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Q80W14 (PR40B_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Last modified March 19, 2014. Version 76. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Pre-mRNA-processing factor 40 homolog B
Alternative name(s):
Huntingtin yeast partner C
Huntingtin-interacting protein C
Gene names
Name:Prpf40b
Synonyms:Hypc
OrganismMus musculus (Mouse) [Reference proteome]
Taxonomic identifier10090 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus

Protein attributes

Sequence length870 AA.
Sequence statusComplete.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

May be involved in pre-mRNA splicing By similarity.

Subunit structure

Interacts with the N-terminus of HD By similarity.

Subcellular location

Nucleus speckle By similarity.

Sequence similarities

Belongs to the PRPF40 family.

Contains 6 FF domains.

Contains 2 WW domains.

Ontologies

Keywords
   Biological processmRNA processing
mRNA splicing
   Cellular componentNucleus
   Coding sequence diversityAlternative splicing
   DomainCoiled coil
Repeat
   PTMAcetylation
Phosphoprotein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processRNA splicing

Inferred from electronic annotation. Source: UniProtKB-KW

mRNA processing

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular_componentnuclear speck

Inferred from electronic annotation. Source: UniProtKB-SubCell

Complete GO annotation...

Alternative products

This entry describes 3 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q80W14-1)

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.
Isoform 2 (identifier: Q80W14-2)

The sequence of this isoform differs from the canonical sequence as follows:
     538-557: STPLDLFKFYVEELKARFHD → KAARLPLVCSAFLPCQPLWT
     558-870: Missing.
Isoform 3 (identifier: Q80W14-3)

The sequence of this isoform differs from the canonical sequence as follows:
     685-685: Missing.
     714-714: S → SVSRQ

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 870870Pre-mRNA-processing factor 40 homolog B
PRO_0000309283

Regions

Domain92 – 12534WW 1
Domain133 – 16634WW 2
Domain276 – 33055FF 1
Domain340 – 39758FF 2
Domain410 – 47061FF 3
Domain490 – 55061FF 4
Domain554 – 61057FF 5
Domain625 – 68258FF 6
Coiled coil604 – 64037 Potential
Compositional bias3 – 7270Pro-rich

Amino acid modifications

Modified residue1481N6-acetyllysine By similarity
Modified residue7641Phosphoserine By similarity

Natural variations

Alternative sequence538 – 55720STPLD…ARFHD → KAARLPLVCSAFLPCQPLWT in isoform 2.
VSP_029122
Alternative sequence558 – 870313Missing in isoform 2.
VSP_029123
Alternative sequence6851Missing in isoform 3.
VSP_029124
Alternative sequence7141S → SVSRQ in isoform 3.
VSP_029125

Experimental info

Sequence conflict6161T → R in AAD39464. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified November 13, 2007. Version 2.
Checksum: 4D0C2429AF35EAD7

FASTA87099,300
        10         20         30         40         50         60 
MMPPPFMPPP GLPPPFPPMG LPPMSQRPPA IPPMPPGILP PMLPPMGAPP PLTQIPGMVP 

        70         80         90        100        110        120 
PMMPGMLMPA VPVTAATAPG ADTASSAVAG TGPPRALWSE HVAPDGRIYY YNADDKQSVW 

       130        140        150        160        170        180 
EKPSVLKSKA ELLLSQCPWK EYKSDTGKPY YYNNQSQESR WTRPKDLDDL EALVKQESAG 

       190        200        210        220        230        240 
KQQTQQLQTL QPQPPQPQPD PPPIPPGPIP VPMALLEPEP GRSEDCDVLE AAQPLEQGFL 

       250        260        270        280        290        300 
QREEGPSSST GQHRQPQEEE EAKPEPERSG LSWSNREKAK QAFKELLRDK AVPSNASWEQ 

       310        320        330        340        350        360 
AMKMVVTDPR YSALPKLSEK KQAFNAYKAQ REKEEKEEAR LRAKEAKQTL QHFLEQHERM 

       370        380        390        400        410        420 
TSTTRYRRAE QTFGDLEVWA VVPERERKEV YDDVLFFLAK KEKEQAKQLR RRNIQALKSI 

       430        440        450        460        470        480 
LDGMSSVNFQ TTWSQAQQYL MDNPSFAQDQ QLQNMDKEDA LICFEEHIRA LEREEEEERE 

       490        500        510        520        530        540 
RARLRERRQQ RKNREAFQSF LDELHETGQL HSMSTWMELY PAVSTDVRFA NMLGQPGSTP 

