Structure of PDB 8kab Chain e Binding Site BS01

Receptor Information
>8kab Chain e (length=63) Species: 246196 (Mycolicibacterium smegmatis MC2 155) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PKAKTHSGASKRFRRTGTGKIVRQKANRRHLLEHKPTKRTRRLDGRTTVS
AADNSRINKLLNG
Ligand information
>8kab Chain A (length=3111) [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
acuaaccauccaaaaccaccgugaccgcaccuuucgggguguggcguugg
uggggcugcaugggaccuucguugguaguagucaagcgauggggugacgc
aggaagguagccguaccggucagugguaauaccgggguaagccuguaggg
agucagauagguaaauccgucuggcauauauccugagaggugaugcauag
ccgagugaggcgaauucggugauccuaugcugccgagaaaagccucuagc
gaggacauacacggcccguaccccaaaccaacacagguggucagguagag
aauacuaaggcguacgagugaacuaugguuaaggaacucggcaaaaugcc
cccguaacuucgggagaagggggacccacauggcguguaagccuuuacgg
cccaagcgugaguggguggcacaaaccagugagaagcgacuguuuacuaa
aaacacagguccgugcgaagucgcaagacgauguauacggacugacgccu
gcccggugcuggaagguuaagaggacccguuaacucccuuugggggugaa
gcggagaauuuaagccccaguaaacggcggugguacauccuaagguagcg
aaauuccuugucggguaaguuccgaccugcacgaauggcguaacgacuuc
ucaacugucucaaccauagacucggcgaaauugcacuacgaguaaagaug
cucguuacgcgcggcaggacgaaaagaccccgggaccuucacuacaacuu
gguauuggugcucgauacgguuuguguaggauaggugggagacugugaag
cucacacgccaguguggguggagucguuguugaaauaccacucugaucgu
auugggccucuaaccucggaccguauauccgguucagggacagugccugg
uggguaguuuaacuggggcgguugccuccuaaaauguaacggaggcgccc
aaagguucccucaaccuggacggcaaucagguguugaguguaagugcaca
agggagcuugacugcgagacggacaugucgagcagggacgaaagucggga
cuagugauccggcaccucugaguggaaggggugucgcucaacggauaaaa
gguaccccggggauaacaggcugaucuuccccaagaguccauaucgacgg
gaugguuuggcaccucgaugucggcucgucgcauccuggggcuggagcag
gucccaaggguugggcuguucgcccauuaaagcggcacgcgagcuggguu
uagaacgucgugagacaguucggucucuauccgccgcgcgcgucagaagc
uugaggaaaccugucccuaguacgagaggaccgggacggacgaaccucug
guauaccaguugucccaccaggggcacggcuggauagccacguucggaca
ggauaaccgcugaaagcaucuaagcgggaaaccucuuccaagaccaggcu
ucucacccucuaggagggauaaggccccccgcagaccacgggauugauag
accagaccuggaagccuaguaauaggugcagggaacuggcacuaaccggc
cgaaaacuuac
<<<<......<<<<<<<<<<<.....<<..<<<<<<<<<<<<<......<
<<<<<.[[.(((.>>>.....<<<<<<<..<<<)))..]].>>>.....>
>>>>>>...>>>....<<<....>>><<<<<<<......>>>>>>>.<<<
<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>>.
.....>>>>>.>.........<<.....>>..<<<<<<.....<<.....
>>....>>>>>>...<<<....<<<<<<<<<<.........(((((....
.>>>>>>>>>>......<<<<<.<<<<..<<<<<<<))))).>>>>>>><
<<<<<........<<<<<.<<<<.<<<.....<<<<......>>>>.((.
.....<<<.....))>>>...>>>...>>>>>>>>>.>>>>>>.>>>>..
>.>>>>.....<<<<<<<<.........>>>>>>>>......<<<<<..<
<<<>>>>>..>>>......>>.>>>>>>>.>>...............<<.
...>>....>>.........<<<<....>>>>..................
>>>>>>>>>>>.......<<<<..<<<<<<<<<..>>>>.>>>>>..>>>
>...<.<........>.>.<<<<<<....<<<.<<<<<<<<<<..<<<..
.<<<....>>>...>>>...<<....>>..<<<<.....>>>>....<<<
<<<<....>>>>>>>....>>>>>>>>>>>>>..<<.<..<<<<<<<...
..<<<<<<<<<..<<<....<<<<<<......>>>>>>.....>>>...<
<<.<<<<<........>>>>>>>>....>>>>>>>>>...<<<.....>>
>......>>>>>>...>..>.>>..<<<<<<....<<<<<....>>>>><
<<<<<<<<....<<<<<<<<.....<<<....<<<.<<<<......<<<.
.....>>>.......>>>>.>>>..>>.>.....>>>>>>>>.......>
