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Protein

Pre-mRNA-splicing factor PRP9

Gene

PRP9

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

mRNA splicing factors, PRP9, PRP11, and PRP21, are necessary for binding of the U2 snRNP to the pre-mRNA in an early step of spliceosome assembly.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri280 – 31031Matrin-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri421 – 45232Matrin-type 2PROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  • RNA binding Source: SGD
  • zinc ion binding Source: InterPro

GO - Biological processi

  • mRNA 5'-splice site recognition Source: GO_Central
  • mRNA splicing, via spliceosome Source: SGD
Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

BioCyciYEAST:G3O-29456-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Pre-mRNA-splicing factor PRP9
Gene namesi
Name:PRP9
Ordered Locus Names:YDL030W
ORF Names:D2773
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome IV

Organism-specific databases

EuPathDBiFungiDB:YDL030W.
SGDiS000002188. PRP9.

Subcellular locationi

GO - Cellular componenti

  • U2-type prespliceosome Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 530530Pre-mRNA-splicing factor PRP9PRO_0000174321Add
BLAST

Proteomic databases

MaxQBiP19736.

Interactioni

Subunit structurei

Belongs to the CWC complex (or CEF1-associated complex), a spliceosome sub-complex reminiscent of a late-stage spliceosome composed of the U2, U5 and U6 snRNAs and at least BUD13, BUD31, BRR2, CDC40, CEF1, CLF1, CUS1, CWC2, CWC15, CWC21, CWC22, CWC23, CWC24, CWC25, CWC27, ECM2, HSH155, IST3, ISY1, LEA1, MSL1, NTC20, PRP8, PRP9, PRP11, PRP19, PRP21, PRP22, PRP45, PRP46, SLU7, SMB1, SMD1, SMD2, SMD3, SMX2, SMX3, SNT309, SNU114, SPP2, SYF1, SYF2, RSE1 and YJU2.1 Publication

Protein-protein interaction databases

BioGridi32026. 58 interactions.
DIPiDIP-651N.
IntActiP19736. 21 interactions.
MINTiMINT-506158.

Structurei

Secondary structure

1
530
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi3 – 2725Combined sources
Helixi30 – 4011Combined sources
Helixi51 – 566Combined sources
Beta strandi58 – 614Combined sources
Helixi69 – 9628Combined sources
Helixi113 – 12210Combined sources
Helixi137 – 1437Combined sources
Beta strandi149 – 1546Combined sources
Helixi159 – 1613Combined sources
Helixi166 – 1683Combined sources
Turni172 – 1787Combined sources
Helixi183 – 19311Combined sources
Helixi200 – 2089Combined sources
Helixi209 – 2113Combined sources
Beta strandi212 – 2143Combined sources
Helixi215 – 2184Combined sources
Helixi227 – 24721Combined sources
Helixi253 – 26614Combined sources
Helixi268 – 2703Combined sources
Turni276 – 2783Combined sources
Turni283 – 2864Combined sources
Beta strandi289 – 2913Combined sources
Helixi292 – 2965Combined sources
Beta strandi299 – 3013Combined sources
Helixi302 – 3109Combined sources
Helixi312 – 32716Combined sources
Helixi329 – 34315Combined sources
Helixi347 – 36115Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4DGWX-ray3.11A1-389[»]
ProteinModelPortaliP19736.
SMRiP19736. Positions 1-378.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the SF3A3 family.Curated
Contains 2 matrin-type zinc fingers.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri280 – 31031Matrin-type 1PROSITE-ProRule annotationAdd
BLAST
Zinc fingeri421 – 45232Matrin-type 2PROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Repeat, Zinc-finger

Phylogenomic databases

GeneTreeiENSGT00530000063402.
HOGENOMiHOG000160935.
InParanoidiP19736.
KOiK12827.
OMAiYWLYKLQ.
OrthoDBiEOG751NSD.

