Structure of PDB 5vsu Chain A

Receptor sequence

>5vsuA (length=387) Species: 559292 (Saccharomyces cerevisiae S288C)

TSKKANEALTRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADS
LKKNFRFARIEFARYDGALAAITKTHKVVGQNEIIVSHLTECTLWMTNFP
PSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCV
EKLNGLKIEGYTLVTKVSNPLEKSKRTDSATLEGREIMIRNLSTELLDEN
LLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNRS
LLGNREISVSLADKKPFLERNEVKRLLASRNSKELETLICLFPLSDKVSP
SLICQFLQEEIHINEKDIRKILLVSDFNGAIIIFRDSKFAAKMLMILNGS
QFQGKVIRSGTINDMKRYYNNQQMSNDDFRKMFLGEL

3D structure

• PDB: 5vsu Architecture of the U6 snRNP reveals specific recognition of 3'-end processed U6 snRNA.
• Chain: A
• Resolution: 3.1 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	A	N31 T35 R38 W120 T122 N123 R148 S151 R153 F154 S157 R158 R159 F160 Y162 Y186 N194 P195 K198 K200 R201 T202 T206 E211 M213 R215 N216 K239 N241 Q246 F251 N252 N253 F257 R274 S283 D288 K289 K290 F292 L293 R295 N296 K299 R300 R305	N6 T10 R13 W95 T97 N98 R123 S126 R128 F129 S132 R133 R134 F135 Y137 Y161 N169 P170 K173 K175 R176 T177 T181 E186 M188 R190 N191 K214 N216 Q221 F226 N227 N228 F232 R249 S258 D263 K264 K265 F267 L268 R270 N271 K274 R275 R280

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003723 RNA binding
• GO:0005515 protein binding
• GO:0017069 snRNA binding
• GO:0017070 U6 snRNA binding

Biological Process

• GO:0000244 spliceosomal tri-snRNP complex assembly
• GO:0000245 spliceosomal complex 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:0005688 U6 snRNP
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5vsu, PDBe:5vsu, PDBj:5vsu
• PDBsum: 5vsu
• PubMed: 29717126
• UniProt: P49960|PRP24_YEAST U4/U6 snRNA-associated-splicing factor PRP24 (Gene Name=PRP24)