>>>>>>.>>..<<<<<<<<<<......>>>>>>.>>>>....<<<.....
.>>>...<<<<.<<<...<<<(((.....<<<<<<...........<<..
<<<<<<<<<<.......<<<...<<<..<<<.........>>>..>>>..
.......<<......>>.....>>>...>>>>>>>>>>.>>.........
..)))......>>>>>>.>>>...>>>>>>><<<<<<<<..>>>>>>>>.
...>>>>>><.<<<<<<<<<<......<<<<<<<<....>>>.>>>>>..
.>>>>>>>>>>..>.....>>>>>><......<<.....<<<<<<.....
..>>>>>><<<<....<<<<<.<<...<<<<<<...<<.....>>.>>>>
>>....((<<<<.<<...<<<...<<<....>>>...>>>...>>...<<
<<<........>>>>>))<<<<<<<<<<........<<.....<<.<<<.
.....<<<<.<<...<<<<<....<<<<<<<<....>>>>>>>>....>>
>>>...>>.>>>>.....>>>.>>.......>>..<<...<<<<<...<<
<<..<<<..<<<<..<<<<<...((((...>>>>>.<<..<<<<...<<<
<<<<<<<<.<<.....>>>>>>>>>.....>>>>...>>>>...>>...<
<<......>>>.....>>>>...>>>...>>>>........>>>>>..>>
....>>>>>>>>>>>>>>..>>.....<<......>>>>>>>.<<<<...
..>>>>..>>>>..<<<<<...<<<<<<<<.<<.........<.....<<
<<<....<<..>>.....>>>>><<<<<<...<<<<....<<<.....>>
>....>>>>..>>>>>>............<<<<<<<<<..<<<.......
..>>>..<<<<<<<.....<<<....>>>.......>>>>>>>.<<<<<.
.<<..<<<<<<<..<<<...<.....<<<<<.<<<<<.....>>>>>..>
>>>>......>..>>>>>>>>..>>>>.......................
...........<.<.......>.>............>>>>>..>>.>>>>
>>>..>..>>.>>>>>>>>>>>>>>>.....>.((..<<<<<......))
>>>>>..<<<<<<<<.<<<.<<......<<<<<<<<<<..<<<<<.<<<.
<<<<<.<<.<<<<<<<<<<<<<.........(.<<<<<..<<.......<
...<<<......>>>...>....>>.........)..>>>>>..>>>>>>
>>>>>>>.>>...<<<.<<<<<<......>>>>>>>>>....>>>>>.>>
>..>>>>>..<<<<.....>>>><<<<<<...........>>>>>>..<<
...<<<<<<<...<<<<<<.......>>>>>>.....<<.[.(((>>...
.>>>>>>>...<<<<..<<<<....>>>>..>>>>.<<<....>>>.>>)
))]......<<<<<<<.<<..>>>>..>>>>>>>>>.............>
>>>..>>>>>>.......<<<<.<.<.<<<<...<<.......>>...>>
>>.>...>>>>.>.......<<<<<.<<<<<<..<<<<<<<<<......>
>>>>>..>>>.<<<<<.....>>>>>.....>>>>>..>...>>>.>>..
..<<<<<<<....>>>.>>>>....>>..>>>>>>>>>>>....<<<<<<
<...<<<<..<<<<<<<...............>>>>>>>.<<<<<...<<
<<...<<<<<<<<<<<))))>>>>>>..>>>>>...>>>>.>>>>>...<
<<....<<<<<...........>>>>>....>>>.>>>>.......>>>>
>>>..<<<<<...>>>>>....<<<<.<<<<.......>>>>.....<<<
.<<<<.<<<....<<<<<....>>>>>...>>>..>>>>..>>>...>>>
>....>>>>..
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8kab Cryo-EM structures reveal the molecular mechanism of HflX-mediated erythromycin resistance in mycobacteria.
Resolution3.3 Å
Binding residue
(original residue number in PDB)
P2 K3 A4 K5 H7 K12 R13 T17 G18 T19 K21 R24 K26 A27 N28 R29 R30 H31 L33 E34 H35 T38 R40 R42 R43 L44 R47 S51 A53 D54 R57 N63
Binding residue
(residue number reindexed from 1)
P1 K2 A3 K4 H6 K11 R12 T16 G17 T18 K20 R23 K25 A26 N27 R28 R29 H30 L32 E33 H34 T37 R39 R41 R42 L43 R46 S50 A52 D53 R56 N62
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex

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Molecular Function

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Biological Process

View graph for
Cellular Component
External links
PDB RCSB:8kab, PDBe:8kab, PDBj:8kab
PDBsum8kab
PubMed39029461
UniProtA0QYU7|RL35_MYCS2 Large ribosomal subunit protein bL35 (Gene Name=rpmI)

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