Structure of PDB 7aqd Chain X Binding Site BS01

Receptor Information
>7aqd Chain X (length=58) 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]
RKCVITGKKTTAGNNRSHAMNASKRTWGANLQKVRILVNGKPKKVYVSAR
ALKSGKVE
Ligand information
>7aqd Chain A (length=2918) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uuaaguuagaaagggcgcacgguggaugccuuggcacuaggagccgauga
aggacgggacgaacaccgauaugcuucggggagcuguaagcaagcuuuga
uccggagauuuccgaauggggaaacccaccacucguaauggagugguauc
cauaucugaauucauaggauaugagaaggcagacccggggaacugaaaca
ucuaaguacccggaggaagagaaagcaaaugcgauucccugaguagcggc
gagcgaaacgggaucagcccaaaccaagaggcuugccucuugggguugua
ggacacucuguacggaguuacaaaggaacgagguagaugaagaggucugg
aaaggcccgccauaggagguaacagcccuguagucaaaacuucguucucu
ccugaguggauccugaguacggcggaacacgugaaauuccgucggaaucc
gggaggaccaucucccaaggcuaaauacucccuagugaccgauagugaac
caguaccgugagggaaaggugaaaagcaccccggaaggggagugaaagag
auccugaaaccgugugccuacaaguagucagagcccguuaacgggugaug
gcgugccuuuuguagaaugaaccggcgaguuacgaucucgugcaagguua
agcagaagaugcggagccgcagcgaaagcgagucugaauagggcgcauga
guacguggucguagacccgaaaccaggugaucuacccauguccaggguga
aguucagguaacacugaauggaggcccgaacccacgcacguugaaaagug
cggggaugagguguggguaggggugaaaugccaaucgaaccuggagauag
cugguucucuccgaaauagcuuuagggcuagccucaagguaagagucuug
gagguagagcacugauuggacuaggggccccuaccggguuaccgaauuca
gucaaacuccgaaugccaaugacuuauccuugggagucagacugcgagug
auaagauccguagucgaaagggaaacagcccagaccgccagcuaaggucc
caaaguauacguuaaguggaaaaggauguggaguugcuuagacaaccagg
auguuggcuuagaagcagccaccauuuaaagagugcguaauagcucacug
gucgagugacucugcgccgaaaauguaccggggcuaaacguaucaccgaa
gcugcggacuguucuucgaacagugguaggagagcguucuaagggcugug
aagccagaccggaaggacugguggagcgcuuagaagugagaaugccggua
ugaguagcgaaagaggggugagaauccccuccaccgaaugccuaagguuu
ccugaggaaggcucguccgcucaggguuagucgggaccuaagccgaggcc
gaaaggcguaggcgauggacaacagguugauauuccuguaccaccuccuc
accauuugagcaauggggggacgcaggaggauaggguaagcgcgguauug
gauauccgcguccaagcaguuaggcugggaaauaggcaaauccguuuccc
auaagccugagcugugauggcgagcgaaauauaguagcgaaguuccugau
uccacacugccaagaaaagccucuagcgaggugagaggugcccguaccgc
aaaccgacacagguaggcgaggagagaauccuaaggugaucgagagaacu
cucguuaaggaacucggcaaaaugaccccguaacuucgggagaaggggug
cucuguuagggugcaagcccgagagagccgcagugaauaggcccaggcga
cuguuuagcaaaaacacaggucucugcgaagccguaaggcgaaguauagg
ggcugacgccugcccggugcuggaagguuaagaggagcgcuuagcguaag
cgaaggugcgaauugaagccccaguaaacggcggccguaaacgguccuaa
gguagcgaaauuccuugucggguaaguuccgacccgcacgaaaggcgcaa
cgaucugggcacugucucaacgagagacucggugaaauuauaguaccugu
gaagaugcagguuacccgcgacaggacggaaagaccccguggagcuuuac
ugcagccugauauugaauguugguacagcuuguacaggauagguaggagc
cuuggaaaccggagcgccagcuucgguggaggcaucggugggauacuacc
cuggcuguauugaccuucuaacccgccgcccuuaucgggcggggagacag
ugucaggugggcaguuugacuggggcggucgccuccuaaaagguaacgga
ggcgcccaaagguucccucagaaugguuggaaaucauucgcagaguguaa
aggcacaagggagcuugacugcgagaccuacaagucgagcagggacgaaa
gucgggcuuagugauccggugguuccgcauggaagggccaucgcucaacg
gauaaaagcuaccccggggauaacaggcuuaucucccccaagaguccaca
ucgacggggagguuuggcaccucgaugucggcucaucgcauccuggggcu
guagucggucccaaggguugggcuguucgcccauuaaagcgguacgcgag
cuggguucagaacgucgugagacaguucggucccuauccgucgcgggcgc
aggaaauuugagaggagcuguccuuaguacgagaggaccgggauggacgc
accgcugguguaccaguuguucugccaagggcaucgcuggguagcuaugu
gcggacgggauaagugcugaaagcaucuaagcaugaagccccccucaaga
ugagauuucccauuccgcaaggaaguaagaucccugaaagaugaucaggu
ugauaggucugagguggaaguguggcgacacauggagcugacagauacua
aucgaucgaggacuuaac
<<<<<<......<<<<<<<<<<<....{[[..[[<<<<<<<[[<<.....
.<<<<<<.....((.>>>.....<<<<<<<..<<<)).....>>>.....
>>>>>>>...>>>....<<<....>>><<<<<<<......>>>>>>>.<<
<<<<<<<.........>>>>>>>.>>.>>....<<<<<<.....<<....
>>......>>>>>.>.........<<....>>...<<<<......<<...
