Structure of PDB 8wq2 Chain S10P Binding Site BS01

Receptor Information

>8wq2 Chain S10P (length=100) Species: 330779 (Sulfolobus acidocaldarius DSM 639)

TKARIRLWSSNIDSLNFVVNQIRNMAQKTGIQVSGPIPLPTTRMEVPVMR
LPHGEGKKKWEHWEMKVHKRIIDIAADERVMRQLMRVRVPDDVYIEIELI

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): R6 R8 W10 S36 G37 P38 I39 P40 L41 T44 R45 M46 E47 M51 P54 H55 G56 E57 G58 K59 K60 W62 H64 K71 R72 D75
• Binding residue (residue number reindexed from 1): R4 R6 W8 S34 G35 P36 I37 P38 L39 T42 R43 M44 E45 M49 P52 H53 G54 E55 G56 K57 K58 W60 H62 K69 R70 D73

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:0022627 cytosolic small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8wq2, PDBe:8wq2, PDBj:8wq2
• PDBsum: 8wq2
• PubMed: 38599770
• UniProt: P17199|RS10_SULAC Small ribosomal subunit protein uS10 (Gene Name=rps10)