Structure of PDB 8i9p Chain LT Binding Site BS01

Receptor Information

>8i9p Chain LT (length=126) Species: 759272 (Thermochaetoides thermophila DSM 1495)

RTYRVGDIVDIKVNGAVQKGMPHKFYHGKTGVVYNVTKSAVGVIVYKRVK
HRYIEKRINVRIEHVKPSRSREDFLRRVKENAELKKKAKAEGVPVQLKRQ
PAMPREAHTVSIADNKPVTLAPVAYE

Ligand information

>8i9p Chain C1 (length=1307)

uugaccucggaucagguaggaggacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaacagggauugcccuaguaacggcgagugaagc
ggcaacagcucaaauuugaaagcuggcuucggcccgcguuguaauuugga
gaggaugcuuugggcgaggcuccuucugaguucccuggaacgggacgcca
cagagggugagagccccguauaguuggaagccaagccuguguaaagcucc
uucgacgagucgaguaguuugggaaugcugcucaaaaugggagguaaauu
ucuucuaaagcuaaauaccggccagagaccgauagcgcacaaguagagug
aucgaaagaugaaaagcacuuugaaaagaggguuaaauagcacgugaaau
uguugaaagggaagcgcuugugaccagacuugcgcccggcggaucauccg
guguucucaccggugcacuccgccgggcucaggccagcaucgguucuggc
ggggggauaaaggcccagggaauguggcuccuccgggaguguuauagccc
uggguguaauacccucgccgggaccgaggaccgcgcucugcaaggaugcu
ggcguaauggucaccagcgacccgucuugaaacacggaccaaggagucaa
gguuuugcgcgaguguuuggguguaaaacccgcacgcguaaaggugagag
cuucggcgcaucaucgaccgauccugauguauucggauggauuugaguag
gagcguuaagccuuggacccgaaagauggugaacaaccaucuaguagcug
guuaccgccgaaguuucccucaggauagcagugucgaccuucaguuuuau
gagguaaagcgaaugaacuuuaaauauguaagaagcccuuguuacuuaac
ugaacgugggcauucgaauguaucgacacuagugggccauuuuugguaag
cagaacuggcgaugcgggaugaaccgaacgcgggguuaaggugccggagu
ggacgcucaucagacuggcgcucaagcgucccacccauaccccgcccuca
ggguagaaacgaugcccugaggaguaggcggccguggaggucagugacga
agccuagggcgugagcccgggucgaacggccucuagugcagaucuuggug
guaguagcaaauaucuagcgaaaccacagacccgcacguagacguauaag
aauaggcuccggccucguauccuagcaggcgauuccuccgccggccucga
aguggccgucgguaauucgcguauugcaaagacacgcgcgggaucaaauc
agauuuc

........................<<<<<<.....<......>......>
>>>>.>.........<<....>>..<<<<<......<<.....>>.....
>>>>>..<<<..<<.......<<.<<<....>>>.>>.......>>....
<<<<<.<<<<<<<<<..<<<<<<..<<....<<<<......>>>>.((..
....<<<.....))>>>....>>..>>>.>>>..>>>>....>>>>>>>>
.>>........<<<<<<<........>>>>>>>.....<<<<<<......
>>>>>>..>>>..................................<<...
.>>...............<<<<....>>>>....................
..............<<<<.<<<<<<<....<<.<<<<<<<<<<.<<.<<<
<<<....>>>>>>>>...>>>>>>>>>>.>>.<<<<<<<.<<<<<<<<<<
<<<<<.......<<<<<<<<......<<<<<....>>>>>.......>>>
>>>>>......>>>>>>>>>>>>>>>........<<...>>.....>>>>
>>>....>>>>>>>.>>>>..<<<<.<....>.>>>><<<<<<...<<<<
<<<<<.<<<<..<<<...<<<<.....>>>>...>>>.....<<<<<..<
<....>>...>>>>>.<<<<<<<<...<<....>>...>>>.>>>.>>..
..>>>>.>>>>>>>>>.<<.<..<<<<<<<.....>>>>>>...>..>.>
>...<<<<<....<.<<<....>>>.><<<<<<<<<<....<<.<<<<<<
......<<<........>>.>......>>>>...<<<..<<<<.<.....
.>>>>>.>>.>.....>>>>..>>>>>>>>.>>..<<<<.<<<<<.....
>>>>>.>>>>....<<<......>>>...<<<<<<<...<<<(((.....
<<<<<<.....<<...))).>>...>>>>>>.>>>...>>>>>>><<<<<
<<<<.........>>>>>>>>>....>>>>>.<.<<<<<<<<.<<.....
.<<<<.<<<<....>>>>>>>>...>>>>>>>>>>..>.....>>>>>><
<.....<<.........>>....>>.....<<<<<.<<.......<<...
....<<<....>>>....>>........<<<<.....<<<.<<<<<....
...>>>>>.>>>....>>>>..............>>.>>>>>...<<<<<
.>>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8i9p Mechanism of 5S RNP recruitment and helicase-surveilled rRNA maturation during pre-60S biogenesis.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): R35 T61 Y77 R79 H82 R83 R100 S101 R102 D104 F105 R108 V109 N112 K116 K117 K120 Q127 K129 R130 P132
• Binding residue (residue number reindexed from 1): R4 T30 Y46 R48 H51 R52 R69 S70 R71 D73 F74 R77 V78 N81 K85 K86 K89 Q96 K98 R99 P101

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8i9p, PDBe:8i9p, PDBj:8i9p
• PDBsum: 8i9p
• PubMed: 37129998
• UniProt: G0S0Z3