Family and domain databases

InterProiIPR024598. DUF3449.
IPR031590. PRP9_N.
IPR031776. SF3A3.
IPR031774. SF3A3_dom.
IPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR022755. Znf_C2H2_jaz.
IPR000690. Znf_C2H2_matrin.
IPR003604. Znf_U1.
[Graphical view]
PANTHERiPTHR12786:SF2. PTHR12786:SF2. 2 hits.
PfamiPF11931. DUF3449. 1 hit.
PF16958. PRP9_N. 1 hit.
PF16837. SF3A3. 1 hit.
PF12171. zf-C2H2_jaz. 1 hit.
[Graphical view]
SMARTiSM00355. ZnF_C2H2. 2 hits.
SM00451. ZnF_U1. 2 hits.
[Graphical view]
PROSITEiPS50171. ZF_MATRIN. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P19736-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNLLETRRSL LEEMEIIENA IAERIQRNPE LYYHYIQESS KVFPDTKLPR
60 70 80 90 100
SSLIAENKIY KFKKVKRKRK QIILQQHEIN IFLRDYQEKQ QTFNKINRPE
110 120 130 140 150
ETQEDDKDLP NFERKLQQLE KELKNEDENF ELDINSKKDK YALFSSSSDP
160 170 180 190 200
SRRTNILSDR ARDLDLNEIF TRDEQYGEYM ELEQFHSLWL NVIKRGDCSL
210 220 230 240 250
LQFLDILELF LDDEKYLLTP PMDRKNDRYM AFLLKLSKYV ETFFFKSYAL
260 270 280 290 300
LDAAAVENLI KSDFEHSYCR GSLRSEAKGI YCPFCSRWFK TSSVFESHLV
310 320 330 340 350
GKIHKKNESK RRNFVYSEYK LHRYLKYLND EFSRTRSFVE RKLAFTANER
360 370 380 390 400
MAEMDILTQK YEAPAYDSTE KEGAEQVDGE QRDGQLQEEH LSGKSFDMPL
410 420 430 440 450
GPDGLPMPYW LYKLHGLDRE YRCEICSNKV YNGRRTFERH FNEERHIYHL
460 470 480 490 500
RCLGIEPSSV FKGITKIKEA QELWKNMQGQ SQLTSIAAVP PKPNPSQLKV
510 520 530
PTELELEEED EEGNVMSKKV YDELKKQGLV
Length:530
Mass (Da):63,029
Last modified:February 1, 1991 - v1
Checksum:i9020885E620488F3
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X53466 Genomic DNA. Translation: CAA37560.1.
Z71781 Genomic DNA. Translation: CAA96459.1.
Z74078 Genomic DNA. Translation: CAA98589.1.
BK006938 Genomic DNA. Translation: DAA11822.1.
PIRiS12320.
RefSeqiNP_010254.1. NM_001180089.1.

Genome annotation databases

EnsemblFungiiYDL030W; YDL030W; YDL030W.
GeneIDi851531.
KEGGisce:YDL030W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X53466 Genomic DNA. Translation: CAA37560.1.
Z71781 Genomic DNA. Translation: CAA96459.1.
Z74078 Genomic DNA. Translation: CAA98589.1.
BK006938 Genomic DNA. Translation: DAA11822.1.
PIRiS12320.
RefSeqiNP_010254.1. NM_001180089.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4DGWX-ray3.11A1-389[»]
ProteinModelPortaliP19736.
SMRiP19736. Positions 1-378.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi32026. 58 interactions.
DIPiDIP-651N.
IntActiP19736. 21 interactions.
MINTiMINT-506158.

Proteomic databases

MaxQBiP19736.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYDL030W; YDL030W; YDL030W.
GeneIDi851531.
KEGGisce:YDL030W.

Organism-specific databases

EuPathDBiFungiDB:YDL030W.
SGDiS000002188. PRP9.

Phylogenomic databases

GeneTreeiENSGT00530000063402.
HOGENOMiHOG000160935.
InParanoidiP19736.
KOiK12827.
OMAiYWLYKLQ.
OrthoDBiEOG751NSD.

Enzyme and pathway databases

BioCyciYEAST:G3O-29456-MONOMER.

Miscellaneous databases

PROiP19736.

