Structure of PDB 8i9v Chain CG Binding Site BS01

Receptor Information

>8i9v Chain CG (length=177) Species: 759272 (Thermochaetoides thermophila DSM 1495)

MRPLTDQEMKIVLDKLANYMTDLKSLIAPLEDGDRYVFRMQKDRVYYVKL
SIANIATCVARDKLLSLGTCLGKMTKSGKFRLHITALPILAQNARYKIWV
KDNGAQPFLYGSNIVKAHVGRWTEDCPEHSGCVVYNMADIPLGFGVTARS
TAEARRLDPTGIVCFRQADCGEYLRDE

Ligand information

>8i9v Chain C1 (length=2152)

uugaccucggaucagguaggaggacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaacagggauugcccuaguaacggcgagugaagc
ggcaacagcucaaauuugaaagcuggcuucggcccgcguuguaauuugga
gaggaugcuuugggcgaggcuccuucugaguucccuggaacgggacgcca
cagagggugagagccccguauaguuggaagccaagccuguguaaagcucc
uucgacgagucgaguaguuugggaaugcugcucaaaaugggagguaaauu
ucuucuaaagcuaaauaccggccagagaccgauagcgcacaaguagagug
aucgaaagaugaaaagcacuuugaaaagaggguuaaauagcacgugaaau
uguugaaagggaagcgcuugugaccagacuugcgcccggcggaucauccg
guguucucaccggugcacuccgccgggcucaggccagcaucgguucuggc
ggggggauaaaggcccagggaauguggcuccuccgggaguguuauagccc
uggguguaauacccucgccgggaccgaggaccgcgcucugcaaggaugcu
ggcguaauggucaccagcgacccgucuugaaacacggaccaaggagucaa
gguuuugcgcgaguguuuggguguaaaacccgcacgcguaaugaaaguga
acguaggugagagcuucggcgcaucaucgaccgauccugauguauucgga
uggauuugaguaggagcguuaagccuuggacccgaaagauggugaacaac
caucuaguagcugguuaccgccgaaguuucccucaggauagcagugucga
ccuucaguuuuaugagguaaagcgaaugaacuuuaaauauguaagaagcc
cuuguuacuuaacugaacgugggcauucgaauguaucgacacuagugggc
cauuuuugguaagcagaacuggcgaugcgggaugaaccgaacgcgggguu
aaggugccggaguggacgcucaucagacaccacaaaaggcguuaguacau
cuugacagcaggacgguggccauggaagucggaauccgcuaaggacugug
uaacaacucaccugccgaauguacuagcccugaaaauggauggcgcucaa
gcgucccacccauaccccgcccucaggguagaaacgaugcccugaggagu
aggcggccguggaggucagugacgaagccuagggcgugagcccgggucga
acggccucuagugcagaucuuggugguaguagcaaauuugauagaacaau
guagauaagggaagucggcuccguaacuugguacggacaggggaaucugc
gagauucccacugucccuaucuacuaucuagcgaaaccacagccaaggga
acgggcuuggcaaaaucagcggggaagacccuguugagcuugacucuagu
uugacauugugaaaagacauaggagguguagaauaggugggagcuucggc
gccagugaaauaccacuacuccuauuguuuuuuuacuuauucaauugaag
acauugucagguggggaguuccuuuagucccucgaaauuugaggcuagag
gagaaaaguuaccacagggauaacuggcuuguggcggccaagcguucaua
gcgacgucgcuuuuuggaugucggcucuuccuaucauaccgaagcagaau
ucgguaagcguuggauuguucacccacuaauagggaacguggaccgucgu
gagacagguuagucccuacugaugaacucgucgcaaugguaauucagcuu
aguacgagaggaaccgcugauucagauaauugguuuuugcgguuguccga
ccgggcagugccgcgaagcuaccaucugcuggauaauggcugaacgccuc
uaagucagaauccaugccagaacgcgacgauaacccgcacguagacguau
aagaauaggcuccggccucguauccuagcaggcgauuccuccgccggccu
cgaaguggccgucgguaauucgcguauugcaaagacacgcgcgggaucaa
auccuuugcagacgacuuagaugugcgaaaggguccuguaagcaguagag
uagccuuguuguuacgaucugcugaggguaagcccuccuucgccuagauu
uc

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8i9v 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): R2 K15 M40 T57 C58 V59 A60 R61 T75 S77 R81 L82 N113 H129 R149 F165 Q167
• Binding residue (residue number reindexed from 1): R2 K15 M40 T57 C58 V59 A60 R61 T75 S77 R81 L82 N113 H129 R149 F165 Q167

Gene Ontology

Molecular Function

• GO:0003723 RNA binding

Biological Process

• GO:0042254 ribosome biogenesis
• GO:0042255 ribosome assembly
• GO:0042273 ribosomal large subunit biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0030687 preribosome, large subunit precursor

External links

• PDB: RCSB:8i9v, PDBe:8i9v, PDBj:8i9v
• PDBsum: 8i9v
• PubMed: 37129998
• UniProt: G0S435