Structure of PDB 8i9w Chain LT Binding Site BS01

Receptor Information

>8i9w Chain LT (length=126) Species: 759272 (Thermochaetoides thermophila DSM 1495)

RTYRVGDIVDIKVNGAVQKGMPHKFYHGKTGVVYNVTKSAVGVIVYKRVK
HRYIEKRINVRIEHVKPSRSREDFLRRVKENAELKKKAKAEGVPVQLKRQ
PAMPREAHTVSIADNKPVTLAPVAYE

Ligand information

>8i9w Chain C1 (length=2163)

uugaccucggaucagguaggaggacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaacagggauugcccuaguaacggcgagugaagc
ggcaacagcucaaauuugaaagcuggcuucggcccgcguuguaauuugga
gaggaugcuuugggcgaggcuccuucugaguucccuggaacgggacgcca
cagagggugagagccccguauaguuggaagccaagccuguguaaagcucc
uucgacgagucgaguaguuugggaaugcugcucaaaaugggagguaaauu
ucuucuaaagcuaaauaccggccagagaccgauagcgcacaaguagagug
aucgaaagaugaaaagcacuuugaaaagaggguuaaauagcacgugaaau
uguugaaagggaagcgcuugugaccagacuugcgcccggcggaucauccg
guguucucaccggugcacuccgccgggcucaggccagcaucgguucuggc
ggggggauaaaggcccagggaauguggcuccuccgggaguguuauagccc
uggguguaauacccucgccgggaccgaggaccgcgcucugcaaggaugcu
ggcguaauggucaccagcgacccgucuugaaacacggaccaaggagucaa
gguuuugcgcgaguguuuggguguaaaacccgcacgcguaaggugagagc
uucggcgcaucaucgaccgauccugauguauucggauggauuugaguagg
agcguuaagccuuggacccgaaagauggugaacuauaugggggcgaaaga
cuaaccaucuaguagcugguuaccgccgaaguuucccucaggauagcagu
gucgaccuucaguuuuaugagguaaagcgaaugaacuuuaaauauguaag
aagcccuuguuacuuaacugaacgugggcauucgaauguaucgacacuag
ugggccauuuuugguaagcagaacuggcgaugcgggaugaaccgaacgcg
ggguuaaggugccggaguggacgcucaucagacaccacaaaaggcguuag
uacaucuugacagcaggacgguggccauggaagucggaauccgcuaagga
cuguguaacaacucaccugccgaauguacuagcccugaaaauggauggcg
cucaagcgucccacccauaccccgcccucaggguagaaacgaugcccuga
ggaguaggcggccguggaggucagugacgaagccuagggcgugagcccgg
gucgaacggccucuagugcagaucuuggugguaguagcauagaacaaugu
agauaagggaagucggcuccguaacuugguacggacaggggaaucugcga
gauucccacugucccuaucuacuaucuagcgaaaccacagccaagggaac
gggcuuggcaaaaucagcggggaaagaagacccuguugagcuugacucua
guuugacauugugaaaagacauaggagguguagaauaggugggagcuucg
gcgccagugaaauaccacuacuccuauuguuuuuuuacuuauucaaugug
aagacauugucagguggggaguuccuuuagucccucgaaauuugaggcua
gaggagaaaaguuaccacagggauaacuggcuuguggcggccaagcguag
cgacgucgcuuuuuggaugcggcucuuccuaucauaccgaagcagaauuc
gguaagcguuggauuguucacccacuaauagggaacgugagcuggaccgu
cgugagacagguuagucccuacugaugaacucgucgcaaugguaauucag
cuuaguacgagaggaaccgcugauucagauaauugguuuuugcgguuguc
cgaccgggcagugccgcgaagcuaccaucugcuggauaauggcugaacgc
cucuaagucagaauccaugccagaacgcgacgauacuacccgcacguugu
agacguauaagaauaggcuccggccucguauccuagcaggcgauuccucc
gccggccucgaaguggccgucgguaauucgcguauugcaauuuagacacg
cgcgggaucaaauccuuugcagacgacuuagaugugcgaaaggguccugu
aagcaguagaguagccuuguuguuacgaucugcugaggguaagcccuccu
ucgccuagauuuc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8i9w Mechanism of 5S RNP recruitment and helicase-surveilled rRNA maturation during pre-60S biogenesis.
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): D41 H58 G59 T61 Y77 R79 K81 R83 K97 R100 S101 D104 F105 R108 V109 K110 N112 K116 K117 K129 R130
• Binding residue (residue number reindexed from 1): D10 H27 G28 T30 Y46 R48 K50 R52 K66 R69 S70 D73 F74 R77 V78 K79 N81 K85 K86 K98 R99

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:8i9w, PDBe:8i9w, PDBj:8i9w
• PDBsum: 8i9w
• PubMed: 37129998
• UniProt: G0S0Z3