Structure of PDB 6em5 Chain s Binding Site BS01

Receptor Information

>6em5 Chain s (length=36) Species: 559292 (Saccharomyces cerevisiae S288C)

MRVRKRQSRRTSTKLKEGIKKKASAHRKKEKKMAKK

Ligand information

>6em5 Chain 1 (length=2438)

guuugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaau
aagcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaa
gcggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguugua
auuuggagagggcaacuuuggggccguuccuugucuauguuccuuggaac
aggacgucauagagggugagaaucccguguggcgaggagugcgguucuuu
guaaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugg
gugguuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaagu
acagugauggaaagaugaaaagaacuuugaaaagagagugaaaaaguacg
ugaaauuguugaaagggaagggcauuugaucagacaggccagcaucaguu
uugguggcaggauaaauccauaggaauguagcuugccucgguaaguauua
uagccugugggaauacugccagcugggacugaggacugcgacguaaguca
aggaugcuggcauaaugguuauaugccgcccgucuugaaacacggaccaa
ggagucuaacgucuaugcgaguguuuggguguaaaacccauacgcguaau
gaaagugaacguagguuggggccucgcaagaggugcacaaucgaccgauc
cugaggauggauuugaguaagagcauagcuguugggacccgaaagauggu
gaacuaugccugaauagggugaagccagaggaaacucugguggaggcucg
guucugacgugcaaaucgaucgucgaauuuggguauaggggcgaaagacu
aaaaccaucuaguagcugguuccugccgaaguuucccucaggauagcaga
agcucguaucaguuuuaugaauguaagaaugaagagcuuuuagugggcca
uuuuugguaagcagaacuggcgaugcgggaugaaccgaacguagaguuaa
ggugccggaauacacgcucaucagacaccacaaaagguguuaguucaucu
agacagccggacgguggccauggaagucggaauccgcuaaggagugugua
acaacucaccggccgaaugaacuagcccugaaaauggauggcgcucaagc
guguuaccuauacucuaccgucaggguugauaugaugcccugacgaguag
gcaggcguggaggucagugacgaagccuagaccguaaggucgggucgaac
ggccucuagugcagaucuuggugguaguagcaaauauucaaaugagaacu
uugaagacugaaguggggaaagguuccacgucaacagcaguuggacgugg
guuagucgauccuaagagauggggaagcuccguuucaaaggccugauuuu
augcaggccaccaucgaaagggaauccgguuaagauuccggaaccuggau
auggauucuucacgguaacguaacugaauguggagacgucggcgcgagcc
cugggaggaguuaucuuuucuucuuaacagcuuaucaccccggaauuggu
uuauccggagauggggucuuauggcuggaagaggccagcaccuuugcugg
cuccggugcgcuugugacggcccgugaaaauccacaggaaggaauaguuu
ucaugccaggucguacugaggucuccaaggugaacagccucuaguugaua
gaauaauguagauaagggaagucggagggucggacgaucaacuuagggaa
ucugaacgagauucccacugucccuaucuacuaucuagcgaaaccacagc
caagggaacgggcuuggcagaaucagcggggacccuguugagcuugacuc
uaguuugacauuauugucagguggggaguaaaguuaccacagggauaacu
ggcuuguggcagucaagcguucauagcgacauugcucggcucuuccuauc
auaccgaagcagaauucgguaagcguuggauuguucacccacuaauaggg
aacgugagcuggguuuagaccgucgugagacagguuaguuuuacccuacu
gaugaauguuaccgcaauaguaauugaacuuaguacgagaggaacaguuc
auucggauaauugguuuuugcggcugucugaucaggcauugccgcgaagc
uaccauccgcuggauuauggcugaacgccucuaagucagaauccaugcua
gaacgcggugaugcuccacacagauggauacgaauaaggcguccuugugg
cgucgcugaaccauagcaggcuagcaacggugcacuuggcggaaaggccu
ugggugcuugcuggcgaauugcaaugcguggggauaaaucauuuguauac
gacuuagauguacaacgggguauuguaagcaguagaguagccuuguuguu
acgaucugcugagauuaagccuuuguugucugauuugu

