Structure of PDB 8v9k Chain 5 Binding Site BS01

Receptor Information
>8v9k Chain 5 (length=49) Species: 246196 (Mycolicibacterium smegmatis MC2 155) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DVRPKITLACEVCKHRNYITKKNRRNDPDRLEIKKFCPNCGTHQPHKES
Ligand information
>8v9k Chain A (length=3081) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
aaguguuuaagggcgcaugguggaugccuuggcacugggagccgaugaag
gacguaggaggcugcgauaagccucggggagcugucaaccgagcguugau
ccgaggauguccgaauggggaaacccggcacgagugaugucgugucacca
ggcgcugaauauauaggcgucuggggggaacgcggggaagugaaacaucu
caguacccguaggaagagaaaacaaaaugugauuccgugaguaguggcga
gcgaaagcggaggauggcuaaaccguaugcaugugauaccggguaggggu
ugugugugcgggguugugggaccuaucuuuccggcucuaccuggcuggag
ggcagugagaaaauguugugguuagcggaaauggcuugggauggccugcc
guagacggugagagcccgguacgugaaaacccgacgucugucuugauggu
guucccgaguagcagcgggcccguggaaucugcugugaaucugccgggac
cacccgguaagccugaauacuucccagugaccgauagcggauuaguaccg
ugagggaauggugaaaaguaccccgggaggggagugaaagaguaccugaa
accgugcgcuuacaauccgucagagcccucgacgugucguggggugaugg
cgugccuuuugaagaaugagccugcgagucagggacaugucgcgagguua
acccgggugggguagccgcagcgaaagcgagucugaauagggcguaucca
cacaagagugugugguguagugguguguucuggacccgaagcggagugau
cuacccauggccagggugaagcgcggguaagaccgcguggaggcccgaac
ccacuuagguugaagacugaggggaugagcuguggguaggggugaaaggc
caaucaaacuccgugauagcugguucuccccgaaaugcauuuaggugcag
cgucgcauguuucuugccggagguagagcuacuggauggccgaugggccc
cacaggguuacugacgucagccaaacuccgaaugccgguaaguccaagag
ugcggcagugggacggcgggggauaagcuccgugcgucgagagggaaaca
gcccagaucgccggcuaaggccccuaagcgugugcuaaguggaaaaggau
gugcagucgcgaagacaaccaggagguuggcuuagaagcagccacccuug
aaagagugcguaauagcucacuggucaagugauugugcgccgauaaugua
gcggggcucaagcacaccgccgaagccgcggcagccaacguguuggcugg
guaggggagcguccugcauccggugaagccgccgagugaucgaguggugg
agggugugggagugagaaugcaggcaugaguagcgauuaggcaagugaga
accuugcccgccgaaagaccaaggguuccugggccaggccaguccgccca
gggugagucgggaccuaaggcgaggccgacaggcguagucgauggacaac
ggguugauauucccguacccguguaugugcguccaugaugaaucagcggu
acuaaccauccaaaaggcugcaugggaccuucguugguaguagucaagcg
auggggugacgcaggaagguagccguaccggucagugguaauaccggggu
aagccuguagggagucagauagguaaauccgucuggcauauauccugaga
ggugaugcauagccgagugaggcgaauucggugauccuaugcugccgaga
aaagccucuagcgaggacauacacggcccguaccccaaaccaacacaggu
ggucagguagagaauacuaaggcguacgagugaacuaugguuaaggaacu
cggcaaaaugcccccguaacuucgggagaagggggacccacauggcgugu
aagccuuuacggcccaagcgugaguggguggcacaaaccagugagaagcg
acuguuuacuaaaaacacagguccgugcgaagucgcaagacgauguauac
