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Protein

U4/U6 small nuclear ribonucleoprotein Prp4

Gene

Prpf4

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Participates in pre-mRNA splicing. Part of the U4/U5/U6 tri-snRNP complex, one of the building blocks of the spliceosome (By similarity).By similarity

GO - Molecular functioni

  1. U4 snRNA binding Source: GO_Central
  2. U6 snRNA binding Source: GO_Central

GO - Biological processi

  1. mRNA splicing, via spliceosome Source: MGI
Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Enzyme and pathway databases

ReactomeiREACT_260226. mRNA Splicing - Major Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
U4/U6 small nuclear ribonucleoprotein Prp4
Alternative name(s):
U4/U6 snRNP 60 kDa protein
WD splicing factor Prp4
Gene namesi
Name:Prpf4
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Chromosome 4

Organism-specific databases

MGIiMGI:1917302. Prpf4.

Subcellular locationi

Nucleus speckle By similarity
Note: Colocalizes with spliceosomal snRNPs.By similarity

GO - Cellular componenti

  1. Cajal body Source: MGI
  2. nuclear speck Source: UniProtKB-SubCell
  3. nucleus Source: MGI
  4. spliceosomal complex Source: UniProtKB-KW
  5. U4/U6 snRNP Source: MGI
  6. U4/U6 x U5 tri-snRNP complex Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 521521U4/U6 small nuclear ribonucleoprotein Prp4PRO_0000051150Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei26 – 261N6-acetyllysine1 Publication

Keywords - PTMi

Acetylation

Proteomic databases

MaxQBiQ9DAW6.
PaxDbiQ9DAW6.
PRIDEiQ9DAW6.

PTM databases

PhosphoSiteiQ9DAW6.

Expressioni

Gene expression databases

BgeeiQ9DAW6.
CleanExiMM_PRPF4.
ExpressionAtlasiQ9DAW6. baseline and differential.
GenevestigatoriQ9DAW6.

Interactioni

Subunit structurei

Interacts directly with PRPF18, PPIH and PRPF3. Part of a heteromeric complex containing PPIH, PRPF3 and PRPF4 that is stable in the absence of RNA. Component of the U4/U6-U5 tri-snRNP complex composed of the U4, U6 and U5 snRNAs and at least PRPF3, PRPF4, PRPF6, PRPF8, PRPF31, SNRNP200, TXNL4A, WDR57, SNRNP40, DDX23, CD2BP2, PPIH, NHP2L1, EFTUD2, SART1 and USP39 (By similarity).By similarity

Protein-protein interaction databases

BioGridi213838. 1 interaction.
IntActiQ9DAW6. 1 interaction.
MINTiMINT-4127974.
STRINGi10090.ENSMUSP00000081572.

Structurei

3D structure databases

ProteinModelPortaliQ9DAW6.
SMRiQ9DAW6. Positions 106-136, 238-519.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati228 – 26740WD 1Add
BLAST
Repeati270 – 31748WD 2Add
BLAST
Repeati320 – 35940WD 3Add
BLAST
Repeati362 – 40140WD 4Add
BLAST
Repeati404 – 44340WD 5Add
BLAST
Repeati446 – 48641WD 6Add
BLAST
Repeati489 – 52133WD 7Add
BLAST

Sequence similaritiesi

Contains 7 WD repeats.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, WD repeat

Phylogenomic databases

eggNOGiCOG2319.
GeneTreeiENSGT00770000120537.
HOGENOMiHOG000157615.
HOVERGENiHBG030892.
InParanoidiQ9DAW6.
KOiK12662.
OMAiCWDVRKV.
OrthoDBiEOG7P5T0Z.
PhylomeDBiQ9DAW6.
TreeFamiTF314922.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR020472. G-protein_beta_WD-40_rep.
IPR027106. Prp4.
IPR014906. PRP4-like.
IPR003648. SFM.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR019775. WD40_repeat_CS.
IPR017986. WD40_repeat_dom.
[Graphical view]
PANTHERiPTHR19846. PTHR19846. 1 hit.
PfamiPF08799. PRP4. 1 hit.
PF00400. WD40. 7 hits.
[Graphical view]
PRINTSiPR00320. GPROTEINBRPT.
SMARTiSM00500. SFM. 1 hit.
SM00320. WD40. 7 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS00678. WD_REPEATS_1. 2 hits.
PS50082. WD_REPEATS_2. 6 hits.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9DAW6-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MASSRASSTT TKTKAPDDLV APVVKKPHIY YGSLEEKERE RLAKGESGIL
60 70 80 90 100
GKEGLKAGIE AGNINITSGE VFEIEEHISE RQAEVLAEFE RRKRARQINV
110 120 130 140 150
STDDSEVKAC LRALGEPITL FGEGPAERRE RLRNILSVVG TDALKKTKKD
160 170 180 190 200
DEKSKKSKEE YQQTWYHEGP NSLKVARLWI ANYSLPRAMK RLEEARLHKE
210 220 230 240 250
IPETTRTSQM QELHKSLRSL NNFCSQIGDD RPISYCHFSP NSKMLATACW
260 270 280 290 300
SGLCKLWSVP DCSLLHTLRG HNTNVGAIVF HPKSTVSLDQ KDVNLASCAA
310 320 330 340 350
DGSVKLWSLD SDEPVADIEG HTVRVARVMW HPSGRFLGTT CYDRSWRLWD
360 370 380 390 400
LEAQEEILHQ EGHSMGVYDI AFHQDGSLAG TGGLDAFGRV WDLRTGRCIM
410 420 430 440 450
FLEGHLKEIY GINFSPNGYH IATGSGDNTC KVWDLRQRRC VYTIPAHQNL
460 470 480 490 500
VTGVKFEPIH GDFLLTGAYD NTAKIWTHPG WSPLKTLAGH EGKVMGLDIS
510 520
SDGQLIATCS YDRTFKLWMA E
Length:521
Mass (Da):58,370
Last modified:June 1, 2001 - v1
Checksum:iCDE80E76D591CC89
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK005464 mRNA. Translation: BAB24055.1.
AK089838 mRNA. Translation: BAC40976.1.
AK166912 mRNA. Translation: BAE39112.1.
AK167216 mRNA. Translation: BAE39342.1.
AK169532 mRNA. Translation: BAE41214.1.
BC106089 mRNA. Translation: AAI06090.1.
CCDSiCCDS18239.1.
RefSeqiNP_081573.1. NM_027297.3.
UniGeneiMm.30660.

