Structure of PDB 7qvp Chain Lh Binding Site BS01

Receptor Information

>7qvp Chain Lh (length=121) Species: 9606 (Homo sapiens)

KIKARDLRGKKKEELLKQLDDLKVELSQLRVAKVTGGAASKLSKIRVVRK
SIARVLTVINQTQKENLRKFYKGKKYKPLDLRPKKTRAMRRRLNKHEENL
KTKKQQRKERLYPLRKYAVKA

Ligand information

>7qvp Chain L5 (length=3611)

cgcgaccucagaucagacguggcgacccgcugaauuuaagcauauuaguc
agcggaggagaagaaacuaaccaggauucccucaguaacggcgagugaac
agggaagagcccagcgccgaauccccgccccgcggcggggcgcgggacau
guggcguacggaagacccgcuccccggcgccgcucguggggggcccaagu
ccuucugaucgaggcccagcccguggacggugugaggccgguagcggccc
ccggcgcgccgggcccgggucuucccggagucggguugcuugggaaugca
gcccaaagcgggugguaaacuccaucuaaggcuaaauaccggcacgagac
cgauagucaacaaguaccguaagggaaaguugaaaagaacuuugaagaga
gaguucaagagggcgugaaaccguuaagagguaaacgggugggguccgcg
caguccgcccggaggauucaacccggcggcgguccggccgugucggcggc
ccggcggaucuuucccgcgcgggggaccgucccccgaccggcgaccggcc
gccgccgggcgcauuuccaccgcggcggugcgccgcgaccggcuccggga
cggcugggaaggcccggcggggaagguggcucgggggcccccgaguguua
cagcccccccggcagcagcacucgccgaaucccggggccgagggagcgag
acccgucgccgcgcucuccccccucccggggggggccgggccaccccucc
cacggcgcgaccgcucggggcggacuguccccagugcgccccgggcgggu
cgcgccgucgggcccgggggggccacgcgcgcgucccccgagggggacgg
cggagcgagcgcacggggucggcggcgacgucggcuacccacccgacccg
ucuugaaacacggaccaaggagucuaacacgugcgcgagucgggggcucg
cacgaaagccgccguggcgcaaugaaggugaaggccggcgcgcucgccgg
ccgaggugggaucccgaggccucuccaguccgccgagggcgcaccaccgg
cccgucucgcccgccgcgccggggagguggagcacgagcgcacguguuag
gacccgaaagauggugaacuaugccugggcagggcgaagccagaggaaac
ucugguggagguccguagcgguccugacgugcaaaucggucguccgaccu
ggguauaggggcgaaagacuaaucgaaccaucuaguagcugguucccucc
gaaguuucccucaggauagcuggcgcucucgcagacccgaccgccacgca
guuuuauccgguaaagcgaaugauuagaggucuuggggccgaaagaucuc
aaccuauucucaaacuuuaaauggguaagaagcccggcucgcuggcgugg
agccgggcguggaaugcgagugccuagugggccacuuuugguaagcagaa
cuggcgcugcgggaugaaccgaacgccggguuaaggcgcccgaugccgac
gcucaucagaccccagaaaagguguugguugauauagacagcaggacggu
ggcgcuaaccugccgaaucaacuagcccugaaaauggauggcgcuggagc
gucgggcccauacccggccgucgccggcagucgagaguggacgggagcgg
