Structure of PDB 8y37 Chain G Binding Site BS01

Receptor Information
>8y37 Chain G (length=175) Species: 1280 (Staphylococcus aureus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SRVGKKIIDIPSDVTVTFDGNHVTVKGPKGELSRTLNERMTFKQEENTIE
VVRPSDSKEDRTNHGTTRALLNNMVQGVSQGYVKVLELVGVGYRAQMQGK
DLILNVGYSHPVEIKAEENITFSVEKNTVVKVEGISKEQVGALASNIRSV
RPPEPYKGKGIRYQGEYVRRKEGKT
Ligand information
>8y37 Chain A (length=2884) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uuaaguuauuaagggcgcacgguggaugccuuggcacuagaagccgauga
aggacguuacuaacgacgauaugcuuuggggagcuguaaguaagcuuuga
uccagagauuuccgaauggggaaacccagcaugaguuaugucauguuauc
gauaugugaauacauagcauaucagaaggcacacccggagaacugaaaca
ucuuaguacccggaggaagagaaagaaaauucgauucccuuaguagcggc
gagcgaaaugggaagagcccaaaccaacaagcuugcuuguugggguugua
ggacacucuagaguuacaaaggacgacauuagacgaaucaucuggaaaga
ugaaucaaagaagguaauaauccuguagucgaaaauguugucucucuuga
guggauccugaguacgacggagcacgugaaauuccgucggaaucugggag
gaccaucuccuaaggcuaaauacucucuagugaccgauagugaaccagua
ccgugagggaaaggugaaaagcaccccggaaggggagugaaauagaaccu
gaaaccgugugcuuacaaguagucagagcccguuaaugggugauggcgug
ccuuuuguagaaugaaccggcgaguuacgauuugaugcaagguuaagcag
uaaauguggagccguagcgaaagcgagucugaauagggcguuuaguauuu
ggucguagacccgaaaccaggugaucuacccuuggucagguugaagaaug
gaggaccgaaccgacuuacguugaaaagugagcggaugaacugaggguag
cggagaaauuccaaucgaaccuggagauagcugguucucuccgaaauagc
uuuagggcuagccucaagugaugauuauuggagguagagcacuguuugga
cgaggggccgguuaccgaauucagacaaacuccgaaugccaauuaauuua
acuugggagucagaacaugggugauaagguccguguucgaaagggaaaca
gcccagaccaccagcuaaggucccaaaauauauguuaaguggaaaaggau
guggcguugcccagacaacuaggauguuggcuuagaagcagccaucauuu
aaagagugcguaauagcucacuagucgagugacacugcgccgaaaaugua
ccggggcuaaacauauuaccgaagcuguggauuguccuuuggacaauggu
aggagagcguucuaagggcguugaagcaugaucguaaggacauguggagc
gcuuagaagugagaaugccggugugaguagcgaaagacgggugagaaucc
cguccaccgauugacuaagguuuccagaggaaggcucguccgcucugggu
uagucggguccuaagcugaggccgacaggcguaggcgauggauaacaggu
ugauauuccuguaccaccuauaaucguuuuaaucgauggggggacgcagu
aggauaggcgaagcgugcgauuggauucacgucuaagcaguaaggcugag
uauuaaauccgguacucguuaaggcugagcugugauggggagaagacauu
gugucuucgagucguugauuucacacugccgagaaaagccucuagauaga
aaauaggugcccguaccgcaaaccgacacagguagucaagaugagaauuc
uaaggugagcgagcgaacucucguuaaggaacucggcaaaaugaccccgu
aacuucgggagaaggggugcucuuuaggguuaacgcccagaagagccgca
gugaauaggcccaagcgacuguuuaucaaaaacacaggucucugcuaaac
cguaaggugauguauaggggcugacgccugcccggugcuggaagguuaag
aggagugguuagcuucugcgaagcuacgaaucgaagccccaguaaacggc
ggccguauaacgguccuaagguagcgaaauuccuugucggguaaguuccg
acccgcacgaaaggcguaacgauuugggcacugucucaacgagagacucg
gugaaaucauaguaccugugaagaugcagguuacccgcgacaggacggaa
agaccccguggagcuuuacuguagccugauauugaaauucggcacagcuu
guacaggauagguaggagccuuugaaacgugagcgcuagcuuacguggag
gcgcuggugggauacuacccuagcuguguuggcuuucuaacccgcaccac
uuaucguggugggagacagugucaggcgggcaguuugacuggggcggucg
ccuccuaaaagguaacggaggcgcucaaagguucccucagaaugguugga
aaucauucauagaguguaaaggcauaagggagcuugacugcgagaccuac
aagucgagcagggucgaaagacggacuuagugauccggugguuccgcaug
gaagggccaucgcucaacggauaaaagcuaccccggggauaacaggcuua
ucucccccaagaguucacaucgacggggagguuuggcaccucgaugucgg
cucaucgcauccuggggcuguagucggucccaaggguugggcuguucgcc
cauuaaagcgguacgcgagcuggguucagaacgucgugagacaguucggu
cccuauccgucgugggcguaggaaauuugagaggagcuguccuuaguacg
agaggaccgggauggacauaccucugguguaccaguugucgugccaacgg
cauagcuggguagcuauguguggacgggauaagugcugaaagcaucuaag
caugaagccccccucaagaugagauuucccaacuucgguuauaagauccc
ucaaagaugaugagguuaauagguucgagguggaagcauggugacaugug
gagcugacgaauacuaaucgaucgaagacuuaau
<<<<<<......<<<<<<<<<<<.....[[..[[<<<<<<<[[<<.....
