Structure of PDB 8pv6 Chain Lc Binding Site BS01

Receptor Information
>8pv6 Chain Lc (length=95) Species: 759272 (Thermochaetoides thermophila DSM 1495) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SIGAKLALVIKSGKVVLGYRSTLKALRSGKAKLILIAANTPPLRKSELEY
YSMMSKTPVHHYSGTNIELGTACGKLFRCSTMAILDAGDSDILAD
Ligand information
>8pv6 Chain C1 (length=3100) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
agguugaccucggaucagguaggaggacccgcugaacuuaagcauaucaa
uaagcggaggaaaagaaaccaacagggauugcccuaguaacggcgaguga
agcggcaacagcucaaauuugaaagcuggcuucggcccgcguuguaauuu
ggagaggaugcuuugggcgaggcuccuucugaguucccuggaacgggacg
ccacagagggugagagccccguauaguuggaagccaagccuguguaaagc
uccuucgacgagucgaguaguuugggaaugcugcucaaaaugggagguaa
auuucuucuaaagcuaaauaccggccagagaccgauagcgcacaaguaga
gugaucgaaagaugaaaagcacuuugaaaagaggguuaaauagcacguga
aauuguugaaagggaagcgcuugugaccagacuugcgcccggcggaucau
ccgguguucucaccggugcacuccgccgggcucaggccagcaucgguucu
ggcggggggauaaaggcccagggaauguggcuccuccgggaguguuauag
cccuggguguaauacccucgccgggaccgaggaccgcgcucugcaaggau
gcuggcguaauggucaccagcgacccgucuugaaacacggaccaaggagu
caagguuuugcgcgaguguuuggguguaaaacccgcacgcguaaugaaag
ugaacguaggugagagcuucggcgcaucaucgaccgauccugauguauuc
ggauggauuugaguaggagcguuaagccuuggacccgaaagauggugaac
uaugcuuggauagggugaagccagaggaaacucugguggaggcucgcagc
gguucugacgugcaaaucgaucgucaaaucugagcaugggggcgaaagac
uaaucgaaccaucuaguagcugguuaccgccgaaguuuccggauagcagu
gucgaccuucaguuuuaugagagcgaaugauuagggacucgggggcgccu
ucauccauucucuguaagaagcccuuguuacuuaacugaacgugggcgaa
ugucgacacuagugggccauuuuugguaagcagaacuggcgaugcgggau
gaaccgaacgcgggguuaaggugccggaguggacgcucaucagacaccac
aaaaggcguuaguacaucuugacagcaggacgguggccauggaagucgga
auccgcuaaggacuguguaacaacucaccugccgaauguacuagcccuga
aaauggauggcgcucaagcgucccacccauaccccgcccucaggguagaa
acgaugcccugaggaguaggcggccguggaggucagugacgaagccuagg
gcgugagcccgggucgaacggccucuagugcagaucuuggugguaguagc
aaauacuucaaugagaacuugaaggaccgaaguggggaaagguuccaugu
gaacagcgguuggacauggguuagucgauccuaagccauagggaaguucc
guuucaaaggggcacucgugccccgggcgaaagggaagccgguuaauauu
ccggcaccuggauguggguuuugcgcggcaacgcaacugaacgcggagac
gacggcgggggccccgggcagaguucucuuuucuucuuaacggucuauca
cccuggaaacaguuugucuggagauaggguuuaauggccggaagagcccg
acacuucugucggguccggugcgcucucgacgucccuugaaaauccgcgg
gagggaauaauucucacgccaggucguacucauaaccgcagcaggucccc
aaggugaacagccucugguugauagaacaauguagauaagggaagucggc
aaaauagauccguaacuucgggaaaaggauuggcucuaaggguugggcac
gugcgugcgguuaacaaccaacuuagaacugguacggacagggggaaucu
gacugucuaauuaaaacauagcauugcgauggccagaaagugguguugac