ggacugacgccugcccggugcuggaagguuaagaggacccguuaacuccc
uuugggggugaagcggagaauuuaagccccaguaaacggcggugguaacu
auaaccauccuaagguagcgaaauuccuugucggguaaguuccgaccugc
acgaauggcguaacgacuucucaacugucucaaccauagacucggcgaaa
uugcacuacgaguaaagaugcucguuacgcgcggcaggacgaaaagaccc
cgggaccuucacuacaacuugguauuggugcucgauacgguuuguguagg
auaggugggagacugugaagcucacacgccaguguggguggagucguugu
ugaaauaccacucugaucguauugggccucuaaccucggaccguauaucc
gguucagggacagugccugguggguaguuuaacuggggcgguugccuccu
aaaauguaacggaggcgcccaaagguucccucaaccuggacggcaaucag
guguugaguguaagugcacaagggagcuugacugcgagacggacaugucg
agcagggacgaaagucgggacuagugauccggcaccucugaguggaaggg
gugucgcucaacggauaaaagguaccccggggauaacaggcugaucuucc
ccaagaguccauaucgacgggaugguuuggcaccucgaugucggcucguc
gcauccuggggcuggagcaggucccaaggguugggcuguucgcccauuaa
agcggcacgcgagcuggguuuagaacgucgugagacaguucggucucuau
ccgccgcgcgcgucagaagcuugaggaaaccugucccuaguacgagagga
ccgggacggacgaaccucugguauaccaguugucccaccaggggcacggc
uggauagccacguucggacaggauaaccgcugaaagcaucuaagcgggaa
accucuuccaagaccaggcuucucacccucuaggagggauaaggcccccc
gcagaccacgggauugauagaccagaccuggaagccuaguaauaggugca
gggaacuggcacuaaccggccgaaaacuuac
<<<<......<<<<<<<<<<<....{<<..<<<<<<<<<<<<<......<
<<<<<.[[.(((.>>>.....<<<<<<<..<<<)))..]].>>>.....>
>>>>>>...>>>....<<<....>>><<<<<<<......>>>>>>>.<<<
<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>>.
.....>>>>>.>.........<<.....>>..<<<<<<.....<<.....
>>....>>>>>>...<<<....<<<<<<<<<<.........(((((....
.>>>>>>>>>>......<<<<.<<.....<<<<<<<))))).>>>>>>><
<<<<<.......<<<<<<.<<<<.<<<.....<<<<......>>>>.((.
.....<<<.....))>>>...>>>...>>>>>>>>>>>>>>>>.....>.
>.>>>>.....<<<<<<<<.........>>>>>>>>......<<<<<..<
<<<>>>>>..>>>......>>.>>>>>>>.>>...............<<.
...>>....>>.........<<<<....>>>>.............}....
>>>>>>>>>>>.......<<<<..<<<<<<<<<..>>>>.>>>>>..>>>
>...<.<........>.>.<<<<<<....<<<.<<<<<<<<<<..<<<..
.<<<....>>>...>>>...<<....>>..<<<<.....>>>>....<<<
<<<<....>>>>>>>....>>>>>>>>>>>>>..<<.<..<<<<<<<...
..<<<<<<<<<..<<<....<<<<<<......>>>>>>.....>>>...<
<<.<<<<<........>>>>>>>>....>>>>>>>>>...<<<.....>>
>......>>>>>>...>..>.>>..<<<<<<....<<<<<....>>>>><
<<<<<<<<....<<<<<<<<.....<<<....<<<.<<<<....<<<<<.
.....>>>>.>....>>>>.>>>..>>.>.....>>>>>>>>.......>
>>>>>>.>>..<<<<<<<<<<......>>>>>>.>>>>....<<<.....
.>>>...<<<<.<<<...<<<(((.....<<<<<<...........<<..
<<<<<<<<<........<<<<<.<<<..<<<<.......>>>>..>>>..
.......<<......>>...>>>>>....>>>>>>>>>.>>.........
..)))......>>>>>>.>>>...>>>>>>><<<<<<<<..>>>>>>>>.
