Protein: Pre-mRNA-processing protein PRP40 (P33203)
Organism: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Function: Required for pre-spliceosome formation, which is the first step of pre-mRNA splicing. This protein is associated with snRNP U1. Two commitment complexes, CC1 and CC2, have been defined in yeast. CC1 is a basal complex dependent only on the 5' splice site. CC2 is a complex of lower mobility and is dependent on a branchpoint as well as a 5' splice site region. This protein is involved in CC2 formation where it binds to the branchpoint binding protein MSL5, bridging the U1 snRNP-associated 5' splice site and the MSL5-associated branch point 3' intron splice site.
Subcellular location: Nucleus {ECO:0000269|PubMed:15020406}.
Sequence: MSIWKEAKDASGRIYYYNTLTKKSTWEKPKELISQEELLLRENGWKAAKTADGKVYYYNPTTRETSWTIPAFEKKVEPIAEQKHDTVSHAQVNGNRIALTAGEKQEPGRTINEEESQYANNSKLLNVRRRTKEEAEKEFITMLKENQVDSTWSFSRIISELGTRDPRYWMVDDDPLWKKEMFEKYLSNRSADQLLKEHNETSKFKEAFQKMLQNNSHIKYYTRWPTAKRLIADEPIYKHSVVNEKTKRQTFQDYIDTLIDTQKESKKKLKTQALKELREYLNGIITTSSSETFITWQQLLNHYVFDKSKRYMANRHFKVLTHEDVLNEYLKIVNTIENDLQNKLNELRLRNYTRDRIARDNFKSLLREVPIKIKANTRWSDIYPHIKSDPRFLHMLGRNGSSCLDLFLDFVDEQRMYIFAQRSIAQQTLIDQNFEWNDADSDEITKQNIEKVLENDRKFDKVDKEDISLIVDGLIKQRNEKIQQKLQNERRILEQKKHYFWLLLQRTYTKTGKPKPSTWDLASKELGESLEYKALGDEDNIRRQIFEDFKPESSAPTAESATANLTLTASKKRHLTPAVELDY
InterPro domains: - IPR036517: FF domain superfamily (homologous_superfamily) [131-552]
- IPR001202: WW domain (domain) [1-72]
- IPR002713: FF domain (domain) [132-552]
- IPR039726: Pre-mRNA-processing factor Prp40 (family) [3-542]
- IPR036020: WW domain superfamily (homologous_superfamily) [3-71]
Interaction partners: - Protein NAM8
- Nuclear cap-binding protein subunit 2
- Small nuclear ribonucleoprotein E
- U1 small nuclear ribonucleoprotein component PRP42
- 56 kDa U1 small nuclear ribonucleoprotein component
- U1 small nuclear ribonucleoprotein C
- U1 small nuclear ribonucleoprotein component SNU71
- Small nuclear ribonucleoprotein Sm D1
- U2 small nuclear ribonucleoprotein A'
- Protein LUC7
Gene Ontology annotations:
Molecular Function (MF): GO:0003674 (molecular function), GO:0005488 (binding), GO:0005515 (protein binding), GO:0070064 (proline-rich region binding)
Biological Process (BP): GO:0008150 (biological process), GO:0008152 (metabolic process), GO:0009987 (cellular process), GO:0044237 (cellular metabolic process), GO:0006807 (nitrogen compound metabolic process), GO:0071840 (cellular component organization or biogenesis), GO:0071704 (organic substance metabolic process), GO:0044238 (primary metabolic process), GO:1901360 (organic cyclic compound metabolic process), GO:0044085 (cellular component biogenesis), GO:0006139 (nucleobase-containing compound metabolic process), GO:0046483 (heterocycle metabolic process), GO:0016043 (cellular component organization), GO:0006725 (cellular aromatic compound metabolic process), GO:0034641 (cellular nitrogen compound metabolic process), GO:0043170 (macromolecule metabolic process), GO:0090304 (nucleic acid metabolic process), GO:0022613 (ribonucleoprotein complex biogenesis), GO:0043933 (protein-containing complex organization), GO:0010467 (gene expression), GO:0022607 (cellular component assembly), GO:0016070 (RNA metabolic process), GO:0022618 (ribonucleoprotein complex assembly), GO:0065003 (protein-containing complex assembly), GO:0006396 (RNA processing), GO:0071826 (ribonucleoprotein complex subunit organization), GO:0008380 (RNA splicing), GO:0000245 (spliceosomal complex assembly), GO:0006397 (mRNA processing), GO:0016071 (mRNA metabolic process), GO:0000398 (mRNA splicing, via spliceosome), GO:0000375 (RNA splicing, via transesterification reactions), GO:0000377 (RNA splicing, via transesterification reactions with bulged adenosine as nucleophile)
Cellular Component (CC): GO:0005575 (cellular component), GO:0032991 (protein-containing complex), GO:0110165 (cellular anatomical entity), GO:1990904 (ribonucleoprotein complex), GO:0005622 (intracellular anatomical structure), GO:0043226 (organelle), GO:0140513 (nuclear protein-containing complex), GO:0005681 (spliceosomal complex), GO:0043229 (intracellular organelle), GO:0043227 (membrane-bounded organelle), GO:0043231 (intracellular membrane-bounded organelle), GO:0071010 (prespliceosome), GO:0005684 (U2-type spliceosomal complex), GO:0071004 (U2-type prespliceosome), GO:0005634 (nucleus)