gcaaugugauuucgcccagugcucuaugucaaagugaagaaauucaacca
agcgcggguaaacggcgggaguaacuaugacucucuuaagguuaacgaga
uucccacugucccuaucuacuaucuagcgaaaccacagccaagggaacgg
gcuuggcaaaaucagcggggaaagaagacccuguugagcuugacucuagu
uugacauugugaaaagacauaggagguguagaauaggugggagcuucggc
gccagugaaauaccacuacuccuauuguuuuuuuacuuauucaaugaagc
ggggcuggacuugcguccaacuucuggaguuaagguccuucgcgggccga
cccggguugaagacauugucagguggggaguuugggcacaucugcaggug
uccuaaggggggcucauggagaacagaaaucuccaguagaacaaaagggu
aaaaguccccuugauuuugauuuuugugaauacaaaccaugaaagugugg
ccccuuuagucccucgaaauuugaggcuagaggaaguuaccacagggaug
gcuuguggcggccaagcguucauagcgacgucgcuuugauccuucgaugu
cggcucuuccuaucauaccgaagcagaauucgguaagcguuggauuguac
ccacuaauagggaacgagcuggguuuagaccgucgugagacagguuaguu
uuacccuacugaugaacucgucgcaaugguaauucagcuuaguacgagag
gaaccgcugauucagauaauugguuuuugcgguuguccgaccgggcagug
ccgcgaagcuaccaucugcuggauaauggcugaacgccucuaagucagaa
uccaugccagaacgcgacgauacuacccgcacguuguagacguauaagaa
uaggcuccggccucguauccuagcaggcgauuccuccgccggccucgaag
uggccgucgguaauucgcguauugcaauuuagacacgcgcgggaucaaau
ccuuugcagacgacuuagaugugcgaaaggguccuguaagcaguagagua
gccuuguuguuacgaucugcugaggguaagcccuccuucgccuagauuuc
...........................<<<<<<.....<......>....
..>>>>>.>...<.....<<....>>..<<<<<......<<.....>>..
...>>>>>..<<<..<<.......<<.<<<....>>>.>>.......>>.
...<<<<<.<<<<<<<<<..<<<<<<..<<<...<<<<......>>>>.(
(......<<<.....))>>>.>..>>..>>>.>>>..>>>>....>>>>>
>>>.>>........<<<<<<<........>>>>>>>.....<<<<<..((
((((>>>>>..>>>....>.............................<<
....>>...............<<<<....>>>>.................
.................<<<<.<<<<<<.<...<<.<<<<<<<<<.....
<<<<<<....>>>>>>......>>>>>>>>>.>>.<<<<<<<.<<<<<<<
<<<<<<<<.......<<<<<<<<......<<<<<....>>>>>.......
>>>>>>>>......>>>>>>>>>>>>>>>........<<...>>.....>
>>>>>>....>>>>>>>.>>>>..<<<<........>>>><<<<<<...<
<<<<<<<<.<<<<..<<<..<<<<<.....>>>>>..>>>...<<....>
>.......<<<<<..<<....>>...>>>>>.<<<<<<<<...<<....>
>...>>>>.>>.>>....>>>>.>>>>>>>>>.<<.<...<<<<<<....
.<<<<<<<<<..<<<....<<<<<<<....>>>>>>>.....>>>...<<
<<.<<.<<........>>>>>>>>....>>>>>>>>>...<<.......>
>......>>>>>>......>.>>...<<<<<......<<..>>..<<<<<
<<<<.....<<.<<<<<<<.........<<....<<<...<<<<<..>>>
>>.>>>..>>..>>>>>...<<<<.<<<<.<......>>>>>.>>>>.>>
>>.>>>>>>>.>>..<<<<.<<<<<.....>>>>>.>>>>....<<<...
...>>>...<<<<<<<...<<<(((.....<<<<<<.....<<.......
...<<<.<<<<<<<<<<.......<<<<<.<<<...<<.........>>.
..>>>.........<<......>>...>>>>>...>>>>>>>>>>>>>..
........))).>>...>>>>>>.>>>...>>>>>>><<<<<<<<<....
