Structure of PDB 5vzj Chain G Binding Site BS01

Receptor Information
>5vzj Chain G (length=236) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
HMSTFIFPGDSFPVDPTTPVKLGPGIYCDPNTQEIRPVNTGVLHVSAKGK
GVQTAYIDYSSKRYIPSVNDFVIGVIIGTFSDSYKVSLQNFSSSVSLSYM
AFPNASKKNRPTLQVGDLVYARVCTAEKELEAEIECFDSTTGRDAGFGIL
EDGMIIDVNLNFARQLLFNNDFPLLKVLAAHTKFEVAIGLNGKIWVKCEE
LSNTLACYRTIMECCQKNDTAAFKDIAKRQFKEILT
Ligand information
>5vzj Chain L (length=29) Species: 559292 (Saccharomyces cerevisiae S288C) [Search peptide sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
PNLIISNVGYSELRKPEGVISGRKTFGDN
Receptor-Ligand Complex Structure
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PDB5vzj Structure and reconstitution of yeast Mpp6-nuclear exosome complexes reveals that Mpp6 stimulates RNA decay and recruits the Mtr4 helicase.
Resolution3.3 Å
Binding residue
(original residue number in PDB)		P15 P18 V19 L21 G22 P23 Y56 N69 Y120 G146 L150 R164 L167 F168 L175 A179 K183 F184 E185 V186
Binding residue
(residue number reindexed from 1)		P16 P19 V20 L22 G23 P24 Y56 N69 Y120 G146 L150 R164 L167 F168 L175 A179 K183 F184 E185 V186
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0030145 manganese ion binding
Biological Process
GO:0000288 nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay
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:0000956 nuclear-transcribed mRNA catabolic process
GO:0006364 rRNA processing
GO:0006396 RNA processing
GO:0006401 RNA catabolic process
GO:0034475 U4 snRNA 3'-end processing
GO:0071034 CUT catabolic process
GO:0071035 nuclear polyadenylation-dependent rRNA catabolic process
GO:0071038 TRAMP-dependent tRNA surveillance pathway
GO:0071051 poly(A)-dependent snoRNA 3'-end processing
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

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5vzj, PDBe:5vzj, PDBj:5vzj
PDBsum5vzj
PubMed28742025
UniProtQ08285|RRP40_YEAST Exosome complex component RRP40 (Gene Name=RRP40)

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