cggcgcgcccggagccccgcggacgcuacgccgcgacgaguaggagggcc
gcugcggugagccuugaagccuagggcgcgggcccggguggagccgccgc
aggugcagaucuuggugguaguagcaaauauucaaacgagaacuuugaag
gccgaaguggagaaggguuccaugugaacagcaguugaacaugggucagu
cgguccugagagaugggcgagcgccguuccgaagggacgggcgauggccu
ccguugcccucggccgaucgaaagggagucggguucagauccccgaaucc
ggaguggcggagaugggcgccgcgaggcguccagugcgguaacgcgaccg
aucccggagaagccggcgggagccccggggagaguucucuuuucuuugug
aagggcagggcgcccuggaauggguucgccccgagagaggggcccgugcc
uuggaaagcgucgcgguuccggcggcguccggugagcucucgcuggcccu
ugaaaauccgggggagaggguguaaaucucgcgccgggccguacccauau
ccgcagcaggucuccaaggugaacagccucuggcauguuggaacaaugua
gguaagggaagucggcaagccggauccguaacuucgggauaaggauuggc
ucuaagggcugggucggucgcggccggcgccuagcagccgacuuagaacu
ggugcggaccaggggaauccgacuguuuaauuaaaacaaagcaucgcgaa
ggcccgcggcggguguugacgcgaugugauuucugcccagugcucugaau
gucaaagugaagaaauucaaugaagcgcggguaaacggcgggaguaacua
ugacucucuuaagguagccaaaugccucgucaucuaauuagugacgcgca
ugaauggaugaacgagauucccacugucccuaccuacuauccagcgaaac
cacagccaagggaacgggcuuggcggaaucagcggggaaagaagacccug
uugagcuugacucuagucuggcacggugaagagacacguuuuuucacuga
cccggugaggcgggggggcgagccccgaggggcucucgcuucuggcgcca
agcgcccggccgcgcgccggccgggcgcgacccgcuccggggacagugcc
agguggggaguuugacuggggcgguacaccugucaaacgguaacgcaggu
guccuaaggcgagcucagggaggacagaaaccucccguggagcagaaggg
caaaagcucgcuugaucuugauuuucaguacgaauacagaccgugaaagc
ggggccucacgauccuucugaccuuuuggguuuuaagcaggaggugucag
aaaaguuaccacagggauaacuggcuuguggcggccaagcguucauagcg
acgucgcuuuuugauccuucgaugucggcucuuccuaucauugugaagca
gaauucaccaagcguuggauuguucacccacuaauagggaacgugagcug
gguuuagaccgucgugagacagguuaguuuuacccuacugaugauguguu
guugccaugguaauccugcucaguacgagaggaaccgcagguucagacau
uugguguaugugcuuggcugaggagccaauggggcgaagcuaccaucugu
gggauuaugacugaacgccucuaagucagaaucccgcccaggcggaacga
uacggcagcgccgcggagccucgguuggccucggauagccggucccccgc
cgggguccggugcggagugcccuucguccugggaaacggggcgcggccgg
agaggcggccgcccccucgcccgucacgcaccgcacguucguggggaacc
uggcgcuaaaccauucguagacgaccugcuucugggucgggguuucguac
guagcagagcagcucccucgcugcgaucuauugaaagucagcccucgaca
caaggguuugu