       550        560        570        580        590        600 
LDLFKFYVEE LKARFHDEKK IIKDILKDRG FCVEVNTAFE DFAHVISFDK RAAALDAGNI 

       610        620        630        640        650        660 
KLTFNSLLEK AEARETEREK EEARRMRRRE AAFRSMLRQA VPALELGTAW EEVRERFVCD 

       670        680        690        700        710        720 
SAFEQITLES ERIRLFREFL QVLEQTECQH LHTKGRKHGR KGKKHHRKRS HSPSGSESDE 

       730        740        750        760        770        780 
EELPPPSLRP PKRRRRNPSE SGSEPSSSLD SVESGGAALG GPGSPSSHLL LGSDHGLRKT 

       790        800        810        820        830        840 
KKPKKKTKKR RHKSTSPDSE TDPEDKAGKE SEDREQEQDR EPRQAELPNR SPGFGIKKEK 

       850        860        870 
TGWDTSESEL SEGELERRRR TLLQQLDDHQ 

« Hide

Isoform 2 [UniParc].

Checksum: 74DB650883C35523
Show »

FASTA55763,277
Isoform 3 [UniParc].

Checksum: E3FD869C37279BFF
Show »

FASTA87399,642

References

« Hide 'large scale' references
[1]"FBP11, a mammalian ortholog of the essential yeast splicing factor PRP40."
Bedford M.T., Das R., Reed R., Leder P.
Submitted (MAR-1999) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3).
[2]"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. expand/collapse author list , 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] (ISOFORM 2), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 777-870 (ISOFORM 1/3).
Strain: C57BL/6J.
Tissue: Corpora quadrigemina and Embryo.
[3]"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] (ISOFORMS 1 AND 2).
Strain: C57BL/6.
Tissue: Brain and Embryo.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF135440 mRNA. Translation: AAD39464.1.
AK019183 mRNA. Translation: BAB31591.1.
AK140075 mRNA. Translation: BAE24230.1.
BC051961 mRNA. Translation: AAH51961.1.
BC082994 mRNA. Translation: AAH82994.1.
RefSeqNP_061256.1. NM_018786.2.
UniGeneMm.358668.

3D structure databases

ProteinModelPortalQ80W14.
SMRQ80W14. Positions 93-172, 273-328, 345-382, 415-446, 480-608, 626-690.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

IntActQ80W14. 1 interaction.
MINTMINT-4601260.

PTM databases

PhosphoSiteQ80W14.

Proteomic databases

PaxDbQ80W14.
PRIDEQ80W14.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSMUST00000145482; ENSMUSP00000115869; ENSMUSG00000023007.
GeneID54614.
KEGGmmu:54614.
UCSCuc007xph.1. mouse. [Q80W14-3]

Organism-specific databases

CTD25766.
MGIMGI:1925583. Prpf40b.

Phylogenomic databases

eggNOGCOG5104.
GeneTreeENSGT00740000115182.
HOGENOMHOG000231802.
HOVERGENHBG059634.
KOK12821.
OrthoDBEOG77Q4X2.
TreeFamTF318732.

Gene expression databases

ArrayExpressQ80W14.
BgeeQ80W14.
GenevestigatorQ80W14.

Family and domain databases

Gene3D1.10.10.440. 4 hits.
InterProIPR002713. FF_domain.
IPR001202. WW_dom.
[Graphical view]
PfamPF01846. FF. 2 hits.
PF00397. WW. 2 hits.
[Graphical view]
SMARTSM00441. FF. 4 hits.
SM00456. WW. 2 hits.
[Graphical view]
SUPFAMSSF51045. SSF51045. 2 hits.
SSF81698. SSF81698. 5 hits.
PROSITEPS51676. FF. 6 hits.
PS01159. WW_DOMAIN_1. 1 hit.
PS50020. WW_DOMAIN_2. 2 hits.
[Graphical view]
ProtoNetSearch...

Other

ChiTaRSPRPF40B. mouse.
NextBio311428.
PROQ80W14.
SOURCESearch...

Entry information

Entry namePR40B_MOUSE
AccessionPrimary (citable) accession number: Q80W14
Secondary accession number(s): Q5XKB4, Q9CS39, Q9WVC9
Entry history
Integrated into UniProtKB/Swiss-Prot: November 13, 2007
Last sequence update: November 13, 2007
Last modified: March 19, 2014
This is version 76 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

MGD cross-references

Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot