Structure of PDB 6em5 Chain d Binding Site BS01

Receptor Information

>6em5 Chain d (length=107) Species: 559292 (Saccharomyces cerevisiae S288C)

DVVTREYTINLHKRLHGVSFKKRAPRAVKEIKKFAKLHMGTDDVRLAPEL
NQAIWKRGVKGVEYRLRLRISRKRNEEEDAKNPLFSYVEPVLVASAKGLQ
TVVVEED

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): T13 N15 K18 R62 G103 L104 Q105 T106
• Binding residue (residue number reindexed from 1): T8 N10 K13 R57 G98 L99 Q100 T101

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0006450 regulation of translational fidelity

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6em5, PDBe:6em5, PDBj:6em5
• PDBsum: 6em5
• PubMed: 29245012
• UniProt: P0C2H8|RL31A_YEAST Large ribosomal subunit protein eL31A (Gene Name=RPL31A)