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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

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

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 870870Pre-mRNA-processing factor 40 homolog BPRO_0000309283Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei148 – 1481N6-acetyllysineBy similarity
Modified residuei764 – 7641PhosphoserineBy similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

MaxQBiQ80W14.
PaxDbiQ80W14.
PRIDEiQ80W14.

PTM databases

PhosphoSiteiQ80W14.

Expressioni

Gene expression databases

BgeeiQ80W14.
ExpressionAtlasiQ80W14. baseline.
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.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

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

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili604 – 64037Sequence AnalysisAdd
BLAST

Compositional bias

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

Sequence similaritiesi

Belongs to the PRPF40 family.Curated
Contains 6 FF domains.Curated
Contains 2 WW domains.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil, Repeat

Phylogenomic databases

eggNOGiCOG5104.
GeneTreeiENSGT00740000115182.
HOGENOMiHOG000231802.
HOVERGENiHBG059634.
InParanoidiQ80W14.
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

        10         20         30         40         50
MMPPPFMPPP GLPPPFPPMG LPPMSQRPPA IPPMPPGILP PMLPPMGAPP
60 70 80 90 100
PLTQIPGMVP PMMPGMLMPA VPVTAATAPG ADTASSAVAG TGPPRALWSE
110 120 130 140 150
HVAPDGRIYY YNADDKQSVW EKPSVLKSKA ELLLSQCPWK EYKSDTGKPY
160 170 180 190 200
YYNNQSQESR WTRPKDLDDL EALVKQESAG KQQTQQLQTL QPQPPQPQPD
210 220 230 240 250
PPPIPPGPIP VPMALLEPEP GRSEDCDVLE AAQPLEQGFL QREEGPSSST
260 270 280 290 300
GQHRQPQEEE EAKPEPERSG LSWSNREKAK QAFKELLRDK AVPSNASWEQ
310 320 330 340 350
AMKMVVTDPR YSALPKLSEK KQAFNAYKAQ REKEEKEEAR LRAKEAKQTL
360 370 380 390 400
QHFLEQHERM TSTTRYRRAE QTFGDLEVWA VVPERERKEV YDDVLFFLAK
410 420 430 440 450
KEKEQAKQLR RRNIQALKSI LDGMSSVNFQ TTWSQAQQYL MDNPSFAQDQ
460 470 480 490 500
QLQNMDKEDA LICFEEHIRA LEREEEEERE RARLRERRQQ RKNREAFQSF
510 520 530 540 550
LDELHETGQL HSMSTWMELY PAVSTDVRFA NMLGQPGSTP LDLFKFYVEE
560 570 580 590 600
LKARFHDEKK IIKDILKDRG FCVEVNTAFE DFAHVISFDK RAAALDAGNI
610 620 630 640 650
KLTFNSLLEK AEARETEREK EEARRMRRRE AAFRSMLRQA VPALELGTAW
660 670 680 690 700
EEVRERFVCD SAFEQITLES ERIRLFREFL QVLEQTECQH LHTKGRKHGR
710 720 730 740 750
KGKKHHRKRS HSPSGSESDE EELPPPSLRP PKRRRRNPSE SGSEPSSSLD
760 770 780 790 800
SVESGGAALG GPGSPSSHLL LGSDHGLRKT KKPKKKTKKR RHKSTSPDSE
810 820 830 840 850
TDPEDKAGKE SEDREQEQDR EPRQAELPNR SPGFGIKKEK TGWDTSESEL
860 870
SEGELERRRR TLLQQLDDHQ
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

Experimental Info

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

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei538 – 55720STPLD…ARFHD → KAARLPLVCSAFLPCQPLWT in isoform 2. 2 PublicationsVSP_029122Add
BLAST
Alternative sequencei558 – 870313Missing in isoform 2. 2 PublicationsVSP_029123Add
BLAST
Alternative sequencei685 – 6851Missing in isoform 3. 1 PublicationVSP_029124
Alternative sequencei714 – 7141S → SVSRQ in isoform 3. 1 PublicationVSP_029125

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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.
InParanoidi Q80W14.
KOi K12821.
OrthoDBi EOG77Q4X2.
TreeFami TF318732.

Miscellaneous databases

NextBioi 311428.
PROi Q80W14.
SOURCEi Search...

Gene expression databases

Bgeei Q80W14.
ExpressionAtlasi Q80W14. baseline.
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: November 26, 2014
This is version 82 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