Structure of PDB 6o8y Chain P Binding Site BS01

Receptor Information
>6o8y Chain P (length=117) Species: 1351 (Enterococcus faecalis) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ITKPDKNKTRQKRHRRVRNKISGTAECPRLNIFRSNKNIYAQVIDDVAGV
TLASASALDKEISGGTKTETAAAVGKLVAERAAEKGIKKVVFDRGGYLYH
GRVQALAEAARENGLEF
Ligand information
>6o8y Chain A (length=2897) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uuaagugaauaagggcgcacgguggaugccuuggcacuaggagccgauga
aggacgggacuaacaccgauaugcuuuggggagcuguaaguaagcuauga
uccagagauuuccgaaugggggaacccaauaucuuuuauaggauauuacu
uuucagugaauacauagcugauuagagguagacgcagagaacugaaacau
cuuaguaccugcaggaagagaaagaaaauucgauucccugaguagcggcg
agcgaaacgggaagagcccaaaccaacaagcuugcuuguugggguuguag
gacuccgauaugguagucuguuaguauaguugaaggauuuggaaaauucc
gcuaaagagggugaaagccccguagacgaaaugcugacaacaccuaggag
gauccugaguacggcggaacacgagaaauuccgucggaauccgcggggac
caucccgcaaggcuaaauacucccuagugaccgauagugaaccaguaccg
ugagggaaaggugaaaagcaccccggaaggggagugaaauagauccugaa
accgugugccuacaacaagucaaagcucguuaaugagugauggcgugccu
uuuguagaaugaaccggcgaguuacgauugcaugcgagguuaagucgaag
agacggagccgcagcgaaagcgagucugaauagggcgaaugaguauguag
ucguagacccgaaaccaugugaucuacccauguccagguugaaggugcgg
uaaaacgcacuggaggaccgaacccacguacguugaaaagugcggggaug
agguguggguagcggagaaauuccaaacgaacuuggagauagcugguucu
cuccgaaauagcuuuagggcuagccucggaauugagaaugauggagguag
agcacuguuuggacuaggggcccaucggguuaccgaauucagauaaacuc
cgaaugccauucauuuauauccgggagucagacugcgagugauaagaucc
guagucgaaagggaaacagcccagaccaccagcuaaggucccaaaauaua
uguuaaguggaaaaggaugugggguugcacagacaacuaggauguuggcu
uagaagcagccaccauuuaaagagugcguaauagcucacuagucgaguga
cccugcgccgaaaauguaccggggcuaaacauauuaccgaagcuguggac
uacaccauuagguguagugguaggagagcguucuaagggcguugaagguc
gaucgugaggacggcuggagcgcuuagaagugagaaugccgguaugagua
gcgaaagacaggugagaauccuguccaccguaugacuaagguuuccuggg
gaaggcucguccgcccaggguuagucgggaccuaagccgaggccgauagg
cguaggcgauggacaacagguugauauuccuguaccaguuguuuuuguuu
gagcaauggagggacgcaguaggcuaaggaaugcaugcgauuggaagugc
auguccaagcaaugagucuugaguagaguuaaaugcuuuacucuuuaagg
acaaguugugacggggagcgaaauaguagcgaaguuccugacgucacacu
gccaagaaaagcuucuagugagaaaacaacugcccguaccguaaaccgac
acagguagucgaggagaguauccuaaggugagcgagcgaacucucguuaa
ggaacucggcaaaaugaccccguaacuucgggagaaggggugcugacuuc
ggucagccgcagugaauaggcccaagcgacuguuuaucaaaaacacaggu
cucugcaaaaucguaagaugaaguauaggggcugacgccugcccggugcu
ggaagguuaagaggauggguuagcuucggcgaagcucagaauugaagccc
caguaaacggcggccguaacgguccuaagguagcgaaauuccuugucggg
uaaguuccgacccgcacgaaaggcguaacgauuugggcacugucucaacg
agagacucggugaaauuuuaguaccugugaagaugcagguuacccgcgac
aggacggaaagaccccauggagcuuuacuguaguuugauauugaguguuu
guaccacauguacaggauagguaggagccgaugagaccggaacgcuaguu
ucggaggaggcgcuggugggauacuacccuuguguuaugaacccucuaac
ccgcaccacuaaucguggugggagacagugucagaugggcaguuugacug
gggcggucgccuccuaaaagguaacggaggcgcccaaagguucccucaga
augguuggaaaucauucgaagaguguaaaggcagaagggagcuugacugc
gagaccuacaagucgagcagggacgaaagucgggcuuagugauccggugg
uuccgcauggaagggccaucgcucaacggauaaaagcuacccuggggaua
acaggcuuaucucccccaagaguccacaucgacggggagguuuggcaccu
cgaugucggcucgucgcauccuggggcuguagucggucccaaggguuggg
cuguucgcccauuaaagcggcacgcgagcuggguucagaacgucgugaga
caguucggucccuauccgucgcgggcguuggaaauuugagaggagcuguc
cuuaguacgagaggaccgggauggacuuaccgcugguguaccaguuguuc
ugccaagggcauugcuggguagcuauguagggaagggauaaacgcugaaa
gcaucuaagugugaagcccaccucaagaugagauuucccauuucuuuaag
aaaguaagaccccugagagaugaucagguagauagguuggaaguggaagg
cuagugauaguuggagcggaccaauacuaaucggucgaggacuuaac
<<<<<<......<<<<<<<<<<<....{[[..[[<<<<<<<[[<<.....
.<<<<<<.((..((.>>>.....<<<<<<<..<<<))..)).>>>.....
