Structure of PDB 8i9z Chain CR Binding Site BS01

Receptor Information
>8i9z Chain CR (length=167) Species: 759272 (Thermochaetoides thermophila DSM 1495) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
RELQKRKRRSSRPTIRMPNRRKKALNPAGNNIIAKSWNKKETLSQNYTRF
GLVAKLGKATGGTAPGNKALLSESDAVPQQQQQENHIRQHDLELESKPEV
LRALEREATRPVEKTVRHQSEREREWLQRLVDKHGDDVAAMARDRKLNPY
QQTASDIKRRLKKAGLL
Ligand information
>8i9z Chain C1 (length=2787) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uugaccucggaucagguaggaggacccgcugaacuuaagcauaucaauaa
gcggaggaaaagaaaccaacagggauugcccuaguaacggcgagugaagc
ggcaacagcucaaauuugaaagcuggcuucggcccgcguuguaauuugga
gaggaugcuuugggcgaggcuccuucugaguucccuggaacgggacgcca
cagagggugagagccccguauaguuggaagccaagccuguguaaagcucc
uucgacgagucgaguaguuugggaaugcugcucaaaaugggagguaaauu
ucuucuaaagcuaaauaccggccagagaccgauagcgcacaaguagagug
aucgaaagaugaaaagcacuuugaaaagaggguuaaauagcacgugaaau
uguugaaagggaagcgcuugugaccagacuugcgcccggcggaucauccg
guguucucaccggugcacuccgccgggcucaggccagcaucgguucuggc
ggggggauaaaggcccagggaauguggcuccuccgggaguguuauagccc
uggguguaauacccucgccgggaccgaggaccgcgcucugcaaggaugcu
ggcguaauggucaccagcgacccgucuugaaacacggaccaaggagucaa
gguuuugcgcgaguguuuggguguaaaacccgcacgcguaaggugagagc
uucggcgcaucaucgaccgauccugauguauucggauggauuugaguagg
agcguuaagccuuggacccgaaagauggugaacuaugcuuggauagggug
aagccagaggaaacucugguggaggcucgcugacgugcaagaucgucaaa
ucugagcaugggggcgaaagacuaaccaucuaguagcugguuaccgccga
aguuucccucaggauagcagugucgaccuucaguuuuaugagguaaagcg
aaugaacuuuaaauauguaagaagcccuuguuacuuaacugaacgugggc
auucgaauguaucgacacuagugggccauuuuugguaagcagaacuggcg
augcgggaugaaccgaacgcgggguuaaggugccggaguggacgcucauc
agacaccacaaaaggcguuaguacaucuugacagcaggacgguggccaug
gaagucggaauccgcuaaggacuguguaacaacucaccugccgaauguac
uagcccugaaaauggauggcgcucaagcgucccacccauaccccgcccuc
aggguagaaacgaugcccugaggaguaggcggccguggaggucagugacg
aagccuagggcgugagcccgggucgaacggccucuagugcagaucuuggu
gguaguagcaaauacuucaaugagaacuugaaggaccgaaguggggaaag
guuccaugugaacagcgguuggacauggguuagucgauccuaagccauag
ggaaguuccguuucaaaggggcacucgugccccguguggcgaaagggaag
ccgguuaauauuccggcaccuggauguggguuuugcgcggcaacgcaacu
gaacgcggagacgacggcgggggccccgggcagaguucucuuuucuucuu
aacggucuaucacccuggaaacaguuugucuggagauaggguuuaauggc
cggaagagcccgacacuucugucggguccggugcgcucucgacgucccuu
gaaaauccgcgggagggaauaauucucacgccaggucguacucauaaccg
cagcagguccccaaggugaacagccucugguugauagaacaauguagaua
agggaagucggcuccguaacuucgggaaaagggcucuaaggguugggcac
guugggcuuugggcggacgcccugggagcagagggccucuagccgggcaa
ccggccggcggcccucagcacccgggguugaagcccuuagcccggcgugc
gguuaacaaccaacuuagaacugguacggacacacugucccuaucuacua
ucuagcgaaaccacagccaagggaacgggcuuggcaaaaucagcggggaa
agaagacccuguugagcuugacucuaguuugacauugugaaaagacauag
gagguguagaauaggugggagcuucggcgccagugaaauaccacuacucc
uauuguuuuuuuacuuauucaaugugaagacauugucagguggggaguuc
cuuuagucccucgaaauuugaggcuagaggagaaaaguuaccacagggau
aacuggcuuguggcggccaagcguucauagcgacgucgcugaugucggcu
cuuccuaucauaccgaagcagaauucgguaagcguuggauuguucaccca
cuaauagggagugagcuggaccgucgugagacagguuagucccuacugau
gaacucgucgcaaugguaauucagcuuaguacgagaggaaccgcugauuc
agauaauugguuuuugcgguuguccgaccgggcagugccgcgaagcuacc
aucugcuggauaauggcugaacgccucuaagucagaauccaugccagaac
gcgacgauacuacccgcacguuguagacguauaagaauaggcuccggccu
cguauccuagcaggcgauuccuccgccggccucgaaguggccgucgguaa
uucgcguauugcaauuuagacacgcgcgggaucaaauccuuugcagacga
cuuagaugugcgaaaggguccuguaagcaguagaguagccuuguuguuac
gaucugcugaggguaagcccuccuucgccuagauuuc
........................<<<<<<.....<......>......>
>>>>.>.........<<....>>..<<<<<......<<.....>>.....
>>>>>..<<<..<<.......<<.<<<....>>>.>>.......>>....
<<<<<.<<<<<<<<<..<<<<<<..<<....<<<<......>>>>.((..
