM_001289570.1. [Q8VC34-2]
NP_659160.2. NM_144911.3. [Q8VC34-1]
XP_006534963.1. XM_006534900.2. [Q8VC34-5]
UniGeneiMm.482420.

Genome annotation databases

EnsembliENSMUST00000065422; ENSMUSP00000070209; ENSMUSG00000033773. [Q8VC34-1]
ENSMUST00000112650; ENSMUSP00000108269; ENSMUSG00000033773. [Q8VC34-4]
ENSMUST00000112651; ENSMUSP00000108270; ENSMUSG00000033773. [Q8VC34-5]
ENSMUST00000112654; ENSMUSP00000108273; ENSMUSG00000033773. [Q8VC34-3]
ENSMUST00000112655; ENSMUSP00000108274; ENSMUSG00000033773. [Q8VC34-2]
GeneIDi231571.
KEGGimmu:231571.
UCSCiuc008ymn.3. mouse. [Q8VC34-1]
uc008ymq.3. mouse. [Q8VC34-5]
uc033iky.1. mouse. [Q8VC34-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK034418 mRNA. Translation: BAC28703.1.
AK049889 mRNA. Translation: BAC33973.1.
AK145830 mRNA. Translation: BAE26681.1.
AK161901 mRNA. Translation: BAE36627.1.
AK166574 mRNA. Translation: BAE38864.1.
BC021895 mRNA. Translation: AAH21895.1.
CCDSiCCDS19506.1. [Q8VC34-1]
CCDS51588.1. [Q8VC34-3]
CCDS51589.1. [Q8VC34-4]
CCDS71630.1. [Q8VC34-2]
CCDS71631.1. [Q8VC34-5]
RefSeqiNP_001156933.1. NM_001163461.2. [Q8VC34-3]
NP_001156934.1. NM_001163462.2. [Q8VC34-4]
NP_001276498.1. NM_001289569.1. [Q8VC34-5]
NP_001276499.1. NM_001289570.1. [Q8VC34-2]
NP_659160.2. NM_144911.3. [Q8VC34-1]
XP_006534963.1. XM_006534900.2. [Q8VC34-5]
UniGeneiMm.482420.

3D structure databases

ProteinModelPortaliQ8VC34.
SMRiQ8VC34. Positions 53-172.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000070209.

PTM databases

PhosphoSiteiQ8VC34.

Proteomic databases

MaxQBiQ8VC34.
PaxDbiQ8VC34.
PRIDEiQ8VC34.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000065422; ENSMUSP00000070209; ENSMUSG00000033773. [Q8VC34-1]
ENSMUST00000112650; ENSMUSP00000108269; ENSMUSG00000033773. [Q8VC34-4]
ENSMUST00000112651; ENSMUSP00000108270; ENSMUSG00000033773. [Q8VC34-5]
ENSMUST00000112654; ENSMUSP00000108273; ENSMUSG00000033773. [Q8VC34-3]
ENSMUST00000112655; ENSMUSP00000108274; ENSMUSG00000033773. [Q8VC34-2]
GeneIDi231571.
KEGGimmu:231571.
UCSCiuc008ymn.3. mouse. [Q8VC34-1]
uc008ymq.3. mouse. [Q8VC34-5]
uc033iky.1. mouse. [Q8VC34-2]

Organism-specific databases

CTDi79871.
MGIiMGI:2141142. Rpap2.

Phylogenomic databases

eggNOGiNOG241465.
GeneTreeiENSGT00390000017965.
HOGENOMiHOG000253960.
HOVERGENiHBG080953.
InParanoidiQ8VC34.
OMAiVKLCGYP.
OrthoDBiEOG7XWPQD.
PhylomeDBiQ8VC34.
TreeFamiTF331431.

Miscellaneous databases

ChiTaRSiRpap2. mouse.
NextBioi380622.
PROiQ8VC34.
SOURCEiSearch...

Gene expression databases

BgeeiQ8VC34.
CleanExiMM_RPAP2.
ExpressionAtlasiQ8VC34. baseline and differential.
GenevisibleiQ8VC34. MM.

Family and domain databases

InterProiIPR007308. DUF408.
[Graphical view]
PfamiPF04181. RPAP2_Rtr1. 1 hit.
[Graphical view]
PROSITEiPS51479. ZF_RTR1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1; 2; 3; 4 AND 5).
    Strain: C57BL/6J.
    Tissue: Diencephalon, Hippocampus, Medulla oblongata and Placenta.
  2. "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] (ISOFORM 1).
    Strain: C57BL/6J and FVB/N.
    Tissue: Mammary tumor.

Entry informationi

Entry nameiRPAP2_MOUSE
AccessioniPrimary (citable) accession number: Q8VC34
Secondary accession number(s): Q3TLC8
, Q3TSP8, Q3UKX0, Q8C7M5, Q8CBW8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 3, 2006
Last sequence update: October 3, 2006
Last modified: July 22, 2015
This is version 95 of the entry and version 2 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

External Data

Dasty 3

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 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.