...>>>>>><.<<<<<<<<<<......<<<<<<<<....>>>.>>>>>..
.>>>>>>>>>>..>.....>>>>>><......<<.....<<<<<<.....
..>>>>>><<<<....<<<<<.<<...<<<<<<...<<.....>>.>>>>
>>....((<<<<.<<...<<<...<<<....>>>...>>>...>>...<<
<<<........>>>>>))<<<<<<<<<<.......<<<<..<<<<<<<<.
.....<<<<.<<......>>.>>>>.....>>>>>>>>....>>>>.<<.
..<<<<<...<<<<..<<<..<<<<..<<<<<...((((...>>>>>.<<
..<<<<...<<<<<<<<<<<.<<.....>>>>>>>>>.....>>>>...>
>>>...>>...<<<......>>>.....>>>>...>>>...>>>>.....
...>>>>>..>>....>>>>>>>>>>>>>>..>>.....<<......>>>
>>>>.<<<<.....>>>>..>>>>..<<<<<...<<<<<<<<.<<.....
....<.....<<<<<.....<..>......>>>>><<<<<<...<<<<..
..<<<.....>>>....>>>>..>>>>>>............<<<<<<<<<
..<<<.........>>>..<<<<<<<.....<<<....>>>.......>>
>>>>>.<<<<<.<<<..<<<<<<<..<<<<.<<<....<<<<<.<<<<<<
...>>>>>>..>>>>>....>>>.>>>>>>>>>..>>>>><<<<<<....
...>>>>>>........<...........<<<<<.......>>>>>....
.>....>>>>>..>>.>>>>>>>..>..>>.>>>>>>>>>>>>>>>....
.>.((..<<<<<......))>>>>>..<<<<<<<<.<<<.<<......<<
<<<<<<<<..<<<<<.<<<.<<<<<.<<.<<<<<<<<<<<<<........
...<<<<<..<........<<<<<<<<....>>>>>>>>....>......
.......>>>>>..>>>>>>>>>>>>>.>>...<<<.<<<<<<......>
>>>>>>>>....>>>>>.>>>..>>>>>..<<<<.....>>>><<<<<<.
..........>>>>>>..<<...<<<<<<<...<<<<<<.......>>>>
>>.....<<.[.(((>>....>>>>>>>...<<<<..<<<<....>>>>.
.>>>>.<<<....>>>.>>)))]......<<<<<<<.<<..>>>>..>>>
>>>>>>.............>>>>..>>>>>>.......<<<<...<.<<<
<...<<.......>>...>>>>.>....>>>.>.......<<<<<.<<<<
<<..<<<<<<<<<......>>>>>>..>>>.<<<<<.....>>>>>....
.>>>>>..>...>>>.>>....<<<<<<<....>>>.>>>>....>>..>
>>>>>>>>>>....<<<<<<<...<<<<..<<<<<<<.............
..>>>>>>>.<<<<<...<<<<...<<<<<<<<<<<))))>>>>>>..>>
>>>...>>>>.>>>>>...<<<.<..<<<<<...........>>>>>...
>>>>.>>>>.......>>>>>>>..<<<<<...>>>>>....<<<<.<<<
<.......>>>>.....<<<.<<<<.<<<....<<<<<....>>>>>...
>>>..>>>>..>>>...>>>>....>>>>..
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8v9k A new family of bacterial ribosome hibernation factors
Resolution3.1 Å
Binding residue
(original residue number in PDB)
R8 Y23 T25 N28 N31 D32 K39 K40 F41 H48
Binding residue
(residue number reindexed from 1)
R3 Y18 T20 N23 N26 D27 K34 K35 F36 H43
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005737 cytoplasm
GO:0005840 ribosome
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:8v9k, PDBe:8v9k, PDBj:8v9k
PDBsum8v9k
PubMed38355796
UniProtA0QS39|RL331_MYCS2 Large ribosomal subunit protein bL33A (Gene Name=rpmG1)

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