Structure of PDB 5gap Chain F

Receptor sequence

>5gapF (length=415) Species: 4932 (Saccharomyces cerevisiae)

PFEILPESIELFRTLALISPDRLSLSETAQILPKIVDLKRILQQQEIDFI
KLLPFFNEIIPLIKSNIKLMHNFLISLYSRRFPELSSLIPSPLQYSKVIS
ILENENYSKNESDELFFHLENKAKLTREQILVLTMSMKTSFKNKEPLDIK
TRTQILEANSILENLWKLQEDIGQYIASKISIIAPNVCFLVGPEIAAQLI
AHAGGVLEFSRIPSCNIASIGKNKHLSHELHTLESGVRQEGYLFASDMIQ
KFPVSVHKQMLRMLCAKVSLAARVDAGQKNGDRNTVLAHKWKAELSKKAR
KLSEAPSISETKALPIPEDQPKKKRAGRKFRKYKEKFRLSHVRQLQNRME
FGKQEQTVLDSYGEEVGLGMSNTSLQQAVGATSGSRRSAGNQAKLTKVMK
HRISEANQQADEFLI

3D structure

• PDB: 5gap Cryo-EM structure of the yeast U4/U6.U5 tri-snRNP at 3.7 angstrom resolution.
• Chain: F
• Resolution: 3.6 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	rna	F	C257 N258 S261 K264 K266 H267 R280 Q281 K300 Q301 R304 A308 K309 K340 K343 P348 S351 K354 K365 R367 F372 Y375 K376 K378 F379 K436 T438 K439	C215 N216 S219 K222 K224 H225 R238 Q239 K258 Q259 R262 A266 K267 K298 K301 P306 S309 K312 K323 R325 F330 Y333 K334 K336 F337 K394 T396 K397
BS02	rna	F	K366 R367 A368 G369 R370 K371 R373	K324 R325 A326 G327 R328 K329 R331

Gene Ontology

Molecular Function

• GO:0003674 molecular_function
• GO:0003723 RNA binding

Biological Process

• GO:0000244 spliceosomal tri-snRNP complex assembly
• GO:0000387 spliceosomal snRNP assembly
• GO:0000398 mRNA splicing, via spliceosome
• GO:0006397 mRNA processing
• GO:0008380 RNA splicing

Cellular Component

• GO:0005634 nucleus
• GO:0005681 spliceosomal complex
• GO:0005687 U4 snRNP
• GO:0005739 mitochondrion
• GO:0046540 U4/U6 x U5 tri-snRNP complex
• GO:0071001 U4/U6 snRNP
• GO:0071011 precatalytic spliceosome
• GO:0097526 spliceosomal tri-snRNP complex

External links

• PDB: RCSB:5gap, PDBe:5gap, PDBj:5gap
• PDBsum: 5gap
• PubMed: 26829225
• UniProt: P49704|PRP31_YEAST Pre-mRNA-processing factor 31 (Gene Name=PRP31)