Structure of PDB 6em4 Chain 4 Binding Site BS01

Receptor Information
>6em4 Chain 4 (length=220) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NFVKQLSSNNRKTRVNALEALKKYLTAKQFKENKQIEFNKLWKGLYYAMW
FSDRPRPQQRLANELGELHGLYFDPKDNSTADELTTNDKAFIKFSRGFWK
VMCFEWFNIDRYRLDKYLLLIRRVLFSQLKYLQSRNWDKKLVDEYIKKVL
RWLPLSGSPKVYTGIPIHIVDILLDEWERLLAKKTPLADVIAIFQDIVAD
YNNSKVLREKIKEDLFSDTR
Ligand information
>6em4 Chain 1 (length=1556) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
guuugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaau
aagcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaa
gcggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguugua
auuuggagagggcaacuuuggggccguuccuugucuauguuccuuggaac
aggacgucauagagggugagaaucccguguggcgaggagugcgguucuuu
guaaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugg
gugguuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaagu
acagugauggaaagaugaaaagaacuuugaaaagagagugaaaaaguacg
ugaaauuguugaaagggaagggcauuugaucagacaugguguuuugugcc
cucugcuccuuguggguaggggaaucucgcauuucacugggccagcauca
guuuugguggcaggauaaauccauaggaauguagcuugccucgguaagua
uuauagccugugggaauacugccagcugggacugaggacugcgacguaag
ucaaggaugcuggcauaaugguuauaugccgcccgucuugaaacacggac
caaggagucuaacgucuaugcgaguguuuggguguaaaacccauacgcgu
aaugaaagugaacguagguuggggccucgcaagaggugcacaaucgaccg
auccugaggauggauuugaguaagagcauagcuguugggacccgaaagau
ggugaaaaccaucuaguagcugguuccugccgaaguuucccucaggauag
cagaagcucguaucaguuuuaugaauguaagaaugaagagcuuuuagugg
gccauuuuugguaagcagaacuggcgaugcgggaugaaccgaacguagag
uuaaggugccggaauacacgcucaucagauggcgcucaagcguguuaccu
auacucuaccgucaggguugauaugaugcccugacgaguaggcaggcgug
gaggucagugacgaagccuagaccguaaggucgggucgaacggccucuag
ugcagaucuuggugguaguagcaagcgaaaccacagccaagggaacgggc
uuggcagaaucagcuacugaugaauguuaccgcaauaguaauugaacuua
guacgagaggaacaguucauucggauaauugguuuuugcggcugucugau
caggcauugccgcgaagcuaccauccgcuggauuauggcugaacgccucu
aagucagaauccaugcuagaacgcggugaugcuccacacagauggauacg
aauaaggcguccuuguggcgucgcugaaccauagcaggcuagcaacggug
cacuuggcggaaaggccuugggugcuugcuggcgaauugcaaugcguggg
gauaaaucauuuguauacgacuuagauguacaacgggguauuguaagcag
uagaguagccuuguuguuacgaucugcugagauuaagccuuuguugucug
auuugu
..........................<<<<<<..................
.>>>>>.>...<.....<<....>>..<<<<<......<<.....>>...
..>>>>>..<<<...........<<.<<<<<<...>>>>>>.>>......
.......<<<<<<<.<<<<<<<<<<<<<<<<<<<<<....<<<<......
>>>>.(.......<<<......)>>>..>.>>>>>>>>..>>>>>>>>..
..>>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<
<<<<..>>>>>>..>>>....>............................
.<<....>>...............<<<......>>>..............
....................<<<<<.<<<<<<.....<<<<...<<<..<
<<<<<<<<.....>>>>>>>>>......>>>...>>>>..<<<<<<<.<<
<<<<<<<<<<<<<.....<<<<<<<<<....<.<<<<<......>>>>>>
......>>>>>>>>..>.>>>>>.>>>>>>>>>>........<<<....>
>>.....>>>>>>>....>>>>>>.>>>>>..<<<<........>>>><<
<<<<....<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>>>..
.<<....>>.......<<<<<..<<<<<....>>>>>...>>>>>.<<<<
<<<<.......>>>.>>>.>>....>>>>>>.>>>>>>..<<.<...<<<
<<<....>>>>>>......>.>>..<<<<<<......<<......>>..<
<<<<<<<<....<<<.<<<<<<<..>>>>>.>>>>>..>>>>>>>.>>..
<<<<.<<<<<.....>>>>>.>>>>....<<<......>>>...<<<<<<
<..<<<<(((.....<<<<<<.....<<..))).>>...>>>>>>.>>>>
..>>>>>>><<<<<<<<<.........>>>>>>>>>....>>>>>><.<<
<<<<<<.<<......<<<<.<<<<....>>>>>>>>...>>>>>>>>>>.
.>.....>>>>>><<.....<<..>>....>>....<<<<<........>
>>>>......<<<...>>>......<<<<<<<<..<<<<.<.<<<<<<..
.............>>>>>>.><<<<<...<<.<...<<<<<<<<<.....
...>>>..>>>>>>..>.>>..>>>>>.<<<<...<<<<<..........
.>>>>>...>>>>.>>>>....>>>>>>>>.<<<<<<......<<.....
.....<<<<<<.....>>>>>>......>>.......<<<<<<...<<<<
<.<..<<<......>>>..>.>>>>>.>>>>>>............>>>>>
>.<<<<<<.<.............>.....<<<<<<<<<.<<<....<<<<
....<<<<........>>>>...>>>>...>>>....>>>.>>>>>>..>
>>>>>.
Receptor-Ligand Complex Structure
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PDB6em4 Visualizing the Assembly Pathway of Nucleolar Pre-60S Ribosomes.
Resolution4.1 Å
Binding residue
(original residue number in PDB)		R58 P59 R60 P61
Binding residue
(residue number reindexed from 1)		R54 P55 R56 P57
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003674 molecular_function
GO:0005515 protein binding
Biological Process
GO:0006364 rRNA processing
Cellular Component
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0030687 preribosome, large subunit precursor
GO:0030688 preribosome, small subunit precursor

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6em4, PDBe:6em4, PDBj:6em4
PDBsum6em4
PubMed29245012
UniProtP35178|RRP1_YEAST Ribosomal RNA-processing protein 1 (Gene Name=RRP1)

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