Structure of PDB 7too Chain AL40 Binding Site BS01

Receptor Information

>7too Chain AL40 (length=52) Species: 4932 (Saccharomyces cerevisiae)

IIEPSLKALASKYNCDKSVCRKCYARLPPRATNCRKRKCGHTNQLRPKKK
LK

Ligand information

>7too Chain A25S (length=3194)

uugaccucaaaucagguaggaguacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaaccgggauugccuuaguaacggcgagugaagc
ggcaaaagcucaaauuugaaaucugguaccuucggugcccgaguuguaau
uuggagagggcaacuuuggggccguuccuugucuauguuccuuggaacag
gacgucauagagggugagaaucccguguggcgaggagugcgguucuuugu
aaagugccuucgaagagucgaguuguuugggaaugcagcucuaagugggu
gguaaauuccaucuaaagcuaaauauuggcgagagaccgauagcgaacaa
guacagugauggaaagaugaaaagaacuuugaaaagagagugaaaaagua
cgugaaauuguugaaagggaagggcauuugaucagacaggccagcaucag
uuuugguggcaggauaaauccauaggaauguagcuugccucgguaaguau
uauagccugugggaauacugccagcugggacugaggacugcgacguaagu
caaggaugcuggcauaaugguuauaugccgcccgucuugaaacacggacc
aaggagucuaacgucuaugcgaguguuuggguguaaaacccauacgcgua
augaaagugaacguagguuggggccucgcaagaggugcacaaucgaccga
uccugaugucuucggauggauuugaguaagagcauagcuguugggacccg
aaagauggugaacuaugccugaauagggugaagccagaggaaacucuggu
ggaggcucguagcgguucugacgugcaaaucgaucgucgaauuuggguau
aggggcgaaagacuaaucgaaccaucuaguagcugguuccugccgaaguu
ucccucaggauagcagaagcucguaucaguuuuaugagguaaagcgaaug
auuagagguuccggggucuugaccuauucucaaacuuuaaauauguaaga
aguccuuguuacuuaauugaacguggacauuugaaugaagagcuuuuagu
gggccauuuuugguaagcagaacuggcgaugcgggaugaaccgaacguag
aguuaaggugccggaauacacgcucaucagacaccacaaaagguguuagu
ucaucuagacagccggacgguggccauggaagucggaauccgcuaaggag
uguguaacaacucaccggccgaaugaacuagcccugaaaauggauggcgc
ucaagcguguuaccuauacucuaccgucaggguugauaugaugcccugac
gaguaggcaggcguggaggucagugacgaagccuagaccguaaggucggg
ucgaacggccucuagugcagaucuuggugguaguagcaaauauucaaaug
agaacuuugaagacugaaguggggaaagguuccacgucaacagcaguugg
acguggguuagucgauccuaagagauggggaagcuccguuucaaaggccu
gauuuuaugcaggccaccaucgaaagggaauccgguuaagauuccggaac
cuggauauggauucuucacgguaacguaacugaauguggagacgucggcg
cgagcccugggaggaguuaucuuuucuucuuaacagcuuaucaccccgga
auugguuuauccggagauggggucuuauggcuggaagaggccagcaccuu
ugcuggcuccggugcgcuugugacggcccgugaaaauccacaggaaggaa
uaguuuucaugccaggucguacugauaaccgcagcaggucuccaagguga
acagccucuaguugauagaauaauguagauaagggaagucggcaaaauag
auccguaacuucgggauaaggauuggcucuaagggucgguacgaucaacu
uagaacugguacggacaaggggaaucugacugucuaauuaaaacauagca
uugcgauggucagaaagugauguugacgcaaugugauuucugcccagugc
ucugaaugucaaagugaagaaauucaaccaagcgcggguaaacggcggga
guaacuaugacucucuuaagguagccaaaugccucgucaucuaauuagug
acgcgcaugaauggauuaacgagauucccacugucccuaucuacuaucua
gcgaaaccacagccaagggaacgggcuuggcagaaucagcggggaaagaa
gacccuguugagcuugacucuaguuugacauugugaagagacauagaggg
uguagaauaagugggagcuucggcgccagugaaauaccacuaccuuuaua
guuucuuuacuuauucaaugaagcggagcuggaauucauuuuccacguuc
uagcauucaaggucccauucggggcugauccggguugaagacauugucag
guggggaguuuggcuggggcggcacaucuguuaaacgauaacgcagaugu
ccuaaggggggcucauggagaacagaaaucuccaguagaacaaaagggua
aaagcccccuugauuuugauuuucagugugaauacaaaccaugaaagugu
ggccuaucgauccuuuagucccucggaauuugaggcuagaggugccagaa
aaguuaccacagggauaacuggcuuguggcagucaagcguucauagcgac
auugcuuuuugauucuucgaugucggcucuuccuaucauaccgaagcaga
auucgguaagcguuggauuguucacccacuaauagggaacgugagcuggg
uuuagaccgucgugagacagguuaguuuuacccuacugaugaauguuacc
gcaauaguaauugaacuuaguacgagaggaacaguucauucggauaauug
guuuuugcggcugucugaucaggcauugccgcgaagcuaccauccgcugg
auuauggcugaacgccucuaagucagaauccaugcuagaacgcggugauu
ucuuugcuccacacaauauagauggauacgaauaaggcguccuuguggcg
ucgcugaaccauagcaggcuagcaacggugcacuuggcggaaaggccuug
ggugcuugcuggcgaauugcaaugucauuuugcguggggauaaaucauuu
guauacgacuuagauguacaacgggguauuguaagcaguagaguagccuu
guuguuacgaucugcugagauuaagccuuuguugucugauuugu