..>>.....>>>>...(((....<<<<<<<<<..>>>>>>>>>......<
<<<<<<<<.....<<<<.......<<<<<<<<<<.<<<.....<<<<...
...>>>>.((......<<<.....))>>>...>>>...>>>>>>>>>>>>
>>.>>>>>..>>>>.....<<<<<<<<.........>>>>>>>>......
<<<<<..<<<<>>>>>..)))......]].>>>>>>>.]]..........
.....<<....>>....]].........<<<<....>>>>..........
...}....>>>>>>>>>>>.......<<<<..<<<<......>>>>..>>
>>...<.<........>.>.<<<<<<....<<<<<<<.<<<<<..<<<..
.<<<.....>>>...>>>...<<....>>..<<<<.....>>>>......
>>>>>.>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<<<<..
.<<<<<<......>>>>>>...>.>>>...<<<.<<<<<........>>>
>>>>>....>>>>>>>>>...<<<.....>>>......>>>>>>...>..
>.>>..<<<<<<....<<<<<....>>>>><<<<<<<<<...<<<<<<<<
<.....<<<...<<<<<<<<...<<.<<<<.....>>>>..>>...>>>>
>>>>..>>.>.....>>>>.>>>>>..>>>>>>>.>>..<<<<<<<.<<.
.....>>.>>>>>>>....<<<......>>>...<<<<.<<<...<<<((
(.....<<<<<<...........<<..<<<<<<<<<........<<<<<.
<<...<<<<.......>>>>...>>.........<<......>>...>>>
>>....>>>>>>>>>.>>...........))).....>>>>>>.>>>...
>>>>>>><<<<<<<...>>>>>>>....>>>>>>..<<<<<<<.<<....
..<<<<<.<<....>>.>>>>>...>>.>>>>>>>........>>>>>><
......<<....<<<<<<.......>>>>>><<<<....<<<<<.<<...
<<<<<<...<<.....>>.>>>>>>....((<<<<.<<...<<<...<<<
....>>>...>>>...>>...<<<<<........>>>>>))<<<<<.<<<
<<<......<<...<<<<....<<<<..<<<..<<<.<.<<<.<.....{
....>.>>>.<<..<..<<<<<<<<.<<<<<<..<<.....>>.>>>>>>
....>>>>>.>>>.>...>><..<<...........>>...>>.>>>...
>>>...>>>>.........>>>>..>>..>>>>>>>>>>>>>>>..>>..
...<<......>>>>>>>.<<<<.....>>>>..>>>>..<<<<....<<
<<<<<<.<<<..............<<<<<.....<..>......>>>>><
<<<<....<<<<....>>>>...>>>>>............<<<<<<<<<.
.<<<.........>>>..<<<<<<<.....<<<....>>>.......>>>
>>>>..<<<<.<<<..<<<<<<<..<<<...<<...<<<<<<.<<....>
>..>>>>>>...>>...>>>>>>>>..>>>>><<<<<<..>>>>>>....
....<...........<<<<<<.....>>>>>>.....>....>>>>...
>>.>>>>>>>....>>>.>>>>>>>>.>>>>>>.....>.(...<<<<<.
......)>>>>>..<<<<<<<<.(((.[[......<<<<.[[<<<<..<<
<<<.<<<<<<<<<.<<<.<<<<<<<<<<<<...........<<<<<..<<
<......<<<<<<<<....>>>>>>>>...>>>............>>>>>
..>>>>>>>>>>>>.>>>....<<.<<<<<<.....>>>>>>>>.....>
>>>>>>>>..>>>>>..<<<<.....>>>><<<<<<...........>>>
>>>..<<...<<<<<<<...<<<<<<.......>>>>>>.....<<.[.(
((>>....>>>>>>>...<<<<..<<<......>>>..>>>>.<<<....
>>>.>>)))]......<<<<<<<.((..>>>>..))>>>>>>>.......
......>>>>..]]>>>>.......<<<<.<.<<<<<<...<<.......
>>...>>>>>>...>>>>.>.......<<<<<.<<<<<<..<<<<<<<<<
......>>>>>>..>>>.<<<<<.....>>>>>.....>>>>>..>...>
>>.>>....<<<<<<<....>>>.>>>>....]]..)))>>>>>>>>...
.<<<<<<<...<<<<..<<<<<<<...............>>>>>>>.<<<
<<...<<<<...<<<<<<<<<<<.}..>>>>>>..>>>>>...>>>>.>>
>>>...<<<....<<<<<...........>>>>>....>>>.>>>>....
...>>>>>>>..<<<<....>>>>....<<<<<<<<<.......>>>>>.
...<<<<<<<<.<<<....<<<<<....>>>>>...>>>..>>>>>.>>>
...>>>>....>>>>>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7aqd Mimicry of Canonical Translation Elongation Underlies Alanine Tail Synthesis in RQC.
Resolution3.1 Å
Binding residue
(original residue number in PDB)
R3 K10 T12 T13 A14 N16 R18 S19 H20 A21 M22 N23 S25 K26 R27 W29 G30 A31 N32 Q34 K35 K45 R52 K55
Binding residue
(residue number reindexed from 1)
R1 K8 T10 T11 A12 N14 R16 S17 H18 A19 M20 N21 S23 K24 R25 W27 G28 A29 N30 Q32 K33 K43 R50 K53
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:1990904 ribonucleoprotein complex

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:7aqd, PDBe:7aqd, PDBj:7aqd
PDBsum7aqd
PubMed33259811
UniProtP37807|RL28_BACSU Large ribosomal subunit protein bL28 (Gene Name=rpmB)

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