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Q80W14

- PR40B_MOUSE

UniProt

Q80W14 - PR40B_MOUSE

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Protein
Pre-mRNA-processing factor 40 homolog B
Gene
Prpf40b, Hypc
Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 3 out of 5 - Experimental evidence at transcript leveli

Functioni

May be involved in pre-mRNA splicing By similarity.

GO - Biological processi

  1. RNA splicing Source: UniProtKB-KW
  2. mRNA processing Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Names & Taxonomyi

Protein namesi
Recommended name:
Pre-mRNA-processing factor 40 homolog B
Alternative name(s):
Huntingtin yeast partner C
Huntingtin-interacting protein C
Gene namesi
Name:Prpf40b
Synonyms:Hypc
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Chromosome 15

Organism-specific databases

MGIiMGI:1925583. Prpf40b.

Subcellular locationi

Nucleus speckle By similarity

GO - Cellular componenti

  1. nuclear speck Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 870870Pre-mRNA-processing factor 40 homolog B
PRO_0000309283Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei148 – 1481N6-acetyllysine By similarity
Modified residuei764 – 7641Phosphoserine By similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

MaxQBiQ80W14.
PaxDbiQ80W14.
PRIDEiQ80W14.

PTM databases

PhosphoSiteiQ80W14.

Expressioni

Gene expression databases

ArrayExpressiQ80W14.
BgeeiQ80W14.
GenevestigatoriQ80W14.

Interactioni

Subunit structurei

Interacts with the N-terminus of HD By similarity.

Protein-protein interaction databases

IntActiQ80W14. 1 interaction.
MINTiMINT-4601260.

Structurei

3D structure databases

ProteinModelPortaliQ80W14.
SMRiQ80W14. Positions 80-173, 273-328, 626-690.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini92 – 12534WW 1
Add
BLAST
Domaini133 – 16634WW 2
Add
BLAST
Domaini276 – 33055FF 1
Add
BLAST
Domaini340 – 39758FF 2
Add
BLAST
Domaini410 – 47061FF 3
Add
BLAST
Domaini490 – 55061FF 4
Add
BLAST
Domaini554 – 61057FF 5
Add
BLAST
Domaini625 – 68258FF 6
Add
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili604 – 64037 Reviewed prediction
Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi3 – 7270Pro-rich
Add
BLAST

Sequence similaritiesi

Belongs to the PRPF40 family.
Contains 6 FF domains.
Contains 2 WW domains.

Keywords - Domaini

Coiled coil, Repeat

Phylogenomic databases

eggNOGiCOG5104.
GeneTreeiENSGT00740000115182.
HOGENOMiHOG000231802.
HOVERGENiHBG059634.
KOiK12821.
OrthoDBiEOG77Q4X2.
TreeFamiTF318732.

Family and domain databases

Gene3Di1.10.10.440. 4 hits.
InterProiIPR002713. FF_domain.
IPR001202. WW_dom.
[Graphical view]
PfamiPF01846. FF. 2 hits.
PF00397. WW. 2 hits.
[Graphical view]
SMARTiSM00441. FF. 4 hits.
SM00456. WW. 2 hits.
[Graphical view]
SUPFAMiSSF51045. SSF51045. 2 hits.
SSF81698. SSF81698. 5 hits.
PROSITEiPS51676. FF. 6 hits.
PS01159. WW_DOMAIN_1. 1 hit.
PS50020. WW_DOMAIN_2. 2 hits.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: Q80W14-1) [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

MMPPPFMPPP GLPPPFPPMG LPPMSQRPPA IPPMPPGILP PMLPPMGAPP    50
PLTQIPGMVP PMMPGMLMPA VPVTAATAPG ADTASSAVAG TGPPRALWSE 100
HVAPDGRIYY YNADDKQSVW EKPSVLKSKA ELLLSQCPWK EYKSDTGKPY 150
YYNNQSQESR WTRPKDLDDL EALVKQESAG KQQTQQLQTL QPQPPQPQPD 200
PPPIPPGPIP VPMALLEPEP GRSEDCDVLE AAQPLEQGFL QREEGPSSST 250
GQHRQPQEEE EAKPEPERSG LSWSNREKAK QAFKELLRDK AVPSNASWEQ 300
AMKMVVTDPR YSALPKLSEK KQAFNAYKAQ REKEEKEEAR LRAKEAKQTL 350
QHFLEQHERM TSTTRYRRAE QTFGDLEVWA VVPERERKEV YDDVLFFLAK 400
KEKEQAKQLR RRNIQALKSI LDGMSSVNFQ TTWSQAQQYL MDNPSFAQDQ 450
QLQNMDKEDA LICFEEHIRA LEREEEEERE RARLRERRQQ RKNREAFQSF 500
LDELHETGQL HSMSTWMELY PAVSTDVRFA NMLGQPGSTP LDLFKFYVEE 550
LKARFHDEKK IIKDILKDRG FCVEVNTAFE DFAHVISFDK RAAALDAGNI 600
KLTFNSLLEK AEARETEREK EEARRMRRRE AAFRSMLRQA VPALELGTAW 650
EEVRERFVCD SAFEQITLES ERIRLFREFL QVLEQTECQH LHTKGRKHGR 700
KGKKHHRKRS HSPSGSESDE EELPPPSLRP PKRRRRNPSE SGSEPSSSLD 750
SVESGGAALG GPGSPSSHLL LGSDHGLRKT KKPKKKTKKR RHKSTSPDSE 800
TDPEDKAGKE SEDREQEQDR EPRQAELPNR SPGFGIKKEK TGWDTSESEL 850
SEGELERRRR TLLQQLDDHQ 870
Length:870
Mass (Da):99,300
Last modified:November 13, 2007 - v2
Checksum:i4D0C2429AF35EAD7
GO
Isoform 2 (identifier: Q80W14-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     538-557: STPLDLFKFYVEELKARFHD → KAARLPLVCSAFLPCQPLWT
     558-870: Missing.

