Structure of PDB 6nd4 Chain O Binding Site BS01

Receptor Information
>6nd4 Chain O (length=832) Species: 1247190 (Saccharomyces cerevisiae BY4741) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KSDFKFSNLLGTVYRQGNITFSDDGKQLLSPVGNRVSVFDLINNKSFTFE
YEHRKNIAAIDLNKQGTLLISIDEDGRAILVNFKARNVLHHFNFKEKCSA
VKFSPDGRLFALASGRFLQIWKTPDVNKDRQFAPFVRHRVHAGHFQDITS
LTWSQDSRFILTTSKDLSAKIWSVDSEEKNLAATTFNGHRDYVMGAFFSH
DQEKIYTVSKDGAVFVWEFTKRKYSWRITKKHFFYANQAKVKCVTFHPAT
RLLAVGFTSGEFRLYDLPDFTLIQQLSMGQNPVNTVSVNQTGEWLAFGSS
KLGQLLVYEWQSESYILKQQGHFDSTNSLAYSPDGSRVVTASEDGKIKVW
DITSGFCLATFEEHTSSVTAVQFAKRGQVMFSSSLDGTVRAWDLIRYRNF
RTFTGTERIQFNCLAVDPSGEVVCAGSLDNFDIHVWSVQTGQLLDALSGH
EGPVSCLSFSQENSVLASASWDKTIRIWSIFGRSQQVEPIEVYSDVLALS
MRPDGKEVAVSTLKGQISIFNIEDAKQVGNIDCRKDIISGRFNQDRFTAK
NSERSKFFTTIHYSFDGMAIVAGGNNNSICLYDVPNEVLLKRFIVSRNMA
LNGTLEFLNSKKMTEAGSLDLIDDAGENSDLEDRIDNSLPGSQRGGDLST
RKMRPEVRVTSVQFSPTANAFAAASTEGLLIYSTNDTILFDPFDLDVTPH
STVEALREKQFLNALVMAFRLNEEYLINKVYEAIPIKEIPLVASNIPAIY
LPRILKFIGDFAIESQHIEFNLIWIKALLSASGGYINEHKYLFSTAMRSI
QRFIVRVAKEVVNTTTDNKYTYRFLVSTDGSM
Ligand information
>6nd4 Chain 0 (length=408) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gaagacaagugcuugucguucguuaauggccucgucaaacgguggagaga
gucgcuaggugaucgucagaucugccuagucucuauacagcguguuuaau
ugacauggguugaugcguauugagagauauguuucuuuugcguuuaaccu
gaacagucucaucgugggcaucuuccauuggugagcagcgaaggauuugg
uggauuacuagcuaauagcaaucuauuucaaagaauucaaacuuggggga
augccuuguugaauauucuucaaguguaaccuccucucaaaucagcugau
uagaggaaacucaaagagugcuauggcggagugcgcuggucaagagugua
aaagcuuuuugaacagagagcauuuccgcagcagagauuucagcuguuuu
uuuuuuuu
<<<<<<<<<..>>>>>>.>>>............<<<<<<<<.<<...<<<
<..<<<<<<<.<<<....>>>..>>>>>>>>>>>...>>.>>>......>
>>>>..<<<<<<..<<<<<..<<<<<<<<>>>>>>>>.>>>>>.>>>>>>
.......<<<<<.<<<<.......>>>>..>>>>>...............
..........<<<...>>>.........................<<<<<.
..<<<<<<..<<<..>>>..>>>>.>>..>>>>>.....<<<<<..>>>>
>..........................<<<.<<<.<<<.<<<<<<<<...
...>>>>.>>>>.>>>...>>>..>>><<<<<.<<<..>>>.>>>>>...
........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6nd4 Conformational switches control early maturation of the eukaryotic small ribosomal subunit.
Resolution4.3 Å
Binding residue
(original residue number in PDB)		H92 A134 F136 A143 W173 S177 G189 W248 A258 N259 N631 S632
Binding residue
(residue number reindexed from 1)		H91 A133 F135 A142 W172 S176 G188 W226 A236 N237 N609 S610
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003729 mRNA binding
GO:0005515 protein binding
Biological Process
GO:0000028 ribosomal small subunit assembly
GO:0000447 endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0000472 endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0000480 endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0000920 septum digestion after cytokinesis
GO:0006364 rRNA processing
GO:0030010 establishment of cell polarity
GO:0030490 maturation of SSU-rRNA
GO:0042254 ribosome biogenesis
Cellular Component
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0030686 90S preribosome
GO:0032040 small-subunit processome
GO:0034388 Pwp2p-containing subcomplex of 90S preribosome
GO:1990904 ribonucleoprotein complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6nd4, PDBe:6nd4, PDBj:6nd4
PDBsum6nd4
PubMed31206356
UniProtP25635|PWP2_YEAST Periodic tryptophan protein 2 (Gene Name=PWP2)

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