Structure of PDB 8qcq Chain 4 Binding Site BS01

Receptor Information
>8qcq Chain 4 (length=37) Species: 224308 (Bacillus subtilis subsp. subtilis str. 168) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MKVRPSVKPICEKCKVIRRKGKVMVICENPKHKQKQG
Ligand information
>8qcq Chain A (length=2745) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uuaaguuagaaagggcgcacgguggaugccuuggcacuaggagccgauga
aggacgggacgaacaccgauaugcuucggggagcuguaagcaagcuuuga
uccggagauuuccgaauggggaaacccaccacucguaauggagugguauc
cauaucugaauucauaggauaugagaaggcagacccggggaacugaaaca
ucuaaguacccggaggaagagaaagcaaaugcgauucccugaguagcggc
gagcgaaacgggaucagcccaaaccaagaggcuugccucuugggguugua
ggacacucgaacgagguagaugaagaggucuggaaaggcccgccauagga
gguaacagcccuguagucaaaacuucguucgaguggauccugaguacggc
ggaacacgugaaauuccgucggaauccgggaggaccaucucccaaggcua
aauacucccuagugaccgauagugaaccaguaccgugagggaaaggugaa
aagcaccccggaaggggagugaaagagauccugaaaccgugugccuacaa
guagucagagcccguuaacgggugauggcgugccuuuuguagaaugaacc
ggcgaguuacgaucucgugcaagguuaagcagaagaugcggagccgcagc
gaaagcgagucugaauagggcgcaugaguacguggucguagacccgaaac
caggugaucuacccauguccagggugaaguucagguaacacugaauggag
gcccgaacccacgcacguugaaaagugcggggaugagguguggguagggg
ugaaaugccaaucgaaccuggagauagcugguucucuccgaaauagcuuu
agggcuagccucaagguaagagucuuggagguagagcacugauuggacua
ggggccgguuaccgaauucagucaaacuccgaaugccaaugacuuauccu
ugggagucagacugcgagugauaagauccguagucgaaagggaaacagcc
cagaccgccagcuaaggucccaaaguauacguuaaguggaaaaggaugug
gaguugcuuagacaaccggucgagugacucugcgccgaaaauguaccggg
gcuaaacguaucaccgaagcugcggacuguucgaacagugguaggagagc
guucuaagggcugugaagccagaccggaaggacugguggagcgcuuagaa
gugagaaugccgguaugaguagcgaaagaggggugagaauccccuccacc
gaaugccuaagguuuccugaggaaggcucguccgcucaggguuagucggg
accuaagccgaggccgaaaggcguaggcgauggacaacagguugauauuc
cuguaccaccuccucaccauuugagcaauggggggacgcaggaggauagg
guaagcgcgguauuggauauccgcguccaagcaguuaggcugggaaauag
gcaaauccguuucccaaaggcugagcugugauggcgagcgagcgaaguuc
cugauuccacacugccaagaaaagccucuagcgaggugagaggugcccgu
accgcaaaccgacacagguaggcgaggagagaauccuaaggugaucgaga
gaacucucguuaaggaacucggcaaaaugaccccguaacuucgggagaag
gggugcucuguuagggugcaagcccgagagagccgcagugaauaggccca
ggcgacuguuuagcaaaaacacaggucucugcgaagccguaaggcgaagu
auaggggcugacgccugcccggugcuggaagguuaagaggagcgcuuagc
guaagcgaaggugcgaauugaagccccaguaaacggcggccguaacuaua
acgguccuaagguagcgaaauuccuugucggguaaguuccgacccgcacg
aaaggcgcaacgaucugggcacugucucaacgagagacucggugaaauua
uaguaccugugaagaugcagguuacccgcgacaggacggaaagaccccgu
ggagcuuuacugcagccugauauugaauguugguaauugaccuucuaacc
cgccgcccuuaucgggcggggagacagugucaggugggcaguuugacugg
ggcggucgccuccuaaaagguaacggaggcgcccaaagguucccucagaa
ugguuggaaaucauucgcagaguguaaaggcacaagggagcuugacugcg
agaccuacaagucgagcagggacgaaagucgggcuuagugauccgguggu
uccgcauggaagggccaucgcucaacggauaaaagcuaccccggggauaa
caggcuuaucucccccaagaguccacaucgacggggagguuuggcaccuc
gaugucggcucaucgcauccuggggcuguagucggucccaaggguugggc
uguucgcccauuaaagcgguacgcgagcuggguucagaacgucgugagac
aguucggucccuauccgucgcgggcgcaggaaauuugagaggagcugucc
uuaguacgagaggaccgggauggacgcaccgcugguguaccaguuguucu
gccaagggcaucgcuggguagcuaugugcggacgggauaagugcugaaag
caucuaagcaugaagccccccucaagaugagauuucccauuccgcaagga
aguaagaucccugaaagaugaucagguugauaggucugagguggaagugu
ggcgacacauggagcugacagauacuaaucgaucgaggacuuaac
<<<<<<......<<<<<<<<<<<.....[[..[[<<<<<<<[[<<.....
.<<<<<<.....((.>>>.....<<<<<<<..<<<)).....>>>.....
>>>>>>>...>>>....<<<....>>><<<<<<<......>>>>>>>.<<
<<<<<<<.........>>>>>>>.>>.>>....<<<<<<.....<<....