..........................<<<<<<.....<......>.....
.>>>>>.>...<.....<<....>>..<<<<<......<<.....>>...
..>>>>>..<<<..<........<<.<<<<<<...>>>>>>.>>......
..>....<<<<<<<.<<<<<<<<<<<<<<<<<<<<<....<<<<......
>>>>.(.......<<<......)>>>..>.>>>>>>>>..>>>>>>>>..
..>>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<
<<<<..>>>>>>..>>>....>............................
.<<....>>...............<<<<....>>>>..............
....................<<<<<.<<<<<<.....<<<<<<<.<<<<<
<<<<<<<<<<.....<<<<<<<<<......<<<<<<....>>>>>>....
...>>>>>>>.>.>.>>>>>.>>>>>>>>>>........<<<....>>>.
....>>>>>>>....>>>>>>.>>>>>..<<<<.<....>.>>>><<<<<
<...<<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>>>...<<
....>>.......<<<<<..<<<<<....>>>>>...>>>>>.<<.<<<<
<.......>>>.>>..>>....>>>>>>.>>>>>>>.<<.<..<<<<<<<
...<<<<<<<<<....<<<....<<<<<<<....>>>>>>>.....>>>.
<.<<.<<........>>>>.>........>>>>>>>>>.<<<....>.>>
...>>>>>>>.....>.>>..<<<<<<....<............><<<<<
<<<<....<<<.<<<<<<<..>>>>>.>>>>>..>>>>>>>.>>..<<<<
.<<<<<.....>>>>>.>>>>....<<<......>>>...<<<<<<<..<
<<<(((.....<<<<<<.....<<..........<<<.<<<<<<<<<<..
.....<<<<<.<<....<<.........>>....>>.........<<...
...>>...>>>>>...>>>>>>>>>>>>>..........))).>>...>>
>>>>.>>>>..>>>>>>><<<<<<<<<.........>>>>>>>>>....>
>>>>><.<<<<<<<<.<<......<<<<.<<<<....>>>>>>>>...>>
>>>>>>>>..>.....>>>>>><<.....<<.....<<<<<<.......>
>>>>><<<<.....<<<<<.<<...<<<<<<...<<.....>>.>>>>>>
....((<<<<<<...<<....<<<....>>>........<<<<<<.....
...>>>>>>....>>....>>...<<<<<........>>>>>))<<<<.<
<<<<<<.....<<<....>>>.......<<<<<<...<<<<.<<<<<<<<
<<<<<<<<<<...((..>>>>>><<..<<<<<....<<<<<<....<<<.
....>>>....>>>>>>.....>>>>>>...><<<<<<<......>>>>>
>>>>>>.>.>>>>>>>.>>>>.........>>>>>>..........>.>>
.>>>>>>>>>>>>..>>....>>>>>.<<<<.....>>>>..>>>>..<<
<<.....<<<<<<<.<<.........<<<<<<..>>>>>...>..<<<<<
<<<....>.>>>>>>>.....>>.>>>>>>>..>>>>>>....>>....<
<<<<........>>>>>....<<<<<..<<..<<<<<.<<<<<<<.<<<<
..<<<<<<<<....>>>>>>>>...>>>>.>>>>>..>>>>>>>......
........<<<<<...<<.......>>...>>>>>..<<<..<<<<<..<
.<<<<<<<......>>>>>>>...>.<<<.........>>>.....>>>>
>......>>>.......<<<<<<<....>>>.>>>>.........>>.>>
>>>....<<<<<<<<..<<<<.<.<<<<<<...............>>>>>
>.><<<<<...<<<<...<<<<<<<<<<<))..>>>>>..>>>>>>..>>
>>..>>>>>.<<<<...<<<<<...........>>>>>...>>>>.>>>>
....>>>>>>>>.<<<<<<......<<..........<<<<<<.....>>
>>>>......>>.......<<<<<<...<<<<<.<..<<<......>>>.
.>.>>>>>.>>>>>>............>>>>>>.<<<<<<..........
...........<<<<<<<<<.<<<....<<<.....<<<<........>>
>>....>>>...>>>....>>>>.>>>>>..>>>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6em5 Visualizing the Assembly Pathway of Nucleolar Pre-60S Ribosomes.
• Resolution: 4.3 Å
• Binding residue (original residue number in PDB): M1 S8 R9 R10 T13 G18 A23
• Binding residue (residue number reindexed from 1): M1 S8 R9 R10 T13 G18 A23

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0003924 GTPase activity
• GO:0005515 protein binding
• GO:0005525 GTP binding

Biological Process

• GO:0000055 ribosomal large subunit export from nucleus
• GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0015031 protein transport
• GO:0042254 ribosome biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0030687 preribosome, large subunit precursor

External links

• PDB: RCSB:6em5, PDBe:6em5, PDBj:6em5
• PDBsum: 6em5
• PubMed: 29245012
• UniProt: P40010|NUG1_YEAST Nuclear GTP-binding protein NUG1 (Gene Name=NUG1)