Structure of PDB 7d4i Chain B1 Binding Site BS01

Receptor Information
>7d4i Chain B1 (length=791) Species: 559292 (Saccharomyces cerevisiae S288C) [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
LNGTLEFLNMRPEVRVTSVQFSPTANAFAAASTEGLLIYSTNDTILFDPF
DLDVDVTPHSTVEALREKQFLNALVMAFRLNEEYLINKVYEAIPIKEIPL
VASNIPAIYLPRILKFIGDFAIESQHIEFNLIWIKALLSASGGYINEHKY
LFSTAMRSIQRFIVRVAKEVVNTTTDNKYTYRFLVSTDGSM
Ligand information
>7d4i Chain SA (length=1337) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
aagauaguuaucugguugauccugccaguagucauaugcuugucucaaag
auuaagccaugcaugucuaaguauaagcaauuuauacagugaaacugcga
aaaaucaguuaucguuuauuugauaguuccuuuacuacaugguauaacug
ugguaauucuagagcuaauacaugcuuaaaaucucgacccuuuggaagag
auguauuuauuagagucuucggacucuuugaugauucauaauaacuuuuc
gaaucgcauggccuugugcuggcgaugguucauucaaauuucugcccuau
caacuuucgaugguaggauaguggccuaccaugguuucaacgggagcagg
cgcgcaaauuacccaauccuaauucagggagguagugacaauaaauaacg
auacagggcccauucgggucuuguaauuggaaugaguacaauguaaauac
cuuaacgaggaacaauuggagggcaagucuggugccagcagccgcgguaa
uuccagcuccaauagcguauauuaagcucguaguugaacugggcccgguu
ggccgguccgauuuucgugacuggccaacggggccuuuccuucugguuua
cuuugaaaaaauuagaguguucaaagcaggcguauugcucgaauauauua
gcauggaauaauagaauaggguuugguucuaucuaggaccaugauuaaua
gggacggucgggggcaucaguauucaauugucagaggugaaauucuugga
uuuauugaagacuaacuacugcgaaagcauuugccaaggacguuuucauu
aaucaagaacguagggaucgggugguguuuuuuuaaugacccacucggca
ccuuggaguauggucgcaaggcugaaacuuaaaggaauugacggaagggc
accaccaggaguggagccugcggcucaacacggggaaacucaccaggucc
agacacaauaaggauugacauucuugauuuugugggugguggugcauuga
ugcccuuguucugggcccgcgcgcuacacugacggagccagcgagucuaa
ccuuggccgagaggucuuggaaacuccgucgugcuggggauagagcauug
uaauuauugcucuucaacgaggaauuccuaguaagcgcaagucaucagcu
ugcguugauuacgucccugcccuuuguacacaccgcccgucgcuaguacc
gauugaauggcuuagugaggccucaggaucugcuuagagaagggggcaac
uccaucucagagcggagaauuuggacaaacuuggucauuuagaggaacua
aauuccguaggugaaccugcggaaggaucauuaaaga
.................................<<<<<<...<.<.....
.....<<<.<<<..<<....<<.....................>>.>>..
.....<<<..<<..<<....<<<..................<.....<<.
<<<.....>>>.>>......>.........<<<<<..<<....>>..>>>
>><...<<<<<<..<<<<..>>>>..............>>>>>>.....>
...<<<<..<<<.....>>>.>>>>....>>>...>>>>..>>>.<<<..
..<<<....<<<<<<<<.......>>>>>>>>>>>......>>>.>>>>>
>.........<<<....<<<.....>>>..>>>.......>.>.....<<
.<<<<..<<<<....>>>>..>>>>..>>......<<..<..........
.>..>>.........<<<<<<.......<<<....>>>............
......>>>>>>..>>>>>>.....<.<<...<<<.<<...<<<<<.<<<
<<<<<<<<<<<...>>>.>>>>>>>>>>>.>>>>>............<<<
<<.<<...........<<.......>>.<<<.....>>>...........
.>>.>>..>>>............<..<.......>..>......>>....
<<<<<<.<<...<<<<..<<..<<<<<<.<...<<<......>>>.....
.>.>>>>>>..>>.......<<....>>...>>>>..>.>>>>.>>>...
>>>...>>.>..<<<..<<<<<<<<.<<..........>>>>>>>>>>..
>>>..................<<.........>>.....<<<<<<<<<<<
<..<<.<<<<<<..<<<.<<<<.......................<<...
...<<<<<.....................>>>>>......<<<.......
.>>>.....>>......>>>>.>>>.....<<<<<<<.............
<<..<<<<....>>>>..>>...>>>>>>>......<....<<<<<<...
.......>>>>>>....>.....>>>>>>....<<<<<<<.........>
>>>>>>......>>...>>>>>>>............>>>>>..<<<<.<<
....<<<<<<<<.<<<....<<..........<<<.<<<..<<<......
>>>..>>>.>>>..........>>....>>>.>>>>>>>>...>>.>>>>
..<<<<<<<<<....>>>>>>>>>.............
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7d4i Cryo-EM structure of 90S small ribosomal precursors complex with Dhr1
Resolution4.0 Å
Binding residue
(original residue number in PDB)		V401 D415 R418 F422 R423 R505
Binding residue
(residue number reindexed from 1)		V379 D393 R396 F400 R401 R483
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

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:7d4i, PDBe:7d4i, PDBj:7d4i
PDBsum7d4i
PubMed
UniProtP25635|PWP2_YEAST Periodic tryptophan protein 2 (Gene Name=PWP2)

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