Structure of PDB 8wq4 Chain SL7A Binding Site BS01

Receptor Information

>8wq4 Chain SL7A (length=123) Species: 330779 (Sulfolobus acidocaldarius DSM 639)

PSYVKFEVPQELADKVLEAVKKAKDSGKIKKGTNETTKAVERSQAKLVVI
AEDVQPEEIVAHLPLLCEEKKIPYVYVPSKKSLGEACGLQVAAASVALMD
PGEAKDLVDEIVKRVNEIKGKSS

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): K34 G35 T36 P59 E61 K83 K84 L92 V94 A95 A96
• Binding residue (residue number reindexed from 1): K31 G32 T33 P56 E58 K80 K81 L89 V91 A92 A93

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0004526 ribonuclease P activity
• GO:0019843 rRNA binding

Biological Process

• GO:0001682 tRNA 5'-leader removal
• GO:0006412 translation
• GO:0008033 tRNA processing
• GO:0042254 ribosome biogenesis

Cellular Component

• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8wq4, PDBe:8wq4, PDBj:8wq4
• PDBsum: 8wq4
• PubMed: 38599770
• UniProt: Q4J8P1|RL7A_SULAC Large ribosomal subunit protein eL8 (Gene Name=rpl7ae)