........................<<<<<<.....<......>......>
>>>>.>.........<<....>>..<<<<<......<<.....>>.....
>>>>>..<<<...<.......<<.<<<<<<...>>>>>>.>>.......>
.....<<<<<<<.<<<<<<<<<<<<<<<<<<<<<....<<<<......>>
>>.(.......<<<......)>>>..>.>>>>>>>>..>>>>>>>>....
>>>>>>>>>>>........<<<<<<<........>>>>>>>.....<<<<
<..((((((>>>>>..>>>...............................
...<<....>>...............<<<<....>>>>............
......................<<<<<.<<<<<<.....<<<<<<<.<<<
<<<<<<<<<<<<.....<<<<<<<<<......<<<<<......>>>>>..
.....>>>>>>>.>.>.>>>>>.>>>>>>>>>>........<<<....>>
>.....>>>>>>>....>>>>>>.>>>>>..<<<<........>>>><<<
<<<....<<<<<<.<<<<<<..<<<...<<<<.....>>>>...>>>...
<<....>>.......<<<<<..<<<<<....>>>>>...>>>>>.<<<<<
<<<...<<....>>...>>>.>>>.>>....>>>>>>.>>>>>>..<<.<
..<<<<<<<.....<<<<<<<<<..<<<....<<<<<<<....>>>>>>>
.....>>>...<<<..<<.<<........>>>>.>>>....>>>>>>>>>
...<<.......>>......>>>>>>...>..>.>>..<<<<<<....<.
<<<....>>>.><<<<<<<<<<...<<<.<<<<<<<.....<<<....<<
<....<<<<...<<....>>.>>>>....>>>..>.>>.....>>>>>..
.<<<<.<<<<.<......>>>>>.>>>>.....>>>>>.>>>>>>>>.>>
..<<<<.<<<<<.....>>>>>.>>>>....<<<......>>>...<<<<
<<<..<<<<(((.....<<<<<<.....<<..........<<<.<<<<<<
<<<<.......<<<<<.<<<...<<.........>>...>>>........
.<<......>>...>>>>>...>>>>>>>>>>>>>..........))).>
>...>>>>>>.>>>>..>>>>>>><<<<<<<<<.........>>>>>>>>
>....>>>>>><.<<<<<<<<.<<......<<<<.<<<<....>>>>>>>
>...>>>>>>>>>>..>.....>>>>>><<.....<<.....<<<<<<..
.....>>>>>><<<<.....<<<<<.<<...<<<<<<...<<.....>>.
>>>>>>....((<<<<<<...<<....<<<....>>>........<<<.<
<<.....>.>>.>>>....>>....>>...<<<<<........>>>>>))
<<<<.<<<<<<<.....<<<....>>>.......<<<<<<...<<<<.<<
<<<<<.<<<<<<<<<<..[[[..>>>>>><...<<<<<....<<<<<<..
..<<<.....>>>....>>>>>>.....>>>>>....><<<<<<<.....
.>>>>>>>>>>>...>>>>>>>.>>>>.........>>>>>>........
..>>>..>>>>>>>>>>>>..>>.....<<......>>>>>>>.<<<<..
...>>>>..>>>>..<<<<.....<<<<<<<.<<.........<.....<
<<<<....<<..>>.....>>>>><<.<<<<<<<<<<.....>>>>..>>
>>>>.>>............<<<<<<<<<..<<<.........>>>..<<<
<<<<....<<<<.....>>>>......>>>>>>>.<.<<..<<<..<<<<
<<.<...<<....<<<<<....>>>>.>...>>.>>>>>..>>>>><<<<
<<.......>>>>>>........<...........<<<<<.......>>>
