Structure of PDB 7xam Chain S Binding Site BS01

Receptor Information
>7xam Chain S (length=100) Species: 246196 (Mycolicibacterium smegmatis MC2 155) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TYAIVKTGGKQYKVAAGDVVKVEKLDSEPGASVSLPVALVVDGANVTSKA
DDLAKVAVTAEVLEHTKGPKIRIHKFKNKTGYHKRQGHRQQLTVLKVTGI
Ligand information
>7xam Chain A (length=3062) [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
ugcggcagugagacggcgggggauaagcuccgugcgucgagagggaaaca
gcccagaucgccggcuaaggccccuaagcgugugcuaaguggaaaaggau
gugcagucgcgaagacaaccaggagguuggcuuagaagcagccacccuug
aaagagugcguaauagcucacuggucaagugauugugcgccgauaaugua
gcggggcucaagcacaccgccgaagccgcggcagccaacguguuggcugg
guaggggagcguccugcauccggugaagccgccgagugaucgaguggugg
agggugugggagugagaaugcaggcaugaguagcgauuaggcaagugaga
accuugcccgccgaaagaccaaggguuccugggccaggccaguccgccca
gggugagucgggaccuaaggcgaggccgacaggcguagucgauggacaac
ggguugauauucccguacccguguaugugcguccaugaugaaucagcggu
acuaaccauccaugggaccuucguugguaguagucaagcgauggggugac
gcaggaagguagccguaccggucagugguaauaccgggguaagccuguag
ggagucagauagguaaauccgucuggcauauauccugagaggugaugcau
agccgagugaggcgaauucggugauccuaugcugccgagaaaagccucua
gcgaggacauacacggcccguaccccaaaccaacacagguggucagguag
agaauacuaaggcguacgagugaacuaugguuaaggaacucggcaaaaug
cccccguaacuucgggagaagggggacccacauggcguguaagccuuuac
ggcccaagcgugaguggguggcacaaaccagugagaagcgacuguuuacu
aaaaacacagguccgugcgaagucgcaagacgauguauacggacugacgc
cugcccggugcuggaagguuaagaggacccguuaacucccuuugggggug
aagcggagaauuuaagccccaguaaacggcgguggucauccuaagguagc
gaaauuccuugucggguaaguuccgaccugcacgaauggcguaacgacuu
cucaacugucucaaccauagacucggcgaaauugcacuacgaguaaagau
gcucguuacgcgcggcaggacgaaaagaccccgggaccuucacuacaacu
ugguauuggugcucgauacgguuuguguaggauaggugggagacugugaa
gcucacacgccaguguggguggagucguuguugaaauaccacucugaucg
uauugggccucuaaccucggaccguauauccgguucagggacagugccug
guggguaguuuaacuggggcgguugccuccuaaaauguaacggaggcgcc
caaagguucccucaaccuggacggcaaucagguguugaguguaagugcac
aagggagcuugacugcgagacggacaugucgagcagggacgaaagucggg
acuagugauccggcaccucugaguggaaggggugucgcucaacggauaaa
agguaccccggggauaacaggcugaucuuccccaagaguccauaucgacg
ggaugguuuggcaccucgaugucggcucgucgcauccuggggcuggagca
ggucccaaggguugggcuguucgcccauuaaagcggcacgcgagcugggu
uuagaacgucgugagacaguucggucucuauccgccgcgcgcgucagaag
cuugaggaaaccugucccuaguacgagaggaccgggacggacgaaccucu
gguauaccaguugucccaccaggggcacggcuggauagccacguucggac
aggauaaccgcugaaagcaucuaagcgggaaaccucuuccaagaccaggc
uucucacccucuaggagggauaaggccccccgcagaccacgggauugaua
gaccagaccuggaagccuaguaauaggugcagggaacuggcacuaaccgg
ccgaaaacuuac
<<<<......<<<<<<<<<<<.....<<..<<<<<<<<<<<<<......<
<<<<<.[[.(((.>>>.....<<<<<<<..<<<)))..]].>>>.....>
>>>>>>...>>>....<<<....>>><<<<<<<......>>>>>>>.<<<
<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>>.
.....>>>>>.>.........<<.....>>..<<<<<<.....<<.....
>>....>>>>>>...<<<....<<<<<<<<<<.........(((((....
.>>>>>>>>>>......<<<<..<.....<<<<<<<))))).>>>>>>><
<<<<<.......<<<<<<.<<<<.<<<.....<<<<......>>>>.((.
.....<<<.....))>>>...>>>...>>>>>>>>>>>>>>>>.....>.
..>>>>.....<<<<<<<<.........>>>>>>>>......<<<<<..<
<<<>>>>>..>>>......>>.>>>>>>>.>>...............<<.
...>>....>>.........<<<<....>>>>..................
>>>>>>>>>>>.......<<<<..<<<<<<<<<..>>>>.>>>>>..>>>
>...<.<........>.>.<<<<<<....<<<.<<<<<<<<<<..<<<..