Family and domain databases

InterProiIPR024598. DUF3449.
IPR031590. PRP9_N.
IPR031776. SF3A3.
IPR031774. SF3A3_dom.
IPR007087. Znf_C2H2.
IPR015880. Znf_C2H2-like.
IPR022755. Znf_C2H2_jaz.
IPR000690. Znf_C2H2_matrin.
IPR003604. Znf_U1.
[Graphical view]
PANTHERiPTHR12786:SF2. PTHR12786:SF2. 2 hits.
PfamiPF11931. DUF3449. 1 hit.
PF16958. PRP9_N. 1 hit.
PF16837. SF3A3. 1 hit.
PF12171. zf-C2H2_jaz. 1 hit.
[Graphical view]
SMARTiSM00355. ZnF_C2H2. 2 hits.
SM00451. ZnF_U1. 2 hits.
[Graphical view]
PROSITEiPS50171. ZF_MATRIN. 2 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The molecular characterization of PRP6 and PRP9 yeast genes reveals a new cysteine/histidine motif common to several splicing factors."
    Legrain P., Choulika A.
    EMBO J. 9:2775-2781(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: S288c / GRF88.
  2. "The nucleotide sequence of Saccharomyces cerevisiae chromosome IV."
    Jacq C., Alt-Moerbe J., Andre B., Arnold W., Bahr A., Ballesta J.P.G., Bargues M., Baron L., Becker A., Biteau N., Bloecker H., Blugeon C., Boskovic J., Brandt P., Brueckner M., Buitrago M.J., Coster F., Delaveau T.
    , del Rey F., Dujon B., Eide L.G., Garcia-Cantalejo J.M., Goffeau A., Gomez-Peris A., Granotier C., Hanemann V., Hankeln T., Hoheisel J.D., Jaeger W., Jimenez A., Jonniaux J.-L., Kraemer C., Kuester H., Laamanen P., Legros Y., Louis E.J., Moeller-Rieker S., Monnet A., Moro M., Mueller-Auer S., Nussbaumer B., Paricio N., Paulin L., Perea J., Perez-Alonso M., Perez-Ortin J.E., Pohl T.M., Prydz H., Purnelle B., Rasmussen S.W., Remacha M.A., Revuelta J.L., Rieger M., Salom D., Saluz H.P., Saiz J.E., Saren A.-M., Schaefer M., Scharfe M., Schmidt E.R., Schneider C., Scholler P., Schwarz S., Soler-Mira A., Urrestarazu L.A., Verhasselt P., Vissers S., Voet M., Volckaert G., Wagner G., Wambutt R., Wedler E., Wedler H., Woelfl S., Harris D.E., Bowman S., Brown D., Churcher C.M., Connor R., Dedman K., Gentles S., Hamlin N., Hunt S., Jones L., McDonald S., Murphy L.D., Niblett D., Odell C., Oliver K., Rajandream M.A., Richards C., Shore L., Walsh S.V., Barrell B.G., Dietrich F.S., Mulligan J.T., Allen E., Araujo R., Aviles E., Berno A., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Hunicke-Smith S., Hyman R.W., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Oefner P., Oh C., Petel F.X., Roberts D., Schramm S., Schroeder M., Shogren T., Shroff N., Winant A., Yelton M.A., Botstein D., Davis R.W., Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Du Z., Favello A., Fulton L., Gattung S., Greco T., Hallsworth K., Hawkins J., Hillier L.W., Jier M., Johnson D., Johnston L., Kirsten J., Kucaba T., Langston Y., Latreille P., Le T., Mardis E., Menezes S., Miller N., Nhan M., Pauley A., Peluso D., Rifkin L., Riles L., Taich A., Trevaskis E., Vignati D., Wilcox L., Wohldman P., Vaudin M., Wilson R., Waterston R., Albermann K., Hani J., Heumann K., Kleine K., Mewes H.-W., Zollner A., Zaccaria P.
    Nature 387:75-78(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. "Proteomics analysis reveals stable multiprotein complexes in both fission and budding yeasts containing Myb-related Cdc5p/Cef1p, novel pre-mRNA splicing factors, and snRNAs."
    Ohi M.D., Link A.J., Ren L., Jennings J.L., McDonald W.H., Gould K.L.
    Mol. Cell. Biol. 22:2011-2024(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION IN THE CWC COMPLEX, IDENTIFICATION BY MASS SPECTROMETRY.
  5. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiPRP9_YEAST
AccessioniPrimary (citable) accession number: P19736
Secondary accession number(s): D6VRW2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1991
Last sequence update: February 1, 1991
Last modified: July 6, 2016
This is version 131 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 3920 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome IV
    Yeast (Saccharomyces cerevisiae) chromosome IV: entries and gene names

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 one 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.