Structure of PDB 8wq4 Chain AS3P Binding Site BS01

Receptor Information

>8wq4 Chain AS3P (length=201) Species: 330779 (Sulfolobus acidocaldarius DSM 639)

VLIKRHFLQKAAIKVMVDEYLAKQFYNAEYAGVEIVKTPIGTRVIIYAGR
PPLIIGKGGKTIKQLAQVLEKFFGLENPQITVTAAENPELNARVMAFRLA
IALEKGYHFRRAAFITIRRIMSSGAVGAEVIVSGKLTSERAKYEKLKEGT
VYKSGQQLEKIIDRAIGIAMLKPGVYGVEVVITKPTRSIDKIELKEKVEK
T

Ligand information

>8wq4 Chain A16S (length=1325)

auuccgguugauccugccggacccgaccgcuaucgggguagggauaagcc
augggagucuuacacucccggguaagggaguguggcggacggcugaguaa
cacguggcuaaccuacccucgggacggggauaaccccgggaaacugggga
uaauccccgauagggaaggaguccuggaaugguuccuucccuaaagggcu
auagguauuucccguuuguagccgcccgaggauggggcuacggcccauca
ggcugucggugggguaaaggcccaccgaaccuauaacggguaggggccgu
ggaagcgggagccuccaguugggcacugagacaagggcccaggcccuacg
gggcgcaccaggcgcgaaacguccccaaugcgcgaaagcgugagggcgcu
accccgagugccuccgcaggaggcuuuuccccgcucuaaaaaggcggggg
aauaagcggggggcaagucuggugucagccgccgcgguaauaccagcucc
gcgaguggucggggugauuacugggccuaaagcgccuguagccggcccac
caagucgccccuuaaaguccccggcucaaccggggaacugggggcgauac
uggugggcuagggggcgggagaggcgggggguacucccggaguaggggcg
aaauccuuagauaccgggaggaccaccaguggcggaagcgccccgcuaga
acgcgcccgacggugagaggcgaaagccgggggucccggcuguaaacgau
gcgggcuaggugucgaguaggcuuagagccuacucggugccgcagggaag
ccguuaagcccgccgccuggggaguacggucgcaagacugaaacuuaaag
gaauuggcgggggagcaccacaagggguggaaccugcggcucaauuggag
ucaacgccuggaaucuuaccggggagaccgcaguaugacggccaggcuaa
cgaccuugccugacucgcggagaggaggugcauggccgucgccagcucgu
guugugaaauguccgguuaaguccggcaacgagcgagacccccaccccua
guugguauucuggacuccgguccagaaccacacuagggggacugccggcg
uaagccggaggaaggagggggccacggcaggucagcaugccccgaaaccg
ggccgcacgcggguuacaauggcagggacaacgggaugcuaccucgaaag
ggggagccaauccuuaaacccugccgcaguugggaucgagggcugaaacc
cgcccucgugaacgaggaaucccuaguaaccgcgggucaacaacccgcgg
ugaauacgucccugcuccuugcaca

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8wq4 Structural basis of translation inhibition by a valine tRNA-derived fragment
• Resolution: 4.53 Å
• Binding residue (original residue number in PDB): L3 K5 R141 Y153 K154 S155
• Binding residue (residue number reindexed from 1): L2 K4 R140 Y152 K153 S154

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0015935 small ribosomal subunit

External links

• PDB: RCSB:8wq4, PDBe:8wq4, PDBj:8wq4
• PDBsum: 8wq4
• PubMed: 38599770
• UniProt: Q4JB46|RS3_SULAC Small ribosomal subunit protein uS3 (Gene Name=rps3)