>>>>>>>...>>>....<<<....>>><<<<<<<......>>>>>>>.<<
..<<<<<.........>>>>>..>>.>>....<<<<<......<......
>.......>>>>.>.........<<....>>..<<<<<......<<....
.>>.....>>>>>..(((....<<<<<<<......>>>>>>>......<<
<<<<<<.....<<<.<<.<<<<<<<<<.<<<...<<<.<......>.>>>
((......<<<.....))>>>...>>>...>>>>>>>>>>>>>>..>>>>
..>>>>.....<<<<<<<<.........>>>>>>>>......<<<<<..<
<<<>>>>>..)))......]].>>>>>>>.]]...............<<.
...>>....]].........<<<<....>>>>.............}....
>>>>>>>>>>>.......<<<<..<<<<......>>>>..>>>>...<.<
........>.>.<<<<<<....<<<<<<<<<<<<<..<<<...<<.....
..>>...>>>...<<....>>...<<<.....>>>.......>>>>>>>>
>>>>>..<<.<...<<<.<<.....<<<<<<<<<..<<<....<<<<<<.
.....>>>>>>.....>>>...<<<.<<<<<........>>>>>>>>...
.>>>>>>>>>...<<<.....>>>......>>.>>>......>.>>..<<
<<<<....<<<<<....>>>>><<<<<<<<..<..<<<<<<<<<......
.....<<<<<<<<.......<<<...>>>........>>>>>>>>.....
......>>>>.>>>>>..>>>>>>>.>>..<<<<<<<.<<......>>.>
>>>>>>....<<<......>>>...<<<<.<<<...<<<(((.....<<<
<<<...........<<..<<<<<<<<<........<<.....<...<...
..........>...>..........................>>....>>>
>>>>>>.>>...........))).....>>>>>>.>>>...>>>>>>><<
<<<<<<....>>>>>>>>....>>>>>><.<<<<<<<.<<......<<<<
<.<<....>>.>>>>>...>>.>>>>>>>..>.....>>>>>><......
<<....<<<<<<.......>>>>>><<<<....<<<<<.<<<..<<<<<<
...<<.....>>.>>>>>>....((<<<<.<<...<<<...<<<....>>
>...>>>...>>...<<<<<........>>>>>))<<<<<<<........
..<<...<<<<....<<<<...<...<<<<<.........[.[.......
....<...<<<<<..<<<<.<<<<<<<<<.....>>>>>>>>>.....>>
>>..>>>>>....>...<<.........>>....>>>>>....>....>>
>>.........>>>>..>>......>>>>>>>>>>>.>>>.....<<...
...>>>>>>>.<<<<.....>>>>..>>>>..<<<<....<<<<<<<<.<
<.........<.....<<<<<....<<..>>.....>>>>><<<<<<...
.>>>>>>............<<<<<<<<<..<<<.........>>>..<<<
<<<<.....<<<....>>>.......>>>>>>>.<<<<<.<<<..<<<<<
<<..<<<...<<...<<<<<..<<....>>...>>>>>...>>...>>>>
>>>>..>>>>><<<<<...>>>>>........<...........<<<<<<
.....>>>>>>.....>....>>>>>..>>.>>>>>>>..>..>>.>>>>
>>>>.>>>>>>.....>.....<<<<<........>>>>>..<<<<<<<<
.(((.((......<<<<.((<<<<..<<<<<.<<<<<<<<<.<<<.<<<<
<<<.<<<<...........<<<<<..<<<.......<<<<<<<....>>>
>>>>....>>>............>>>>>..>>>>.>>>>>>>.>>>....
<<.<<<<<<.....>>>>>>>>.....>>>>>>>>>..>>>>>..<<<<.
....>>>><<<<<<...........>>>>>>..<<...<<<<<<<...<<
<<<<.......>>>>>>.....<<.((.((>>....>>>>>>>...<<<<
..<<<......>>>..>>>>.<<<....>>>.>>))))......<<<<<<
<.((..>>>>..))>>>>>>>.............>>>>..))>>>>....
...<<<<.<.<<<<<<...<<.......>>...>>>>>>...>>>>.>..
.....<.<<<.<<<<<<..<<<<<<<<<......>>>>>>..>>>.<<<<
<.....>>>>>.....>>>>>..>...>>>..>....<<<<<<<....>>
>.>>>>....))..)))>>>>>>>>....<<<<<<<...<<<<..<<<<<
<<...............>>>>>>>.<<<<<...<<<<...<<<<<<<<<<
<.].]>>>>>>..>>>>>...>>>>.>>>>>...<<<....<<<<<....
.......>>>>>....>>>.>>>>.......>>>>>>>..<<<......>
>>.....<<<<<<<<<.......>>>>>....<<<<<<<<..<<....<<
<<<....>>>>>...>>...>>>>>.>>>...>>>>....>>>>>>.
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]
PDB6o8y Cryo-electron microscopy structure of the 70S ribosome from Enterococcus faecalis.
Resolution4.14 Å
Binding residue
(original residue number in PDB)
I2 R14 R17 N20 I22 F93 R95 L99 Y100 R112 F118
Binding residue
(residue number reindexed from 1)
I1 R13 R16 N19 I21 F92 R94 L98 Y99 R111 F117
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0008097 5S rRNA binding
GO:0019843 rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005737 cytoplasm
GO:0005840 ribosome
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:6o8y, PDBe:6o8y, PDBj:6o8y
PDBsum6o8y
PubMed33004869
UniProtA0A1B4XKS7

[Back to BioLiP]