....<<<.....))>>>....>>..>>>.>>>..>>>>....>>>>>>>>
.>>........<<<<<<<........>>>>>>>.....<<<<<<......
>>>>>>..>>>..................................<<...
.>>...............<<<<....>>>>....................
..............<<<<.<<<<<<.<...<<.<<<<<<<<<.....<<<
<<<....>>>>>>......>>>>>>>>>.>>.<<<<<<<.<<<<<<<<<<
<<<<<.......<<<<<<<<......<<<<<....>>>>>.......>>>
>>>>>......>>>>>>>>>>>>>>>........<<...>>.....>>>>
>>>....>>>>>>>.>>>>..<<<<.<....>.>>>><<<<<<....<<<
<<<<<.<<<<..<<<...<<<<.....>>>>...>>>....<<<<<..<<
....>>...>>>>>.<<<<<<<<....<....>....>>>.>>>.>>...
.>>>>.>>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<<<<.
..<<<<<<<....>>>>>>>...>.>>>..<<<<<........>>>>>..
>>>>>>>>>..<<.<....>.>>.>>>>>>>.....>.>>...<<<<<..
..<.<<<....>>>.><<<<<<<<<<....<<.<<<<<<<.....<<<..
......>>.>.....>>>>>...<<<<.<<<<.<......>>>>>.>>>>
.....>>>>..>>>>>>>>.>>..<<<<.<<<<<.....>>>>>.>>>>.
...<<<......>>>...<<<<<<<...<<<(((.....<<<<<<.....
.<..........<<<.<<<<<<<<<<.....<.<<<<<.<<<...<<...
......>>...>>>.........<<......>>...>>>>>.>.>>>>>>
>>>>>>>..........))).>....>>>>>>.>>>...>>>>>>><<<<
<<<<<.........>>>>>>>>>....>>>>>.<.<<<<<<<<.<<....
..<<<<.<<<<....>>>>>>>>...>>>>>>>>>>..>.....>>>>>>
<<.....<<.....<<<<<<.......>>>>>><<<<.....<<<<<.<<
...<<<<<<...<<.....>>.>>>>>>....((<<<<<<...<<<...<
<<....>>>........<<<<<......>>>>>....>>>....>>...<
<<<<........>>>>>))<<<<.<<<<.<<<....<<<....>>>....
...<<<<<<...<<<<.<<<<<<<<<<<<<.<<<<...((..>>>>.><.
..<<<<<....<<<<<<....<<<.....>>>....>>>>>>.....>>>
>>....><<<<<<<<....>>>>>>>>>>>>.>.>>>>>>>.>>>>....
.....>>>>>>.........>>>...>>>>>>>>>>>>..>>.....<<.
.....>>>>>>>.<<<<.....>>>>..>>>>..<<<<.....<<<<<<<
.<<.......<.<<<<<<.<.<<.................<<<<<.<<<<
<..<.<<<..<<<<....<<<<<<<<.<<.<<<<<<<.<<.<<<<<....
>>>>>.>>.>>>>>>>.>>.>>>>>>>>....>>>>..>>>>...>>>>>
......>>>>>......>>...>.>>>>>>....>...>>.>>>>>>>..
>>>>>>....>>....<<<<<........>>>>>....<<<<<..<<<..
......<<<<<<.<<<<<<.<<<<<.<<<<<<<<..<<<<<<<<<<<<<<
<<<..........<<<<<......................>>>>>.>>>>
>>>.>>>>>>>>>>...<<<<...>>>>.....>>>>>>>>..>>>>>..
<<<<<<..<<<<<<...>>>>>>>>>>>>.....>>>>>.>.>>>>>>..
.((........<<<<<<...<<.......>>...>>>>>>((....<<<<
.<<<<<..<.<<<<<<<......>>>>>>>...>.<<<.<...))>.>>>
.....>>>>>)).>>>>.<<<<<<<....>>>.>>>>....>>>.>>>>>
....<<<<<<<..<<<<.<.<<<<<.................>>>>>.><
<<<<...<<<<....<<<<<<<<<<))..>>>>>..>>>>>...>>>>..
>>>>>.<<<<...<<<<<...........>>>>>...>>>>.>>>>....
>>>>>>>.....<<<<<.<<.<<<......<<.......<<<....>>>.
...>>........<<<<.....<<<.<<<<<.......>>>>>.>>>...
.>>>>..............>>>>>.>>>>>...<<<<<<<..........
...>>....<<<<<<<<<.<<<....<<<<.<..<<<<<......>>>>>
..>>>>>...>>>....>>>>..>>>>>...>>>>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8i9z Mechanism of 5S RNP recruitment and helicase-surveilled rRNA maturation during pre-60S biogenesis.
Resolution2.7 Å
Binding residue
(original residue number in PDB)
R3 E4 Q6 K7 K9 R10 I17 R18 M19 P20 R22 A30 T44 K60 A61 T62 G63 G64 N144 H145 Q148 H149 R185 H186 S188 R190 E191 W194 Y218 Q220 T221 S223 R227 R228
Binding residue
(residue number reindexed from 1)
R1 E2 Q4 K5 K7 R8 I15 R16 M17 P18 R20 A28 T42 K58 A59 T60 G61 G62 N85 H86 Q89 H90 R117 H118 S120 R122 E123 W126 Y150 Q152 T153 S155 R159 R160
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Biological Process
GO:0042273 ribosomal large subunit biogenesis
Cellular Component
GO:0005730 nucleolus

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:8i9z, PDBe:8i9z, PDBj:8i9z
PDBsum8i9z
PubMed37129998
UniProtG0S832

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