Structure of PDB 8wq4 Chain AS2P Binding Site BS01

Receptor Information

>8wq4 Chain AS2P (length=196) Species: 330779 (Sulfolobus acidocaldarius DSM 639)

ELLVPLDTYLSAGVHIGTHTCTRYMERFIYRVRPEGLYVLDVRKIDERLR
VAAKFISRFRPEAVLTVASRPYAFTPVQKFSEVVRGKEISGRFPPGTLTN
PYLDNYIEPEVLIVTDPRTDLQAIKEASKVGIPIVAFTDTDARVDFIDVI
IPANNKGRKSLALLYWVLARQILRERKEIPLDGDIPLRVEDFETRL

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): H46 T47 R50 P61 E62 R119 P122 G123 T126 N127 Y129 L130
• Binding residue (residue number reindexed from 1): H19 T20 R23 P34 E35 R92 P95 G96 T99 N100 Y102 L103

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit

External links

• PDB: RCSB:8wq4, PDBe:8wq4, PDBj:8wq4
• PDBsum: 8wq4
• PubMed: 38599770
• UniProt: P39478|RS2_SULAC Small ribosomal subunit protein uS2 (Gene Name=rps2)