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PRP40 Prp40p [ Saccharomyces cerevisiae S288C ]

Gene ID: 853857, updated on 2-Nov-2024

Summary

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Official Symbol
PRP40
Official Full Name
Prp40p
Primary source
SGD:S000001495
Locus tag
YKL012W
See related
AllianceGenome:SGD:S000001495; FungiDB:YKL012W; VEuPathDB:YKL012W
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Saccharomyces cerevisiae S288C (strain: S288C)
Lineage
Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
Summary
Enables RNA binding activity. Involved in mRNA splicing, via spliceosome. Located in nucleus. Part of U1 snRNP and U2-type prespliceosome. Orthologous to human PRPF40A (pre-mRNA processing factor 40 homolog A) and PRPF40B (pre-mRNA processing factor 40 homolog B). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See PRP40 in Genome Data Viewer
Location:
chromosome: XI
Exon count:
1
Sequence:
Chromosome: XI; NC_001143.9 (418310..420061)

Chromosome XI - NC_001143.9Genomic Context describing neighboring genes Neighboring gene Urb1p Neighboring gene Arc19p Neighboring gene cruciform cutting endonuclease Neighboring gene putative ubiquitin-protein ligase UFD4

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_001143.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Identification of Prp40, a novel essential yeast splicing factor associated with the U1 small nuclear ribonucleoprotein particle. Kao HY, et al. Mol Cell Biol, 1996 Mar. PMID 8622699, Free PMC Article
  2. Solution structure of the fourth FF domain of yeast Prp40 splicing factor. Bonet R, et al. Proteins, 2009 Dec. PMID 19722265
  3. Prp40 and early events in splice site definition. Becerra S, et al. Wiley Interdiscip Rev RNA, 2016 Jan-Feb. PMID 26494226
  4. WWP, a new amino acid motif present in single or multiple copies in various proteins including dystrophin and the SH3-binding Yes-associated protein YAP65. André B, et al. Biochem Biophys Res Commun, 1994 Dec 15. PMID 7802651
  5. The structure of Prp40 FF1 domain and its interaction with the crn-TPR1 motif of Clf1 gives a new insight into the binding mode of FF domains. Gasch A, et al. J Biol Chem, 2006 Jan 6. PMID 16253993

See all (71) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Prp40 and early events in splice site definition
    Title: Prp40 and early events in splice site definition.
  2. Cloned and produced constructs corresponding to the FF2, FF3, and FF4 domains. Of these, only the constructs corresponding to FF4 gave a folded and stable sample.
    Title: Solution structure of the fourth FF domain of yeast Prp40 splicing factor.
  3. The C-terminal 2 FF domains of Prp40 are dispensable; deletion of additional FF domains is lethal; The first FF domain of Prp40 binds to U1 protein Luc7 and domains 2 and 3 bind to Snu71, another known U1 protein.
    Title: The FF domains of yeast U1 snRNP protein Prp40 mediate interactions with Luc7 and Snu71.
  4. at least two different interaction surfaces exist in FF domains that have evolved to recognize distinct binding motifs
    Title: The structure of Prp40 FF1 domain and its interaction with the crn-TPR1 motif of Clf1 gives a new insight into the binding mode of FF domains.
Submit: New GeneRIF Correction

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by SGD

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in RNA splicing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA cis splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in mRNA splicing, via spliceosome IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
part_of U1 snRNP IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of U1 snRNP IDA
Inferred from Direct Assay
more info
 PubMed 
part_of U2-type prespliceosome IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of U2-type prespliceosome IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IMP
Inferred from Mutant Phenotype
more info
 PubMed 
part_of ribonucleoprotein complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
Prp40p
NP_012913.3
  • U1 snRNP protein involved in splicing; interacts with the branchpoint-binding protein during the formation of the second commitment complex

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NC_001143.9 Reference assembly

    Range
    418310..420061
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001179578.3 → NP_012913.3  TPA: Prp40p [Saccharomyces cerevisiae S288C]

    See identical proteins and their annotated locations for NP_012913.3

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    D6VXS4, P33203
    UniProtKB/TrEMBL
    A6ZZV3, C7GRH1, G2WI19, N1P7Z4
    Conserved Domains (1) summary
    COG5104
    Location:1 → 583
    PRP40; Splicing factor [RNA processing and modification]
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P33203.1

Gene LinkOut

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