Structure of PDB 5ooq Chain A Binding Site BS01

Receptor Information
>5ooq Chain A (length=952) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MLADSFEQEASREVDASKGLTNSETLQVEQDGKVRLSHQVRHQVALPPNY
DYTPIAEHKRVTLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQ
SLKNKQRVIYTSPIKALSNQKYRELLAEFGDVGLMTGDITINPDAGCLVM
TTEILRSMLYRGSEVMREVAWVIFDEVHYMRDKERGVVWEETIILLPDKV
RYVFLSATIPNAMEFAEWICKIHSQPCHIVYTNFRPTPLQHYLFPAHGDG
IYLVVDEKSTFREENFQKAMASISGDIYKIVKMIWKKKYNPVIVFSFSKR
DCEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILPL
LRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFGLNMPAKTVVFT
SVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDRGIVIMMIDEKMEPQVAK
GMVKGQADRLDSAFHLGYNMILNLMRVEGISPEFMLEHSFFQFQNVISVP
VMEKKLAELKKDFDGIEVEDEENVKEYHEIEQAIKGYREDVRQVVTHPAN
ALSFLQPGRLVEISVNGKDNYGWGAVVDFAKRINKRNPSAVYTDHESYIV
NVVVNTMYIDSPVNLLKPFNPTLPEGIRPAEEGEKSICAVIPITLDSIKS
IGNLRLYMPKDIRASGQKETVGKSLREVNRRFPDGIPVLDPVKNMKIEDE
DFLKLMKKIDVLNTKLSSNPLTNSMRLEELYGKYSRKHDLHEDMKQLKRK
ISESQAVIQLDDLRRRKRVLRRLGFCTPNDIIELKGRVACEISSGDELLL
TELIFNGNFNELKPEQAAALLSCFAFQERCKEAPRLKPELAEPLKAMREI
AAKIAKIMKDSKIEVVEKDYVESFRHELMEVVYEWCRGATFTQICKMTDV
YEGSLIRMFKRLEELVKELVDVANTIGNSSLKEKMEAVLKLIHRDIVSAG
SL
Ligand information
>5ooq Chain C (length=12) Species: 559292 (Saccharomyces cerevisiae S288C) [Search peptide sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
ALFHVDVEGDEI
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB5ooq Structural insights into the interaction of the nuclear exosome helicase Mtr4 with the preribosomal protein Nop53.
Resolution3.2 Å
Binding residue
(original residue number in PDB)		S672 F673 Q675 N772 L773 R774 L775 Y776 N813
Binding residue
(residue number reindexed from 1)		S553 F554 Q556 N653 L654 R655 L656 Y657 N694
Enzymatic activity
Enzyme Commision number 3.6.4.13: RNA helicase.
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
GO:0003724 RNA helicase activity
GO:0003729 mRNA binding
GO:0003824 catalytic activity
GO:0004386 helicase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008143 poly(A) binding
GO:0016491 oxidoreductase activity
GO:0016787 hydrolase activity
GO:0016887 ATP hydrolysis activity
GO:0034458 3'-5' RNA helicase activity
Biological Process
GO:0000292 RNA fragment catabolic process
GO:0000460 maturation of 5.8S rRNA
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:0006397 mRNA processing
GO:0006401 RNA catabolic process
GO:0016075 rRNA catabolic process
GO:0034475 U4 snRNA 3'-end processing
GO:0034476 U5 snRNA 3'-end processing
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:0071042 nuclear polyadenylation-dependent mRNA catabolic process
GO:0071051 poly(A)-dependent snoRNA 3'-end processing
Cellular Component
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0031499 TRAMP complex

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Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5ooq, PDBe:5ooq, PDBj:5ooq
PDBsum5ooq
PubMed28883156
UniProtP47047|MTR4_YEAST ATP-dependent RNA helicase DOB1 (Gene Name=MTR4)

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