Structure of PDB 8xz3 Chain F Binding Site BS01

Receptor Information
>8xz3 Chain F (length=182) Species: 246196 (Mycolicibacterium smegmatis MC2 155) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KALPRLKQRYREEIREALQQEFNYANVMQIPGVVKVVVNMGVGDAARDAK
LINGAINDLALITGQKPEVRRARKSIAQFKLREGMPIGARVTLRGDRMWE
FLDRLISIALPRIRDFRGLSPKQFDGTGNYTFGLNEQSMFHEIDVDSIDR
PRGMDITVVTTATNDAEGRALLRALGFPFKEN
Ligand information
>8xz3 Chain A (length=3119) [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
gcggagaauuuaagccccaguaaacggcggugguaacuauaaccauccua
agguagcgaaauuccuugucggguaaguuccgaccugcacgaauggcgua
acgacuucucaacugucucaaccauagacucggcgaaauugcacuacgag
uaaagaugcucguuacgcgcggcaggacgaaaagaccccgggaccuucac
uacaacuugguauuggugcucgauacgguuuguguaggauaggugggaga
cugugaagcucacacgccaguguggguggagucguuguugaaauaccacu
cugaucguauugggccucuaaccucggaccguauauccgguucagggaca
gugccugguggguaguuuaacuggggcgguugccuccuaaaauguaacgg
aggcgcccaaagguucccucaaccuggacggcaaucagguguugagugua
agugcacaagggagcuugacugcgagacggacaugucgagcagggacgaa
agucgggacuagugauccggcaccucugaguggaaggggugucgcucaac
ggauaaaagguaccccggggauaacaggcugaucuuccccaagaguccau
aucgacgggaugguuuggcaccucgaugucggcucgucgcauccuggggc
uggagcaggucccaaggguugggcuguucgcccauuaaagcggcacgcga
gcuggguuuagaacgucgugagacaguucggucucuauccgccgcgcgcg
ucagaagcuugaggaaaccugucccuaguacgagaggaccgggacggacg
aaccucugguauaccaguugucccaccaggggcacggcuggauagccacg
uucggacaggauaaccgcugaaagcaucuaagcgggaaaccucuuccaag
accaggcuucucacccucuaggagggauaaggccccccgcagaccacggg
auugauagaccagaccuggaagccuaguaauaggugcagggaacuggcac
uaaccggccgaaaacuuac
<<<<......<<<<<<<<<<<.....<<..<<<<<<<<<<<<<......<
<<<<<.[[.(((.>>>.....<<<<<<<..<<<)))..]].>>>.....>
>>>>>>...>>>....<<<....>>><<<<<<<......>>>>>>>.<<<
<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>>.
.....>>>>>.>.........<<.....>>..<<<<<<.....<<.....
>>....>>>>>>...<<<....<<<<<<<<<<........((((((....
.>>>>>>>>>>......<<<<..<.....<<<<<<<))))))>>>>>>><
<<<<<.......<<<<<<.<<<<.<<<.....<<<<......>>>>.((.
.....<<<.....))>>>...>>>...>>>>>>>>>>>>>>>>.....>.
..>>>>.....<<<<<<<<.........>>>>>>>>......<<<<<..<
<<<>>>>>..>>>......>>.>>>>>>>.>>...............<<.
...>>....>>.........<<<<....>>>>..................
>>>>>>>>>>>.......<<<<..<<<<<<<<<..>>>>.>>>>>..>>>
>...<.<........>.>.<<<<<<....<<<.<<<<<<<<<<..<<<..
.<<<....>>>...>>>...<<....>>..<<<<.....>>>>....<<<
<<<<....>>>>>>>....>>>>>>>>>>>>>..<<.<..<<<<<<<...
..<<<<<<<<<..<<<....<<<<<<......>>>>>>.....>>>...<
<<.<<<<<........>>>>>>>>....>>>>>>>>>...<<<.....>>
>......>>>>>>...>..>.>>..<<<<<<....<<<<<....>>>>><
<<<<<<<<....<<<<<<<<.....<<<....<<<.<<<<.....<<<<<
....>>>>>......>>>>.>>>..>>.>.....>>>>>>>>.......>
>>>>>>.>>..<<<<<<<<<<......>>>>>>.>>>>....<<<.....
.>>>...<<<<.<<<...<<<(((.....<<<<<<...........<<..
<<<<<<<<<........<<<<<.<<<..<<<<.......>>>>..>>>..
