Structure of PDB 8wq4 Chain S3AE Binding Site BS01

Receptor Information

>8wq4 Chain S3AE (length=189) Species: 330779 (Sulfolobus acidocaldarius DSM 639)

IRDKWKLKKWYVITAPKVFGEALLGSTPAYDINKALSRKIEVTLYDLTGD
YNLVYIHLYFKILGNISGDKLSTIFYGHELSRDYIRSLVRRKSSKINAVV
DVTTKDGYMLRVKGLVLTTYRAHISQKTAIRKVISDITRKKAEESDFDQF
VQDVIFGKLSNDIFQEAKKIYPLRKVEIEKTKLLKAPKV

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): K42 R46 R99 K100 S101 K103 Y128 R129 Q134 R139 K176 K177 I178 Y179 P180
• Binding residue (residue number reindexed from 1): K34 R38 R91 K92 S93 K95 Y120 R121 Q126 R131 K168 K169 I170 Y171 P172

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8wq4, PDBe:8wq4, PDBj:8wq4
• PDBsum: 8wq4
• PubMed: 38599770
• UniProt: Q4JB17|RS3A_SULAC Small ribosomal subunit protein eS1 (Gene Name=rps3ae)