.<<<<..>>>>...>>>...<<....>>..<<<<.....>>>>....<<<
<<<<....>>>>>>>....>>>>>>>>>>>>>..<<.<..<<<<<<<...
..<<<<<<<<<..<<<....<<<<<<......>>>>>>.....>>>...<
<<.<<<<<........>>>>>>>>....>>>>>>>>>...<<<.....>>
>......>>>>>>...>..>.>>..<<<<<<....<<<<<....>>>>><
<<<<<<<<....<<<<<<<<.....<<<....<<<.<<<<....<<<<<<
....>>>>>.>....>>>>.>>>..>>.>.....>>>>>>>>.......>
>>>>>>.>>..<<<<<<<<<<......>>>>>>.>>>>....<<<.....
.>>>...<<<<.<<<...<<<(((.....<<<<<<...........<<..
<<<<<<<<<........<<<<<.<<<..<<<<.......>>>>..>>>..
.......<<......>>...>>>>>....>>>>>>>>>.>>.........
..)))......>>>>>>.>>>...>>>>>>><<<<<<<<..>>>>>>>>.
...>>>>>><.<<<<<<<<<<......<<<<<<<<....>>>.>>>>>..
.>>>>>>>>>>..>.....>>>>>><......<<.....<<<<<<.....
..>>>>>><<<<....<<<<<.<<...<<<<<<...<<.....>>.>>>>
>>....((<<<<.<<...<<<...<<<....>>>...>>>...>>...<<
<<<........>>>>>))<<<<<<<<<<.......<<<<...<<<<<<<.
.....<<<<..>>>>.....>>>>>>>.....>>>>.<<...<<<<<...
<<<<..<<<..<<<<..<<<<<...((((...>>>>>.<<..<<<<...<
<<<<<<<<<<.<<.....>>>>>>>>>.....>>>>...>>>>...>>..
.<<<......>>>.....>>>>...>>>...>>>>........>>>>>..
>>....>>>>>>>>>>>>>>..>>.....<<......>>>>>>>.<<<<.
....>>>>..>>>>..<<<<<...<<<<<<<<.<<.........<.....
<<<<<.....<..>......>>>>><<<<<<...<<<<....<<<.....
>>>....>>>>..>>>>>>............<<<<<<<<<..<<<.....
....>>>..<<<<<<<.....<<<....>>>.......>>>>>>>.<<<<
...<<....<<<..........<......<<...<<<<<<...>>>>>>.
...>>......>........>>>....>>.....................
..........<<<<<.......>>>>>...........>>>>..>>.>>>
>>>>..>..>>.>>>>>>>>>>>>>>>.....>.((..<<<<<......)
)>>>>>..<<<<<<<<.<<<.<<......<<<<<<<<<<..<<<<<.<<<
.<<<<<.<<.<<<<<<<<<<<<.............<<<<..<<<......
<<<<<<<<....>>>>>>>>...>>>............>>>.>...>>>>
>>>>>>>>.>>...<<<.<<<<<<......>>>>>>>>>....>>>>>.>
>>..>>>>>..<<<<.....>>>><<<<<<...........>>>>>>..<
<...<<<<<<<...<<<<<<.......>>>>>>.....<<.[.(((>>..
..>>>>>>>...<<<<..<<<<....>>>>..>>>>.<<<....>>>.>>
)))]......<<<<<<<.<<..>>>>..>>>>>>>>>.............
>>>>..>>>>>>.......<<<<.<.<.<<<<...<<.......>>...>
>>>.>...>>>>.>.......<<<<<.<<<<<<..<<<<<<<<<......
>>>>>>..>>>.<<<<<.....>>>>>.....>>>>>..>...>>>.>>.
...<<<<<<<....>>>.>>>>....>>..>>>>>>>>>>>....<<<<<
<<...<<<<..<<<<<<<...............>>>>>>>.<<<<<...<
<<<...<<<<<<<<<<<))))>>>>>>..>>>>>...>>>>.>>>>>...
<<<.<..<<<<<...........>>>>>...>>>>.>>>>.......>>>
>>>>..<<<<<...>>>>>....<<<<.<<<<.......>>>>.....<<
<.<<<<.<<<....<<<<<....>>>>>...>>>..>>>>..>>>...>>
>>....>>>>..
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]
PDB7xam Cryo-EM structures reveal a unique conformational dynamics of the Mycobacterium 23S rRNA helices
Resolution3.5 Å
Binding residue
(original residue number in PDB)		G10 G11 K12 K23 K26 E66 K69 I73 K77 K79 N80 K81 Y84 K86 R87 Q88 G89 H90 R91 Q92 V96
Binding residue
(residue number reindexed from 1)		G8 G9 K10 K21 K24 E64 K67 I71 K75 K77 N78 K79 Y82 K84 R85 Q86 G87 H88 R89 Q90 V94
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
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:7xam, PDBe:7xam, PDBj:7xam
PDBsum7xam
PubMed37709237
UniProtA0R151|RL21_MYCS2 Large ribosomal subunit protein bL21 (Gene Name=rplU)

[Back to BioLiP]