Structure of PDB 6em3 Chain x Binding Site BS01

Receptor Information
>6em3 Chain x (length=267) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NKLKRQEIFADIKHEKNKERHTMRRKRAKEERENPELREQRLKENVTQTI
ENTRVYEDDLMRYFNSNSNEPPKIFLTTNVNAKKSAYEFANILIEILPNV
TFVKRKFGYKLKEISDICIKRNFTDIVIINEDKKKVTGLTFIHLPEGPTF
YFKLSSFVEHGRPTSHIPELILNNFQTRLGQTVGRLFQSILPQNPDIEGR
QVITLHNQRDYIFFRRHRYVFKDNERVGLQELGPQFTLKLKRLQRGIKEE
TEWEHKPEMDKEKKKFY
Ligand information
>6em3 Chain 1 (length=1250) [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
uuggcagagcuccacacagauggauacgaauaaggcguccuuguggcguc
gcugaaccauagcaggcuagcugcuggcgaauugcaaugcguggggauaa
..........................<<<<<<..................
.>>>>>.>...<.....<<....>>..<<<<<......<<.....>>...
..>>>>>..<<<...........<<.<<<<<<...>>>>>>.>>......
.......<<<<<<<.<<<<<<<<<<<<<<<<<<<<<....<<<<......
>>>>.(.......<<<......)>>>..>.>>>>>>>>..>>>>>>>>..
..>>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<
<<<<..>>>>>>..>>>....>............................
.<<....>>...............<<<......>>>..............
....................<<<<<.<<<<<<.....<<<<...<<<..<
<<<<<<<<.....>>>>>>>>>......>>>...>>>>..<<<<<<<.<<
<<<<<<<<<<<<<.....<<<<<<<<<....<.<<<<<......>>>>>>
......>>>>>>>>..>.>>>>>.>>>>>>>>>>........<<<....>
>>.....>>>>>>>....>>>>>>.>>>>>..<<<<........>>>><<
<<<<....<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>>>..
.<<....>>.......<<<<<..<<<<<....>>>>>...>>>>>.<<<<
<<<<.......>>>.>>>.>>....>>>>>>.>>>>>>..<<.<...<<<
<<<....>>>>>>......>.>>..<<<<<<......<<......>>..<
<<<<<<<<....<<<.<<<<<<<..>>>>>.>>>>>..>>>>>>>.>>..
<<<<.<<<<<.....>>>>>.>>>>....<<<......>>>...<<<<<<
<..<<<<(((.....<<<<<<......<..))).>....>>>>>>.>>>>
..>>>>>>><<<<<<<<<.........>>>>>>>>>....>>>>>><.<<
<<<<<<.<<......<<<<.<<<<....>>>>>>>>...>>>>>>>>>>.
.>.....>>>>>><<.....<<..>>....>>....<<<<<........>
>>>>.....<<<<<<......<<..........<<<<<<.....>>>>>>
......>>.......<<<<<<.>>>>>>............>>>>>>....
Receptor-Ligand Complex Structure
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PDB6em3 Visualizing the Assembly Pathway of Nucleolar Pre-60S Ribosomes.
Resolution3.2 Å
Binding residue
(original residue number in PDB)		H31 T32 V56
Binding residue
(residue number reindexed from 1)		H21 T22 V46
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0005515 protein binding
GO:0019843 rRNA binding
GO:0042134 rRNA primary transcript binding
Biological Process
GO:0000055 ribosomal large subunit export from nucleus
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:0006364 rRNA processing
GO:0042254 ribosome biogenesis
Cellular Component
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0030687 preribosome, large subunit precursor

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6em3, PDBe:6em3, PDBj:6em3
PDBsum6em3
PubMed29245012
UniProtP38805|RPF1_YEAST Ribosome production factor 1 (Gene Name=RPF1)

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