>>......>>>>>.>.........<<....>>...<<<<......<<...
..>>.....>>>>...(((....<<<<<<<<....>>>>>>>>......<
<<<<<<<.<<<<<<<<<.<<<.....<<<<......>>>>.((......<
<<.....))>>>...>>>...>>>>>>>>>.>>>>..>>>>.....<<<<
<<<<.........>>>>>>>>......<<<<<..<<<<>>>>>..)))..
....]].>>>>>>>.]]...............<<....>>....]]....
.....<<<<....>>>>..................>>>>>>>>>>>....
...<<<<..<<<<......>>>>..>>>>...<.<........>.>.<<<
<<<....<<<<<<<.<<<<<..<<<...<<<.....>>>...>>>...<<
....>>..<<<<.....>>>>......>>>>>.>>>>>>>..<<.<...<
<<<<<.....<<<<<<<<<..<<<....<<<<<<......>>>>>>....
.>>>...<<<.<<<<<........>>>>>>>>....>>>>>>>>>...<<
<.....>>>......>>>>>>......>.>>..<<<<<<....<<<<<..
..>>>>><<<<<<<<<...<<<<<<<<<.....<<<...<<<<<<<<...
<<<<<..>>>.>>...>>>>>>>>..>>.>.....>>>>.>>>>>..>>>
>>>>.>>..<<<<<<<.<<......>>.>>>>>>>....<<<......>>
>...<<<<.<<<...<<<(((.....<<<<<<...........<<..<<<
<<<<<<........<<..>>....>>>>>>>>>.>>...........)))
.....>>>>>>.>>>...>>>>>>><<<<<<..>>>>>>....>>>>>>.
.<<<<<<<.<<......<<<<<.<<....>>.>>>>>...>>.>>>>>>>
........>>>>>><......<<....<<<<<<.......>>>>>><<<<
....<<<<<.<<<..<<<<<<...<<.....>>.>>>>>>....((<<<<
.<<...<<<...<<<....>>>...>>>...>>...<<<<<........>
>>>>))<<<<<.<<<<<<......<<...<<<<....<<<<..<<<..<<
<.<<<<<<<<...(((....>>>>>><<..<<<<<..<<<<<<<<<<<.<
<.....>>>>>>>>>...>>>>..>>>>>...>><..<<..>>...>>>>
>>...>>>...>>>>.........>>>>..>>..>>>>>>>>>>>>>>>.
>>>.....<<......>>>>>>>.<<<<.....>>>>..>>>>..<<<<.
...<<<<<<<<.<<...............<<<<<...............>
>>>><<<<<....<<<<....>>>>...>>>>>............<<<<<
<<<<..<<<.........>>>..<<<<<<<.....<<<....>>>.....
..>>>>>>>..<<<<.<<<..<<<<<<<..<<<<..<<...<<<<<..<<
....>>...>>>>>...>>..>>>>>>>>>..>>>>><<<<<<.......
>>>>>>........<...........<<<<<<.....>>>>>>.....>.
...>>>>...>>.>>>>>>>.....>>.>>>>>>>>.>>>>>>.....>.
....<<<<<........>>>>>..<<<<<<<<.(((.[[......<<<<.
[[<<<<..<<<<<.<<<<<<<<<.<<<.<<<<<...>>>>>.>>>....<
<.<<<<<<.....>>>>>>>>.....>>>>>>>>>..>>>>>..<<<<..
...>>>><<<<<<...........>>>>>>..<<...<<<<<<<...<<<
<<<.......>>>>>>.....<<.[.(((>>....>>>>>>>...<<<<.
.<<<......>>>..>>>>.<<<....>>>.>>)))]......<<<<<<<
.((..>>>>..))>>>>>>>.............>>>>..]]>>>>.....
..<<<<.<.<<<<<<...<<.......>>...>>>>>>...>>>>.>...
....<<<<<.<<<<<<..<<<<<<<<<......>>>>>>>..>>.<<<<<
.....>>>>>.....>>>>>..>...>>>.>>....<<<<<<<....>>>
.>>>>....]]..)))>>>>>>>>....<<<<<<<...<<<<..<<<<<<
<...............>>>>>>>.<<<<<...<<<<...<<<<<<<<<<<
.)))>>>>>>..>>>>>...>>>>.>>>>>...<<<....<<<<<.....
......>>>>>....>>>.>>>>.......>>>>>>>..<<<<....>>>
>....<<<<<<<<<.......>>>>>....<<<<<<<<.<<<....<<<<
<....>>>>>...>>>..>>>>>.>>>...>>>>....>>>>>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8qcq Novel arrest peptides induce ribosome stalling by short circuiting the ribosomal peptidyltransferase activity
Resolution2.3 Å
Binding residue
(original residue number in PDB)
M1 K2 R4 P5 S6 V7 K8 I10 K15 R18 R19 K20 P30 K31 K33 K35 Q36 G37
Binding residue
(residue number reindexed from 1)
M1 K2 R4 P5 S6 V7 K8 I10 K15 R18 R19 K20 P30 K31 K33 K35 Q36 G37
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:8qcq, PDBe:8qcq, PDBj:8qcq
PDBsum8qcq
PubMed38503735
UniProtP20278|RL36_BACSU Large ribosomal subunit protein bL36 (Gene Name=rpmJ)

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