Structure of PDB 8wkp Chain S17E Binding Site BS01

Receptor Information

>8wkp Chain S17E (length=62) Species: 330779 (Sulfolobus acidocaldarius DSM 639)

GNVYTKDIKRVARELYDKFKDQASDKYDDNKKLVDEYVNVSSKKVKNRIA
GYLTRYVKISKN

Ligand information

>8wkp Chain A16S (length=1325)

auuccgguugauccugccggacccgaccgcuaucgggguagggauaagcc
augggagucuuacacucccggguaagggaguguggcggacggcugaguaa
cacguggcuaaccuacccucgggacggggauaaccccgggaaacugggga
uaauccccgauagggaaggaguccuggaaugguuccuucccuaaagggcu
auaggcuauuucccguuuguagcgcccgaggauggggcuacggcccauca
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: 8wkp Structural basis of translation inhibition by a valine tRNA-derived fragment
• Resolution: 4.62 Å
• Binding residue (original residue number in PDB): G2 N3 V4 Y5 T6 K7 K10 Y28 D29 K44 K45 N48 R49 A51 G52 T55 R56
• Binding residue (residue number reindexed from 1): G1 N2 V3 Y4 T5 K6 K9 Y27 D28 K43 K44 N47 R48 A50 G51 T54 R55

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome

External links

• PDB: RCSB:8wkp, PDBe:8wkp, PDBj:8wkp
• PDBsum: 8wkp
• PubMed: 38599770
• UniProt: Q4JAX5|RS17E_SULAC Small ribosomal subunit protein eS17 (Gene Name=rps17e)