Structure of PDB 8pv8 Chain Cz Binding Site BS01

Receptor Information
>8pv8 Chain Cz (length=103) Species: 759272 (Thermochaetoides thermophila DSM 1495) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KNLGMRKNGQVWLPAKKAFRPTKGLTSWELRVKKRQEQAAMKAKEREMKE
EKEAERQKRIQAIKERRKKKEEKERYEQLAAKMHKKRLERLKRKEKRNKL
LNS
Ligand information
>8pv8 Chain C1 (length=3085) [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
gguuuugcgcgaguguuuggguguaaaacccgcacgcguaaugaaaguga
acguaggugagagcuucggcgcaucaucgaccgauccugauguauucgga
uggauuugaguaggagcguuaagccuuggacccgaaagauggugaacuau
gcuuggauagggugaagccagaggaaacucugguggaggcucgcagcggu
ucugacgugcaaaucgaucgucaaaucugagcaugggggcgaaagacuaa
ucgaaccaucuaguagcugguuaccgccgaaguuuccggauagcaguguc
gaccuucaguuuuaugagagcgaaugauuagggacucgggggcgccuuca
uccauucucuguaagaagcccuuguuacuuaacugaacgugggcgaaugu
cgacacuagugggccauuuuugguaagcagaacuggcgaugcgggaugaa
ccgaacgcgggguuaaggugccggaguggacgcucaucagacaccacaaa
aggcguuaguacaucuugacagcaggacgguggccauggaagucggaauc
cgcuaaggacuguguaacaacucaccugccgaauguacuagcccugaaaa
uggauggcgcucaagcgucccacccauaccccgcccucaggguagaaacg
augcccugaggaguaggcggccguggaggucagugacgaagccuagggcg
ugagcccgggucgaacggccucuagugcagaucuuggugguaguagcaaa
uacuucaaugagaacuugaaggaccgaaguggggaaagguuccaugugaa
cagcgguuggacauggguuagucgauccuaagccauagggaaguuccguu
ucaaaggggcacucgugccccguguggcgaaagggaagccgguuaauauu
ccggcaccuggauguggguuuugcgcggcaacgcaacugaacgcggagac
gacggcgggggccccgggcagaguucucuuuucuucuuaacggucuauca
cccuggaaacaguuugucuggagauaggguuuaauggccggaagagcccg
acacuucugucggguccggugcgcucucgacgucccuugaaaauccgcgg
gagggaauaauucucacgccaggucguacucauaaccgcagcaggucccc
aaggugaacagccucugguugauagaacaauguagauaagggaagucggc
aaaauagauccguaacuucgggaaaaggauuggcucuaaggguugguaac
aaccaacuuagaacugguacggacagggggaaucugacugucuaauuaaa
acauagcauugcgauggccagaaagugguguugacgcaaugugauuucgc
ccagugcucuaugucaaagugaagaaauucaaccaagcgcggguaaacgg
cgggaguaacuaugacucucuuaagguuaacgagauucccacugucccua
ucuacuaucuagcgaaaccacagccaagggaacgggcuuggcaaaaucag
cggggaaagaagacccuguugagcuugacucuaguuugacauugugaaaa
gacauaggagguguagaauaggugggagcuucggcgccagugaaauacca
cuacuccuauuguuuuuuuacuuauucaaugaagcggggcuggacuugcg
uccaacuucuggaguuaagguccuucgcgggccgacccggguugaagaca
uugucagguggggaguuugggcacaucugcagguguccuaaggggggcuc
auggagaacagaaaucuccaguagaacaaaaggguaaaaguccccuugau
uuugauuuuugugaauacaaaccaugaaaguguggccccuuuagucccuc
gaaauuugaggcuagaggaaguuaccacagggauggcuuguggcggccaa
gcguucauagcgacgucgcuuugauccuucgaugucggcucuuccuauca
uaccgaagcagaauucgguaagcguuggauuguacccacuaauagggaac
gagcuggguuuagaccgucgugagacagguuaguuuuacccuacugauga
acucgucgcaaugguaauucagcuuaguacgagaggaaccgcugauucag
auaauugguuuuugcgguuguccgaccgggcagugccgcgaagcuaccau
cugcuggauaauggcugaacgccucuaagucagaauccaugccagaacgc
gacgauacuacccgcacguuguagacguauaagaauaggcuccggccucg
uauccuagcaggcgauuccuccgccggccucgaaguggccgucgguaauu
cgcguauugcaauuuagacacgcgcgggaucaaauccuuugcagacgacu
uagaugugcgaaaggguccuguaagcaguagaguagccuuguuguuacga
ucugcugaggguaagcccuccuucgccuagauuuc
........................<<<<<<.....<......>......>
>>>>.>...<.....<<....>>..<<<<<......<<.....>>.....
>>>>>..<<<..<<.......<<.<<<....>>>.>>.......>>....
<<<<<.<<<<<<<<<..<<<<<<..<<<...<<<<......>>>>.((..
....<<<.....))>>>.>..>>..>>>.>>>..>>>>....>>>>>>>>
.>>........<<<<<<<........>>>>>>>.....<<<<<..(((((
(>>>>>..>>>....>.............................<<...
.>>...............<<<<....>>>>....................
..............<<<<.<<<<<<.<...<<.<<<<<<<<<.....<<<
<<<....>>>>>>......>>>>>>>>>.>>.<<<<<<<.<<<<<<<<<<
<<<<<.......<<<<<<<<......<<<<<....>>>>>.......>>>