Show »
Length:557
Mass (Da):63,277
Checksum:i74DB650883C35523
GO
Isoform 3 (identifier: Q80W14-3) [UniParc]FASTAAdd to Basket

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

Show »
Length:873
Mass (Da):99,642
Checksum:iE3FD869C37279BFF
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei538 – 55720STPLD…ARFHD → KAARLPLVCSAFLPCQPLWT in isoform 2.
VSP_029122Add
BLAST
Alternative sequencei558 – 870313Missing in isoform 2.
VSP_029123Add
BLAST
Alternative sequencei685 – 6851Missing in isoform 3.
VSP_029124
Alternative sequencei714 – 7141S → SVSRQ in isoform 3.
VSP_029125

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti616 – 6161T → R in AAD39464. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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.
CCDSiCCDS27818.1. [Q80W14-3]
RefSeqiNP_061256.1. NM_018786.2.
UniGeneiMm.358668.

Genome annotation databases

EnsembliENSMUST00000145482; ENSMUSP00000115869; ENSMUSG00000023007.
GeneIDi54614.
KEGGimmu:54614.
UCSCiuc007xph.1. mouse. [Q80W14-3]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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 .
CCDSi CCDS27818.1. [Q80W14-3 ]
RefSeqi NP_061256.1. NM_018786.2.
UniGenei Mm.358668.

3D structure databases

ProteinModelPortali Q80W14.
SMRi Q80W14. Positions 80-173, 273-328, 626-690.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

IntActi Q80W14. 1 interaction.
MINTi MINT-4601260.

PTM databases

PhosphoSitei Q80W14.

Proteomic databases

MaxQBi Q80W14.
PaxDbi Q80W14.
PRIDEi Q80W14.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSMUST00000145482 ; ENSMUSP00000115869 ; ENSMUSG00000023007 .
GeneIDi 54614.
KEGGi mmu:54614.
UCSCi uc007xph.1. mouse. [Q80W14-3 ]

Organism-specific databases

CTDi 25766.
MGIi MGI:1925583. Prpf40b.

Phylogenomic databases

eggNOGi COG5104.
GeneTreei ENSGT00740000115182.
HOGENOMi HOG000231802.
HOVERGENi HBG059634.
KOi K12821.
OrthoDBi EOG77Q4X2.
TreeFami TF318732.

Miscellaneous databases

ChiTaRSi PRPF40B. mouse.
NextBioi 311428.
PROi Q80W14.
SOURCEi Search...

Gene expression databases

ArrayExpressi Q80W14.
Bgeei Q80W14.
Genevestigatori Q80W14.

Family and domain databases

Gene3Di 1.10.10.440. 4 hits.
InterProi IPR002713. FF_domain.
IPR001202. WW_dom.
[Graphical view ]
Pfami PF01846. FF. 2 hits.
PF00397. WW. 2 hits.
[Graphical view ]
SMARTi SM00441. FF. 4 hits.
SM00456. WW. 2 hits.
[Graphical view ]
SUPFAMi SSF51045. SSF51045. 2 hits.
SSF81698. SSF81698. 5 hits.
PROSITEi PS51676. FF. 6 hits.
PS01159. WW_DOMAIN_1. 1 hit.
PS50020. WW_DOMAIN_2. 2 hits.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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.
    , 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.

Entry informationi

Entry nameiPR40B_MOUSE
AccessioniPrimary (citable) accession number: Q80W14
Secondary accession number(s): Q5XKB4, Q9CS39, Q9WVC9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 13, 2007
Last sequence update: November 13, 2007
Last modified: July 9, 2014
This is version 79 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