.<<<<<<.((..((.>>>.....<<<<<<...<<<))..)).>>>.....
.>>>>>>...>>>....<<<....>>><<<<<<<......>>>>>>>.<<
<<<<<<<.........>>>>>>>.>>.>>....<<<<<......<<....
>>.......>>>>.>...................<<<<<......<<...
..>>.....>>>>>..(((....<<..<<<<....>>>>..>>......<
<<<<<<<...<<<.......<<<<<<<<<<.<<<...<<<<<......>>
>>>((......<<<.....))>>>...>>>...>>>>>>>>>>>>>...>
>>>..>>>>.....<<<<<<<<.........>>>>>>>>......<<<<<
..<<<<>>>>>..)))......]].>>>>>>>.]]...............
<<....>>....]].........<<<<....>>>>...............
...>>>>>>>>>>>.......<<<<..<<<<......>>>>..>>>>...
<.<........>.>.<<<<<<....<<<<<<<.<<<<<..<<<...<<<.
....>>>...>>>...<<....>>..<<<<.....>>>>.....>>>>>.
>>>>>>>..<<.<...<<<<<<.....<<<<<<<<<..<<<.........
....>>>...<<<.<<<<<........>>>>>>>>....>>>>>>>>>..
.<<<.....>>>......>>>>>>......>.>>..<<<<<<....<<<<
<....>>>>><<<<<<<<<...<<<<<<<<<.....<<<...<<<<<<<<
....<.........>....>>>>>>>>..>>.>.....>>>>.>>>>>..
>>>>>>>.>>..<<<<<<<<<<......>>>>>>>>>>....<<<.....
.>>>...<<<<.<<<...<<<(((.....<<<<<<...........<<..
<<<<.<<<<...........<..<<.....................>>..
.....................>.......>>>>.>>>>.>>.........
..))).....>>>>>>.>>>...>>>>>>><<<<<<<...>>>>>>>...
.>>>>>>..<<<<<<<.<<......<<<<<.<<....>>.>>>>>...>>
.>>>>>>>........>>>>>><......<<....<<<<<<.......>>
>>>><<<<....<<<<<.<<<..<<<<<<...<<.....>>.>>>>>>..
..((<<<<.<<...<<<...<<<....>>>...>>>...>>...<<<<<.
.......>>>>>))<<<<<<<............<...<<<<....<<<<.
.<<...<<<<<.<.<.......{....>.>.............<<<....
.<<<......>>>..........>>>........................
...........>>>>>....>>...>>>>.........>>>>..>.....
..>>>>>>>>>>>.>>>.....<<......>>>>>>>.<<<<....>.>>
>..>>>>..<<<<....<<<<<<<<.<<...............<<<<<..
.............>>>>><<<<<<<.<<<<....>>>>.>>>>>>>....
........<<<<<<<<<..<<<.........>>>..<<<<<<<.....<<
<....>>>.......>>>>>>>.<<<<<.<<<..<<<<<<<..<<<...<
<...<<<<<..<<....>>...>>>>>...>>...>>>>>>>>..>>>>>
<<<<<.....>>>>>........<...........<<<<<<.....>>>>
>>.....>....>>>>>..>>.>>>>>>>.....>>.>>>>>>>>.>>>>
>>.....>.....<<<<<........>>>>>..<<<<<<<<.(((.[[..
....<<<<.[[<<<<..<<<<..<<<<<<<<<.<<<<.<<<.....<<..
...........<.<<..<<.........<.<<<......>>>.>......
>>............>>.>....>>.....>>>.>>>>....<<.<<<<<<
.....>>>>>>>>.....>>>>>>>>>...>>>>..<<<<.....>>>><
<<<<<...........>>>>>>..<<...<<<<<<<...<<<<<<.....
..>>>>>>.....<<.[.(((>>....>>>>>>>...<<<<..<<<....
..>>>..>>>>.<<<....>>>.>>)))]......<<<<<<<.((..>>>
>..))>>>>>>>.............>>>>..]]>>>>.......<<<<.<
.<<<<<<...<<.......>>...>>>>>>...>>>>.>.......<<<<
<.<<<<<<..<<<<<<<<<......>>>>>>>..>>.<<<<<.....>>>
>>.....>>>>>..>...>>>.>>....<<<<<<<....>>>.>>>>...
.]]..)))>>>>>>>>....<<<<<<<...<<<<..<<<<<<<.......
........>>>>>>>.<<<<<...<<<<...<<<<<<<<<<<.}..>>>>
>>..>>>>>...>>>>.>>>>>...<<<....<<<<<...........>>
>>>....>>>.>>>>.......>>>>>>>.<<......>>....<<<<<<
<<<.......>>>>>....<<<<<<<<.<<<....<<<<<....>>>>>.
..>>>..>>>>>.>>>...>>>>....>>>>>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8y37 Synthetic macrolides overcoming MLS B K-resistant pathogens.
Resolution2.53 Å
Binding residue
(original residue number in PDB)
S2 R3 V4 T63 G66 T67 L71 N74 K85 G108 Y109 S110 H111 K138 G142 Y157 K158 K160 K172 T176
Binding residue
(residue number reindexed from 1)
S1 R2 V3 T62 G65 T66 L70 N73 K84 G107 Y108 S109 H110 K137 G141 Y156 K157 K159 K171 T175
Gene Ontology
Molecular Function
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
Biological Process
GO:0002181 cytoplasmic translation
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:0022625 cytosolic large ribosomal subunit
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:8y37, PDBe:8y37, PDBj:8y37
PDBsum8y37
PubMed38992047
UniProtQ7A084|RL6_STAAW Large ribosomal subunit protein uL6 (Gene Name=rplF)

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