Structure of PDB 8wq2 Chain AS3P Binding Site BS01

Receptor Information

>8wq2 Chain AS3P (length=201) Species: 330779 (Sulfolobus acidocaldarius DSM 639)

VLIKRHFLQKAAIKVMVDEYLAKQFYNAEYAGVEIVKTPIGTRVIIYAGR
PPLIIGKGGKTIKQLAQVLEKFFGLENPQITVTAAENPELNARVMAFRLA
IALEKGYHFRRAAFITIRRIMSSGAVGAEVIVSGKLTSERAKYEKLKEGT
VYKSGQQLEKIIDRAIGIAMLKPGVYGVEVVITKPTRSIDKIELKEKVEK
T

Ligand information

>8wq2 Chain A16S (length=1328)

auuccgguugauccugccggacccgaccgcuaucgggguagggauaagcc
augggagucuuacacucccggguaagggaguguggcggacggcugaguaa
cacguggcuaaccuacccucgggacggggauaaccccgggaaacugggga
uaauccccgauagggaaggaguccuggaaugguuccuucccuaaagggcu
auaggcuauuucccguuuguagccgcccgaggauggggcuacggcccauc
aggcugucggugggguaaaggcccaccgaaccuauaacggguaggggccg
uggaagcgggagccuccaguugggcacugagacaagggcccaggcccuac
ggggcgcaccaggcgcgaaacguccccaaugcgcgaaagcgugagggcgc
uaccccgagugccuccgcaggaggcuuuuccccgcucuaaaaaggcgggg
gaauaagcggggggcaagucuggugucagccgccgcgguaauaccagcuc
cgcgaguggucggggugauuacugggccuaaagcgccuguagccggccca
ccaagucgccccuuaaaguccccggcucaaccggggaacugggggcgaua
cuggugggcuagggggcgggagaggcgggggguacucccggaguaggggc
gaaauccuuagauaccgggaggaccaccaguggcggaagcgccccgcuag
aacgcgcccgacggugagaggcgaaagccgggggucccggcuguaaacga
ugcgggcuaggugucgaguaggcuuagagccuacucggugccgcagggaa
gccguuaagcccgccgccuggggaguacggucgcaagacugaaacuuaaa
ggaauuggcgggggagcaccacaagggguggaaccugcggcucaauugga
gucaacgccuggaaucuuaccgggggagaccgcaguaugacggccaggcu
aacgaccuugccugacucgcggagaggaggugcauggccgucgccagcuc
guguugugaaauguccgguuaaguccggcaacgagcgagacccccacccc
uaguugguauucuggacuccgguccagaaccacacuagggggacugccgg
cguaagccggaggaaggagggggccacggcaggucagcaugccccgaaac
ccgggccgcacgcggguuacaauggcagggacaacgggaugcuaccucga
aagggggagccaauccuuaaacccugccgcaguugggaucgagggcugaa
acccgcccucgugaacgaggaaucccuaguaaccgcgggucaacaacccg
cggugaauacgucccugcuccuugcaca

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8wq2 Structural basis of translation inhibition by a valine tRNA-derived fragment
• Resolution: 4.1 Å
• Binding residue (original residue number in PDB): V2 L3 K5 R6 S134 K136 R141 Y144 K146 T151 V152 Y153 K154 Q157 L159 E160 R165 K173 V176 D191
• Binding residue (residue number reindexed from 1): V1 L2 K4 R5 S133 K135 R140 Y143 K145 T150 V151 Y152 K153 Q156 L158 E159 R164 K172 V175 D190

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:8wq2, PDBe:8wq2, PDBj:8wq2
• PDBsum: 8wq2
• PubMed: 38599770
• UniProt: Q4JB46|RS3_SULAC Small ribosomal subunit protein uS3 (Gene Name=rps3)