Structure of PDB 8i9v Chain LM Binding Site BS01

Receptor Information

>8i9v Chain LM (length=137) Species: 759272 (Thermochaetoides thermophila DSM 1495)

AEINVEATSWRRVEVGRVLKLENGSLAAIVEIIDHKRVLADGPSSDPKLA
TPRGIVPLSRALLTPIVIPKLPRGARTGAVKKAWEAYGVDAKWKETNWAK
KQLQQERRQSLTDFDRFKVMRLKKQRRFEERKALAKI

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): A8 T9 W11 L63 P73 R74 G75 R77 T78 K83 N98 W99 M121 R122 K125 R128 F129 R132
• Binding residue (residue number reindexed from 1): A7 T8 W10 L62 P72 R73 G74 R76 T77 K82 N97 W98 M120 R121 K124 R127 F128 R131

Gene Ontology

Molecular Function

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

Biological Process

• GO:0006412 translation
• GO:0042273 ribosomal large subunit biogenesis

Cellular Component

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

External links

• PDB: RCSB:8i9v, PDBe:8i9v, PDBj:8i9v
• PDBsum: 8i9v
• PubMed: 37129998
• UniProt: G0S1R0