.......<<......>>...>>>>>....>>>>>>>>>.>>.........
..)))......>>>>>>.>>>...>>>>>>><<<<<<<<..>>>>>>>>.
...>>>>>><.<<<<<<<<<<......<<<<<<<<....>>>.>>>>>..
.>>>>>>>>>>..>.....>>>>>><......<<.....<<<<<<.....
..>>>>>><<<<....<<<<<.<<...<<<<<<...<<.....>>.>>>>
>>....((<<<<.<<...<<<...<<<....>>>...>>>...>>...<<
<<<........>>>>>))<<<<<<<<<<.............<<<<<<<<.
.....<<<<.<....<<<<<....<<.<<<<......>>>>.>>....>>
>>>....>.>>>>.....>>>>>>>>.........<<...<<<<<...<<
<<..<<<..<<<<..<<<<<...((((...>>>>>.<<..<<<<...<<<
<<<<<<<<.<<.....>>>>>>>>>.....>>>>...>>>>...>>...<
<<......>>>.....>>>>...>>>...>>>>........>>>>>..>>
....>>>>>>>>>>>>>>..>>.....<<......>>>>>>>.<<<<...
..>>>>..>>>>..<<<<<...<<<<<<<<.<<.........<.....<<
<<<...............>>>>><<<<<<...<<<<....<<<.....>>
>....>>>>..>>>>>>............<<<<<<<<<..<<<.......
..>>>..<<<<<<<.....<<<....>>>.......>>>>>>>.<<<<<.
<<<..<<<<<<<..<<<<.<<<....<<<<<.<<<<<<...>>>>>>..>
>>>>....>>>.>>>>>>>>>..>>>>><<<<<.........>>>>>...
.....<...........<<<<<<.....>>>>>>.....>....>>>>>.
.>>.>>>>>>>..>..>>.>>>>>>>>>>>>>>>.....>.((..<<<<<
......))>>>>>..<<<<<<<<.<<<.<<......<<<<<<<<<<..<<
<<<.<<<.<<<<<.<<.<<<<<<<<<<<<.............<<<<..<<
<......<<<<<<<<....>>>>>>>>...>>>............>>>.>
...>>>>>>>>>>>>.>>...<<<.<<<<<<......>>>>>>>>>....
>>>>>.>>>..>>>>>..<<<<.....>>>><<<<<<...........>>
>>>>..<<...<<<<<<<...<<<<<<.......>>>>>>.....<<.[.
(((>>....>>>>>>>...<<<<..<<<<....>>>>..>>>>.<<<...
.>>>.>>)))]......<<<<<<<.<<..>>>>..>>>>>>>>>......
.......>>>>..>>>>>>.......<<<<.<.<.<<<<...<<......
.>>...>>>>.>...>>>>.>.......<<<<<.<<<<<<..<<<<<<<<
<......>>>>>>..>>>.<<<<<.....>>>>>.....>>>>>..>...
>>>.>>....<<<<<<<....>>>.>>>>....>>..>>>>>>>>>>>..
..<<<<<<<...<<<<..<<<<<<<...............>>>>>>>.<<
<<<...<<<<...<<<<<<<<<<<))))>>>>>>..>>>>>...>>>>.>
>>>>...<<<....<<<<<...........>>>>>....>>>.>>>>...
....>>>>>>>..<<<<<...>>>>>....<<<<.<<<<.......>>>>
.....<<<.<<<<.<<<....<<<<<....>>>>>...>>>..>>>>..>
>>...>>>>....>>>>..
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8xz3 Cryo-EM structures reveal the molecular mechanism of HflX-mediated erythromycin resistance in mycobacteria.
Resolution3.6 Å
Binding residue
(original residue number in PDB)
V42 N44 M45 G46 V47 G48 R75 R78 F84 I92 R95 Q128 F129 D130 T132 T136 F137 G138 L139 N140 G158 D160
Binding residue
(residue number reindexed from 1)
V37 N39 M40 G41 V42 G43 R70 R73 F79 I87 R90 Q123 F124 D125 T127 T131 F132 G133 L134 N135 G153 D155
Gene Ontology
Molecular Function
GO:0000049 tRNA binding
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
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:8xz3, PDBe:8xz3, PDBj:8xz3
PDBsum8xz3
PubMed39029461
UniProtA0QSG1|RL5_MYCS2 Large ribosomal subunit protein uL5 (Gene Name=rplE)

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