>>>>>......>>>>>>>>>>>>>>>........<<...>>.....>>>>
>>>....>>>>>>>.>>>>..<<<<........>>>><<<<<<...<<<<
<<<<<.<<<<..<<<..<<<<<.....>>>>>..>>>...<<....>>..
.....<<<<<..<<....>>...>>>>>.<<<<<<<<...<<....>>..
.>>>>.>>.>>....>>>>.>>>>>>>>>.<<.<..<<<<<<<.....<<
<<<<<<<..<<<....<<<<<<<....>>>>>>>.....>>>...<<<<.
<<.<<........>>>>>>>>....>>>>>>>>>...<<.......>>..
....>>>>>>...>..>.>>...<<<<<......<<..>>..<<<<<<<<
<.....<<.<<<<<<<.........<<....<<<...<<<<<..>>>>>.
>>>..>>..>>>>>...<<<<.<<<<.<......>>>>>.>>>>.>>>>.
>>>>>>>.>>..<<<<.<<<<<.....>>>>>.>>>>....<<<......
>>>...<<<<<<<...<<<(((.....<<<<<<.....<<..........
<<<.<<<<<<<<<<.......<<<<<.<<<...<<.........>>...>
>>.........<<......>>...>>>>>...>>>>>>>>>>>>>.....
.....))).>>...>>>>>>.>>>...>>>>>>><<<<<<<<<.......
..>>>>>>>>>....>>>>>.<.<<<<<<<<.<<......<<<<.<<<<.
...>>>>>>>>...>>>>>>>>>>..>.....>>>>>><<<....<<...
..<<<<<<.......>>>>>><<<<.....<<<<<.<<...<<<<<<...
<<.....>>.>>>>>>....((<<<<<<...<<<...<<<....>>>...
.....<<<<<<....>>>>>>....>>>....>>...<<<<<........
>>>>>))<<<<.<<<<.<<<....<<<....>>>...<.((<<<<<<...
<<<<.<<<<<<<.<<<<<.<<<<...[[..>>>>.><...<<<<<....<
<<<<<....<<<.....>>>....>>>>>>.....>>>>>....><<<<<
<<......>>>>>>>>>>>...>>>>>>>.>>>>.........>>>>>>.
..>.....>>>...>>>>>>>>>>>>..>>.....<<......>>>>>>>
.<<<<.....>>>>..>>>>..<<<<.....<<<<<<<.<<.........
......<<<<<....<<..>>.....>>>>><<.<<<<<<<<<<<....>
>>>>..>>>>>>.>>............<<<<<<<<<..<<<.........
>>>..<<<<<<<....<<<<.....>>>>......>>>>>>>......<<
<..<<<<<<..<<<.....<<<<....>>>>.....>>>.>>>>..>>>>
><<<<<<.......>>>>>>..........>>.>>>>>>>.....>>.>>
>>>>>..>>>>>>...>>>....<<<<<........>>>>>....<<<<<
..<<<........<<<<<.<<<<<<..<<<<<.<<<<<<<<..<<<<<<<
<<<<<<<<<<..........<<<<<..<<....>>............>>>
>>.>>>>>>>.>>>>>>>>>>...<<<<<.....<<<<..<<<<<....>
>>>>..........))..<<<<<.....>>>>>..>>>>..>>>>>....
.>>>>>>>>..>>>>>...<<.<<<<<<..>>>>>>>>...<<<<<<<..
.<<<<<<.......>>>>>>.....<<....((>>....>>>>>>>...<
<<.<<<<<....>>>>.>>>>.<<<....>>>...))<<<<<<<..<<<<
.))))))>>>>>>>>>>>.>>>>..>>>>>>>.........<<<<<<...
<<.......>>...>>>>>>...............<<<<...<<<<..<.
<<<<<<<......>>>>>>>...>.<<<.<...>.>>>.....>>>>...
..>>>>......<<<<<<<....>>>.>>>>........>>>.>>>>>..
..<<<<<<<..<<<<.<.<<<<<.................>>>>>.><<<
<<...<<<<....<<<<<<<<<<]]..>>>>>..>>>>>...>>>>..>>
>>>.<<<<...<<<<<...........>>>>>...>>>>.>>>>....>>
>>>>>.....<<<<<.<<.<<<......<<.......<<<....>>>...
.>>........<<<<.....<<<.<<<<<.......>>>>>.>>>....>
>>>..............>>>>>.>>>>>...<<<<<<<............
.>>....<<<<<<<<<.<<<....<<<<....<<<<<......>>>>>..
.>>>>...>>>....>>>>..>>>>>...>>>>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8pv8 Structural insights into coordinating 5S RNP rotation with ITS2 pre-RNA processing during ribosome formation.
Resolution2.91 Å
Binding residue
(original residue number in PDB)
G24 M25 R26 K27 N28 Q30 W32 L33 K36 K37 A38 F39 R40 K43 W48 R51 R55 K62 R76 I80 R87 H104 L108 E109 R110 R113 K114 E115 K116 K119 L120
Binding residue
(residue number reindexed from 1)
G4 M5 R6 K7 N8 Q10 W12 L13 K16 K17 A18 F19 R20 K23 W28 R31 R35 K42 R56 I60 R67 H84 L88 E89 R90 R93 K94 E95 K96 K99 L100
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Biological Process
GO:0006364 rRNA processing
GO:0042254 ribosome biogenesis
Cellular Component
GO:0005634 nucleus
GO:0005730 nucleolus

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:8pv8, PDBe:8pv8, PDBj:8pv8
PDBsum8pv8
PubMed37921038
UniProtG0SCP3

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