>>.....>.....>>.>..>>.>>>>>>>..>..>>.>>>>>>>..>>>>
>>....>>....<<<<<........>>>>>....<<<<<..<<<.<<...
...<<<<.<<<<<<..<<<<<.<<<<<<<<..<<<<<<<<<<<<.<<<.<
.........<<<<<......................>>>>>.>>>.>>>.
>>>>>>>>>>...<<<<<.....<<<<..<<<<<......>>>>>.....
..........<<<<<<....>>>>>>..>>>>..>>>>>.....>>>>>>
>>..>>>>>...<<<.....>>>..<<<<<<...........>>>>>>..
<<...<<<<<<<...<<<<<<.......>>>>>>.....<<...(((>>.
...>>>>>>>...<<<.<<<<<.......>>>>.>>>>.<<<....>>>.
>>)))......<<<<<<<..<<<<.))))))>>>>>>>>>>>........
.>>>>..>>>>>>.......<<.<.<.<<<<<<...<<.......>>...
>>>>>>...>>..>>.......<<<<<.<<<<<<..<.<<<<<<<.....
.>>>>>>>...>.<<<.........>>>.....>>>>>..>...>>>.>>
....<<<<<<<....>>>.>>>>....>>..>>>.>>>>>....<<<<<<
<<..<<<<.<.<<<<<<...............>>>>>>.><<<<<...<<
<<....<<<<<<<<<<]]].>>>>>..>>>>>...>>>>..>>>>>.<<<
<...<<<<<...........>>>>>...>>>>.>>>>....>>>>>>>>.
......<<<<<<.<<<.<<....<<..........<<<<<<.....>>>>
>>......>>.......<<<<<<...<<<<<.<..<<<......>>>..>
.>>>>>.>>>>>>.............>>.>>>.>>>>>>..<<<<<.<..
...........>.....<<<<<<<<<.<<<....<<<<....<<<<<...
...>>>>>...>>>>...>>>....>>>>.>>>>>..>>>>>..

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7too Ribosome inhibition by C9ORF72-ALS/FTD-associated poly-PR and poly-GR proteins revealed by cryo-EM.
• Resolution: 2.7 Å
• Binding residue (original residue number in PDB): R97 Y100 R102 R106 N109 R111 K112 R113 K114 G116 H117 N119 R122 K124 K125
• Binding residue (residue number reindexed from 1): R21 Y24 R26 R30 N33 R35 K36 R37 K38 G40 H41 N43 R46 K48 K49

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0008270 zinc ion binding
• GO:0031386 protein tag activity
• GO:0031625 ubiquitin protein ligase binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0000055 ribosomal large subunit export from nucleus
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0016567 protein ubiquitination
• GO:0019941 modification-dependent protein catabolic process
• GO:0042254 ribosome biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7too, PDBe:7too, PDBj:7too
• PDBsum: 7too
• PubMed: 35589706
• UniProt: P0CH08|RL40A_YEAST Ubiquitin-ribosomal protein eL40A fusion protein (Gene Name=RPL40A)