Structure of PDB 6c0f Chain D Binding Site BS01

Receptor Information
>6c0f Chain D (length=190) Species: 1247190 (Saccharomyces cerevisiae BY4741) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SDEIVWQVINQSFCSHRIKAPNGQNFCRNEYNVTGLCTRQSCPLANSKYA
TVKCDNGKLYLYMKTPERAHTPAKLWERIKLSKNYTKALQQIDEHLLHWS
KFFRHKCKQRFTKLTQVMITERRLALREEERHYVGVAPKVKRREQNRERK
ALVAAKIEKAIEKELMDRLKSGAYGDKPLNVDEKVWKKIM
Ligand information
>6c0f Chain 1 (length=1357) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
guuugaccucaaaucagguaggaguacccgcugaaaagcggaggaaaaga
aaccaaccgggauugccuuaguaacggcgagugaagcggcaaaagcucaa
auuugaaaucugguaccuucggugcccgaguuguaauuuggagagggcaa
cuuuggggccguuccuugucuauguuccuuggaacaggacgucauagagg
gugagaaucccguguggcgaggagugcgguucuuuguaaagugccuucga
agagucgaguuguuuugcagcucuaagugggugguaaauuccaucuaaag
cuaaauauuggcgagagaccgauagcgaacaaguacagugauggaaagau
gaaaagaacuuugaaaagagagugaaaaaguacgugaaauuguugaaagg
gaagggcauuugaucagacaugguguuuugugcccucugcuccuuguggg
uaggggaaucucgcauuucacugggccagcaucaguuuugguggcaggau
aaauccauaggaauguagcuugccucgguaaguauuauagccugugggaa
uacugccagcugggacugaggacugcgacguaagucaaggaugcuggcau
aaugguuauaugccgcggaccaaggagucuaacgucuaugcgaguguuug
gguguaaaacccauacgcguagguuggggccucgcaagaggugcacaauc
gaccgauccugaugucuucggauggauuugaguaagagcauagcuguugg
gacccugguuccugccgaagaacguagaguuaaggugccggaauacacgc
ucaucagaggcgcucaagcguguuaccuauacucuaccgucaggguugau
augaugcccugacgaguaggcaggcguggaggucagugacgaagccuaga
ccguaaggucgggucgaacggccucuagugcagaucuuggugguaguagc
aaauugauagaauaaucuagcgaaaccaauguuaccgcaauaguaauuga
acuuaguacgagaggaacaguucauucggauaauugguuuuugcggcugu
gcauugccgcgaagcuaccauccgcuggauuauggcugaacgccucuaag
ucagaauccaugcuagaacgcggugaucuccacacaauauagauggauac
gaauaaggcguccuuguggcgucgcugaaccauagcaggcuagcaacggu
gcacuuggcggaaaggccuugggugcuugcuggcgaauugcaauggcgug
gggauaaaucauuuguauacgacuuagauguacaacgggguauuguaagc
aguagaguagccuuguuguuacgaucugcugagauuaagccuuuguuguc
ugauuug
..........................<<<<<<....>>>>>.>.......
..<<....>>..<<<<<......<<.....>>.....>>>>>..<<<..<
........<<.<<<<<<...>>>>>>.>>........>....<<<<<<<.
<<<.<<<<<<<<<<<<<<<<<....<<<<......>>>>.(.......<<
<......)>>>..>.>>>>>>>>>..>>>>>>>.....>>>>>>>>>>..
......<<<<<<<...>>>>>>>.....<<<<<<......>>>>>>..>>
>..................................<<....>>.......
........<<<......>>>..............................
....<<<<<.<<<<<<.....<<<<...<<<<.<<<<<<<<<.....>>>
>>>>>>.....>>>>...>>>>..<<<<<<<.<<<<<<<<<<<<<<<...
..<<<<<<<<<......<<<<<<....>>>>>>.......>>>>>>>>..
>.>>>>>.>>>>>>>>>>........<<<....>>>.....>>>>>>>..
..>>>>>>.>>>>>....<<<<<<....<<<<<<.<<<<<<..<<<...<
<<<.....>>>>...>>>...<<<<<..<<<<<....>>>>>...>>>>>
.<<<<<<<<...<......>...>>>>.>>.>>....>>>>>>.>>>>>>
..<<..>>..<<<<<<.......<<<<<<<..<<<<(((.....<<<<<<
.....<<.))).>>...>>>>>>.>>>>..>>>>>>><<<<<<<<<....
.....>>>>>>>>>....>>>>>>..<<<<<<<<.<<......<<<<.<<
<<....>>>>>>>>...>>>>>>>>>>........>>>>>><<.....<.
.......<<<<....>>>>.>....>>....<<<<<<<..<<<<...<<<
<<<...............>>>>>>..<<<<<...<<<<<<<.<<<<<.<.
.>...>>>>>>>>>>>>..>>>>>.<<<<...<<<<<...........>>
>>>...>>>>.>>>>....>>>>>>>.<<<<<<.<.........<<....
......<<<<<<.....>>>>>>......>>.......<<<<<<...<<<
<<.<..<<<......>>>..>.>>>>>.>>>>>>...........>.>>>
>>>.<<<<<<.<.............>.....<<<<<<<<<.<<<....<<
<<.<..<<<<<......>>>>>..>>>>>...>>>....>>>>.>>>>>.
.>>>>>>
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB6c0f Modular assembly of the nucleolar pre-60S ribosomal subunit.
Resolution3.7 Å
Binding residue
(original residue number in PDB)		W7 N11 Q12 F14 Q25 N26 R29 C38 T39 R40 Q41 Y61 K75 W77 R79 I80 K81 K84 N85 H96 H106 R123 R124 R128 R132 Y134 P139 K140 K142 R143 N147
Binding residue
(residue number reindexed from 1)		W6 N10 Q11 F13 Q24 N25 R28 C37 T38 R39 Q40 Y60 K74 W76 R78 I79 K80 K83 N84 H95 H105 R122 R123 R127 R131 Y133 P138 K139 K141 R142 N146
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003674 molecular_function
GO:0005515 protein binding
Biological Process
GO:0000460 maturation of 5.8S rRNA
GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0000466 maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
GO:0000470 maturation of LSU-rRNA
GO:0042273 ribosomal large subunit biogenesis
Cellular Component
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0030687 preribosome, large subunit precursor

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Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6c0f, PDBe:6c0f, PDBj:6c0f
PDBsum6c0f
PubMed29512650
UniProtP10962|MAK16_YEAST Protein MAK16 (Gene Name=MAK16)

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