Genome annotation databases

EnsembliENSMUST00000084524; ENSMUSP00000081572; ENSMUSG00000066148.
GeneIDi70052.
KEGGimmu:70052.
UCSCiuc008ter.1. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK005464 mRNA. Translation: BAB24055.1.
AK089838 mRNA. Translation: BAC40976.1.
AK166912 mRNA. Translation: BAE39112.1.
AK167216 mRNA. Translation: BAE39342.1.
AK169532 mRNA. Translation: BAE41214.1.
BC106089 mRNA. Translation: AAI06090.1.
CCDSiCCDS18239.1.
RefSeqiNP_081573.1. NM_027297.3.
UniGeneiMm.30660.

3D structure databases

ProteinModelPortaliQ9DAW6.
SMRiQ9DAW6. Positions 106-136, 238-519.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi213838. 1 interaction.
IntActiQ9DAW6. 1 interaction.
MINTiMINT-4127974.
STRINGi10090.ENSMUSP00000081572.

PTM databases

PhosphoSiteiQ9DAW6.

Proteomic databases

MaxQBiQ9DAW6.
PaxDbiQ9DAW6.
PRIDEiQ9DAW6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000084524; ENSMUSP00000081572; ENSMUSG00000066148.
GeneIDi70052.
KEGGimmu:70052.
UCSCiuc008ter.1. mouse.

Organism-specific databases

CTDi9128.
MGIiMGI:1917302. Prpf4.

Phylogenomic databases

eggNOGiCOG2319.
GeneTreeiENSGT00770000120537.
HOGENOMiHOG000157615.
HOVERGENiHBG030892.
InParanoidiQ9DAW6.
KOiK12662.
OMAiCWDVRKV.
OrthoDBiEOG7P5T0Z.
PhylomeDBiQ9DAW6.
TreeFamiTF314922.

Enzyme and pathway databases

ReactomeiREACT_260226. mRNA Splicing - Major Pathway.

Miscellaneous databases

ChiTaRSiPrpf4. mouse.
NextBioi330897.
PROiQ9DAW6.
SOURCEiSearch...

Gene expression databases

BgeeiQ9DAW6.
CleanExiMM_PRPF4.
ExpressionAtlasiQ9DAW6. baseline and differential.
GenevestigatoriQ9DAW6.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR020472. G-protein_beta_WD-40_rep.
IPR027106. Prp4.
IPR014906. PRP4-like.
IPR003648. SFM.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR019775. WD40_repeat_CS.
IPR017986. WD40_repeat_dom.
[Graphical view]
PANTHERiPTHR19846. PTHR19846. 1 hit.
PfamiPF08799. PRP4. 1 hit.
PF00400. WD40. 7 hits.
[Graphical view]
PRINTSiPR00320. GPROTEINBRPT.
SMARTiSM00500. SFM. 1 hit.
SM00320. WD40. 7 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS00678. WD_REPEATS_1. 2 hits.
PS50082. WD_REPEATS_2. 6 hits.
PS50294. WD_REPEATS_REGION. 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].
    Strain: C57BL/6J and NOD.
    Tissue: Placenta, Spleen and Thymus.
  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].
    Tissue: Placenta.
  3. "SIRT5-mediated lysine desuccinylation impacts diverse metabolic pathways."
    Park J., Chen Y., Tishkoff D.X., Peng C., Tan M., Dai L., Xie Z., Zhang Y., Zwaans B.M., Skinner M.E., Lombard D.B., Zhao Y.
    Mol. Cell 50:919-930(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-26, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Embryonic fibroblast.

Entry informationi

Entry nameiPRP4_MOUSE
AccessioniPrimary (citable) accession number: Q9DAW6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 10, 2006
Last sequence update: June 1, 2001
Last modified: February 4, 2015
This is version 114 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

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.