.....>>>>>>>>>....>>>>>.<.<<<<<<<<.<<......<<<<.<<
<<....>>>>>>>>...>>>>>>>>>>..>.....>>>>>><<.....<<
.....<<<<<<.......>>>>>><<<<.....<<<<<.<<...<<<<<<
...<<.....>>.>>>>>>....((<<<<<<...<<<...<<<....>>>
........<<<<<......>>>>>.>>>....>>...<<<<<........
>>>>>))<<<<.<<<<.<<<....<<<....>>>...<..{<<<<<<...
<<<<.<<<<<<<.<<<<<.<<<<...[[..>>>>.><...<<<<<....<
<<<<<....<<<.....>>>....>>>>>>.....>>>>>....><<<<<
<<......>>>>>>>>>>>...>>>>>>>.>>>>.........>>>>>>.
..>.....>>>...>>>>>>>>>>>>..>>.....<<......>>>>>>>
.<<<<.....>>>>..>>>>..<<<<.....<<<<<<<.<<.........
<.....<<<<<....<....>.....>>>>><<.<<<<<<<<<<<.<<<<
<..>>>>>......>>>>>..>>>>>>.>>............<<<<<<<<
<..<<<.........>>>..<<<<<<<....<<<<.....>>>>......
>>>>>>>......<<<..<<<<<<..<<<.....<<<<....>>>>....
.>>>.>>>>..>>>>><<<<<<.......>>>>>>..........>>.>>
>>>>>..>..>>.>>>>>>>..>>>>>>....>>....<<<<<.......
.>>>>>....<<<<<..<<<........<<<<<.<<<<<<..<<<<<.<<
<<<<<<..<<<<<<<<<<<<<<<<<..........<<<<<..<<....>>
............>>>>>.>>>>>>>.>>>>>>>>>>...<<<<<.....<
<<<..<<<<<....>>>>>..........}...<<<<<.....>>>>>..
>>>>..>>>>>.....>>>>>>>>..>>>>>...<<.<<<<<<..>>>>>
>>>...<<<<<<<...<<<<<<.......>>>>>>.....<<....((>>
....>>>>>>>...<<<.<<<<<....>>>>.>>>>.<<<....>>>...
))<<<<<<<..<<<<.))))))>>>>>>>>>>>.>>>>..>>>>>>>...
......<<<<<<...<<.......>>...>>>>>>...............
<<<<...<<<<..<.<<<<<<<......>>>>>>>...>.<<<.<...>.
>>>.....>>>>.....>>>>......<<<<<<<....>>>.>>>>....
....>>>.>>>>>....<<<<<<<..<<<<.<.<<<<<............
.....>>>>>.><<<<<...<<<<....<<<<<<<<<<]]..>>>>>..>
>>>>...>>>>..>>>>>.<<<<...<<<<<...........>>>>>...
>>>>.>>>>....>>>>>>>.....<<<<<.<<.<<<......<<.....
..<<<....>>>....>>........<<<<.....<<<.<<<<<......
.>>>>>.>>>....>>>>..............>>>>>.>>>>>...<<<<
<<<.............>>....<<<<<<<<<.<<<....<<<<....<<<
<<......>>>>>...>>>>...>>>....>>>>..>>>>>...>>>>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB8pv6 Structural insights into coordinating 5S RNP rotation with ITS2 pre-RNA processing during ribosome formation.
Resolution2.94 Å
Binding residue
(original residue number in PDB)
L28 G29 Y30 R31 S32 K35 P52 P53 R55 S57 E60 L87 F88 R89 C90 S91
Binding residue
(residue number reindexed from 1)
L17 G18 Y19 R20 S21 K24 P41 P42 R44 S46 E49 L76 F77 R78 C79 S80
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
Cellular Component
GO:0005840 ribosome
GO:0022625 cytosolic large ribosomal subunit

View graph for
Molecular Function

View graph for
Cellular Component
External links
PDB RCSB:8pv6, PDBe:8pv6, PDBj:8pv6
PDBsum8pv6
PubMed37921038
UniProtG0SEI0

[Back to BioLiP]