Structure of PDB 8qcf Chain K Binding Site BS01

Receptor Information
>8qcf Chain K (length=915) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
RRKRLADGLSVTQKVFVRSRNGGATKIVREHYLRSDIPCLSRSCTKCPQI
VVPDAQNELPKFILSDSPLELSAPIGKHYVVLDTNVVLQAIDLLENPNCF
FDVIVPQIVLDEVRNKSYPVYTRLRTLCRDSDDHKRFIVFHNEFSEHTFV
ERLPNETINDRNDRAIRKTCQWYSEHLKPYDINVVLVTNDRNIITKSLVQ
YIELLPNADDIRDSIPQTFPEYYSTARVMGGLKNGVLYQGNIQISEYNFL
EGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKAISDKQRRL
LAKDAMIAQRSKKIQPTAKVVYIQRRSWRQYVGQLAPSSVDPQSSSTQNV
FVILMDKCLPKVRIRTRRAAELLDKRIVISIDSWPTTHKYPLGHFVRDLG
TIESAQAEEALLLEHDVEYRPFSKKVLECLPAEGHDWKAPTKLDDPEAVS
KDPLLTKRKDLRDKLICSIDPPGCVDIDDALHAKKLPNGNWEVGVHIADV
THFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLLGTDLCSLKPYVDRFA
FSVIWELDDSANIVNVNFMKSVIRSREAFSYEQAQLRIDDKTQNDELTMG
MRALLKLSVKLKQKRLEAGALNLASPEVKVHMDSEEVEIKKLLATNSLVE
EFMLLANISVARKIYDAFPQTAMLRRHAAPPSTNFEILNEMLNTRKNMSI
SLESSKALADSLDRCVDPEDPYFNTLVRIMSTRCMMAAQYFYSGAYSYPD
FRHYGLAVDIYTHFTSPIRRYCDVVAHRQLAGAIGYEPLSLTHRDKNKMD
MICRNINRKHRNAQFAGRASIEYYVGQVMRNNESTETGYVIKVFNNGIVV
LVPKFGVEGLIRLDNLTEDPNSAAFDEVEYKLTFVPTNSDKPRDVYVFDK
VEVQVRSVMDELLLK
Ligand information
>8qcf Chain N (length=34) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uuuuuuuuuuuuuuuuuuuuuuuuuuuuuuuuuu
..................................
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB8qcf Concerted structural rearrangements enable RNA channeling into the cytoplasmic Ski238-Ski7-exosome assembly.
Resolution2.55 Å
Binding residue
(original residue number in PDB)		D543 C547 D549 D551 Y595 Y654 E728 R753 T810 R811 H841 T843 R847 R889 R896
Binding residue
(residue number reindexed from 1)		D470 C474 D476 D478 Y522 Y581 E650 R675 T732 R733 H763 T765 R769 R811 R818
Enzymatic activity
Enzyme Commision number 3.1.13.-
3.1.26.-
Gene Ontology
Molecular Function
GO:0000049 tRNA binding
GO:0000175 3'-5'-RNA exonuclease activity
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0004519 endonuclease activity
GO:0004521 RNA endonuclease activity
GO:0004527 exonuclease activity
GO:0004540 RNA nuclease activity
GO:0005515 protein binding
Biological Process
GO:0000467 exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0006364 rRNA processing
GO:0006396 RNA processing
GO:0006397 mRNA processing
GO:0006401 RNA catabolic process
GO:0016075 rRNA catabolic process
GO:0043628 regulatory ncRNA 3'-end processing
GO:0070651 nonfunctional rRNA decay
GO:0071028 nuclear mRNA surveillance
GO:0071031 nuclear mRNA surveillance of mRNA 3'-end processing
GO:0071035 nuclear polyadenylation-dependent rRNA catabolic process
GO:0071038 TRAMP-dependent tRNA surveillance pathway
GO:0071039 nuclear polyadenylation-dependent CUT catabolic process
Cellular Component
GO:0000176 nuclear exosome (RNase complex)
GO:0000177 cytoplasmic exosome (RNase complex)
GO:0000178 exosome (RNase complex)
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005739 mitochondrion

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8qcf, PDBe:8qcf, PDBj:8qcf
PDBsum8qcf
PubMed37879335
UniProtQ08162|RRP44_YEAST Exosome complex exonuclease DIS3 (Gene Name=DIS3)

[Back to BioLiP]