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>>...>>>>>>>>..>>>>>>>>>>.......<<<<<<<........>>>
>>>>.....(((((..<<<<<<)))))..]]]..................
................<<....>>...............<<<<....>>>
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>>>>>>>>>......>>>.>>>.>>>>>...<<<<<<<.<<<<<<<<<<<
<<<<...<<..<<<.<<.<<<<......<<<<<<<<..>>>>>>>>....
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..........<<<<<<.<<<<<<<....>>>>>>>.<<<<<<.<<<<.<<
<<<<<<<<<.<<<<..<<<<..<...........>...>>>>..>>>>.>
.>>>>>>>.>>>...>>>>.>>>>.>>..<<<<<<<<<<..>>>>>>>>.
>>....>>>>>>......>>.>>>>>...>>>>>...>>>>>>>>..<<<
<........>>>><<<<<<....<<<<<<<<<<<<<..<<<...<<<<..
......>>>>.....>>>...<<....>>...<<<<<<<......>>>>>
>>..<<<<<...<<<..<<<....[[.((((>>>..>>>....>>>>>.<
<<<<<<<<.<<<<......>>>>>>>>>>>.>>....>>>>>>>>>>>>>
..<<.<..<<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>
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>>>>>>...<<.......>>......>>>>>>...>..>.>>..<<<<<<
....<.<<<....>>>.><<.<<<<<<<...................<<<
.<<<<<<<<<...<<<....<<<..<.<<<.....<<<........>>>.
..>>>.>..>>>..>.>>...>>>>>>>...<<<<<<<<<.........>
>>>>>>>>....>>>>>>>>>>>>..>>..<<<<.<<<<<.....>>>>>
.>>>>....<<<......>>>...<<<<<<<...<<<(((.......<<<
<<.....<<..........<<<.<<<<<<<<<<.......<<<<..<<..
..>>.....>>>>...>>>>>>>>>>>>>..........))).>>...>>
>>>..>>>...>>>>>>><<<<<<.<<<..........)))).]].....
.............................>>>>>>>>>....>>>>>>.<
<<<<<<<<<.<<......<<<<.<<<<....>>>>>>>>...>>>>>>>>
>>.>>.....>>>>>><<.....<<.....<<<<<<.......>>>>>>.
<<<.....<<<<<.<<...<<<<<<...<<.....>>.>>>>>>....((
<<<<<<...<<....<<<....>>>..........<<.<<<<<.......
....>>>>>>>......>>....>>>..<<<<<........>>>>>))<<
<<....<<<<<..<<<<<<<<....>>>>>>>>..<<<....>>>...<.
.<<<<<<<...<<<<<<<<<<<<.<<<<<<<<<<..{{{..>>>>>>...
.<<<<<.<<<<.<<<<.....<<<.....>>>.....>>>>>>>>..>>>
>>.....<<<<<<<.......>>>>>>>>>>>...>>>>>>>>>>>>...
......>>>>>>>..>..........>>.>>>.>>>>.>>>..>>.....
<<......>>>>>>>.<<<<.....>>>>..>>>....<<<<.....<<<
<<<<.<<.........<.....<<<<<....<<..>>.....>>>>><<.
<<<<<<<<<<<.......................>>>>>..>>>>>>.>>
............<<<<<<<<<..<<<.........>>>..<<<<<<<...
.<<<<.....>>>>......>>>>>>>...<<..<<<..<<<<<<....<
<<...<.<<<<....>>>>.>...>>>.>>>>..>>>>><<<<<<.....
..>>>>>>........<...........<<<<<.......>>>>>.....
>.....>>....>>.>>>>>>>..>..>>.>>>>>>>..>>>>>>....>
>....<<<<<........>>>>>....[[[[[..{{{.{{......[[[[
.{{[[[[..<<<<<.<<<<<<<<<.<<<<<<<<......>>>>>>>>...
<<<<<.....<<<<........<........>..................
.<<<<<<<<<<.......>>>>>>>>>>..>>>>..>>>>>....>>>>>
>>>>..>>>>>...<<<.....>>>..<<<<<<...........>>>>>>
..<<...<<<<<<<...<<<<<<.......>>>>>>.....<<.[.(((>
>....>>>>>>>...<<<..<<<<.......>>>>..>>><<<<....>>
>>>>)))]......((((((..(((..>>>>>>.))))))))).......
...]]]]..}}]]]].......<<.<.<.<<<<<<...<<.......>>.
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...>>>>>...>.>.<<<.........>>>.....>>>>>..>...>>>.
>>....<<<<<<<....>>>.>>>>....}}..}}}.]]]]].....<<<
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<<<<...<<<<<...........>>>>>...>>>>>.>>>...>.>>>>>
>.....<<<<<<..<<..<<<<....<<<........<<<<<.<<<<...
.>>>>.>>>>>.......>>>...<<<..<<<<....<<<<.<<<<<<<.
.....>>>>>>>>>>>...>>>>..>>>..............>>>>..>>
.>>>>>><<<<<.<.............>....<<.<<<<<<<.<<.....
<<<<....<<<<<......>>>>>...>>>>....>>....>>>>.>>>.
>>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7qvp A distinct mammalian disome collision interface harbors K63-linked polyubiquitination of uS10 to trigger hRQT-mediated subunit dissociation.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): R70 Y78 K79 R84 R89 R93 N96 K97 H98 K106 R112 L113
• Binding residue (residue number reindexed from 1): R68 Y76 K77 R82 R87 R91 N94 K95 H96 K104 R110 L111

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003729 mRNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0000463 maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)
• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0016020 membrane
• GO:0022625 cytosolic large ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7qvp, PDBe:7qvp, PDBj:7qvp
• PDBsum: 7qvp
• PubMed: 36302773
• UniProt: P42766|RL35_HUMAN Large ribosomal subunit protein uL29 (Gene Name=RPL35)