Structure of PDB 6s0z Chain O Binding Site BS01

Receptor Information

>6s0z Chain O (length=116) Species: 1280 (Staphylococcus aureus)

PRVKGGTVTRARRKKTIKLAKGYFGSKHTLYKVAKQQVMKSGQYAFRDRR
QRKRDFRKLWITRINAAARQHEMSYSRLMNGLKKAGIDINRKMLSEIAIS
DEKAFAQLVTKAKDAL

Ligand information

>6s0z Chain A (length=2905)

uuaaguuauuaagggcgcacgguggaugccuuggcacuagaagccgauga
aggacguuacuaacgacgauaugcuuuggggagcuguaaguaagcuuuga
uccagagauuuccgaauggggaaacccagcaugaguuaugucauguuauc
gauaugugaauacauagcauaucagaaggcacacccggagaacugaaaca
ucuuaguacccggaggaagagaaagaaaauucgauucccuuaguagcggc
gagcgaaaugggaagagcccaaaccaacaagcuugcuuguugggguugua
ggacacucuacggaguuacaaaggacgacauuagacgaaucaucuggaaa
gaugaaucaaagaagguaauaauccuguagucgaaaauguugucucucuu
gaguggauccugaguacgacggagcacgugaaauuccgucggaaucuggg
aggaccaucuccuaaggcuaaauacucucuagugaccgauagugaaccag
uaccgugagggaaaggugaaaagcaccccggaaggggagugaaauagaac
cugaaaccgugugcuuacaaguagucagagcccguuaaugggugauggcg
ugccuuuuguagaaugaaccggcgaguuacgauuugaugcaagguuaagc
aguaaauguggagccguagcgaaagcgagucugaauagggcguuuaguau
uuggucguagacccgaaaccaggugaucuacccuuggucagguugaaguu
cagguaacacugaauggaggaccgaaccgacuuacguugaaaagugagcg
gaugaacugaggguagcggagaaauuccaaucgaaccuggagauagcugg
uucucuccgaaauagcuuuagggcuagccucaagugaugauuauuggagg
uagagcacuguuuggacgaggggccgguuaccgaauucagacaaacuccg
aaugccaauuaauuuaacuugggagucagaacaugggugauaagguccgu
guucgaaagggaaacagcccagaccaccagcuaaggucccaaaauauaug
uuaaguggaaaaggauguggcguugcccagacaacuaggauguuggcuua
gaagcagccaucauuuaaagagugcguaauagcucacuagucgagugaca
cugcgccgaaaauguaccggggcuaaacauauuaccgaagcuguggauug
uccuuuggacaaugguaggagagcguucuaagggcguugaagcaugaucg
uaaggacauguggagcgcuuagaagugagaaugccggugugaguagcgaa
agacgggugagaaucccguccaccgauugacuaagguuuccagaggaagg
cucguccgcucuggguuagucggguccuaagcugaggccgacaggcguag
gcgauggauaacagguugauauuccuguaccaccuauaaucguuuuaauc
gauggggggacgcaguaggauaggcgaagcgugcgauuggauugcacguc
uaagcaguaaggcugaguauuaggcaaauccgguacucguuaaggcugag
cugugauggggagaagacauugugucuucgagucguugauuucacacugc
cgagaaaagccucuagauagaaaauaggugcccguaccgcaaaccgacac
agguagucaagaugagaauucuaaggugagcgagcgaacucucguuaagg
aacucggcaaaaugaccccguaacuucgggagaaggggugcucuuuaggg
uuaacgcccagaagagccgcagugaauaggcccaagcgacuguuuaucaa
aaacacaggucucugcuaaaccguaaggugauguauaggggcugacgccu
gcccggugcuggaagguuaagaggagugguuagcuucugcgaagcuacga
aucgaagccccaguaaacggcggccguauaacgguccuaagguagcgaaa
uuccuugucggguaaguuccgacccgcacgaaaggcguaacgauuugggc
acugucucaacgagagacucggugaaaucauaguaccugugaagaugcag
guuacccgcgacaggacggaaagaccccguggagcuuuacuguagccuga
uauugaaauucggcacagcuuguacaggauagguaggagccuuugaaacg
ugagcgcuagcuuacguggaggcgcuggugggauacuacccuagcugugu
uggcuuucuaacccgcaccacuuaucguggugggagacagugucaggcgg
gcaguuugacuggggcggucgccuccuaaaagguaacggaggcgcucaaa
gguucccucagaaugguuggaaaucauucauagaguguaaaggcauaagg
gagcuugacugcgagaccuacaagucgagcagggucgaaagacggacuua
gugauccggugguuccgcauggaagggccaucgcucaacggauaaaagcu
accccggggauaacaggcuuaucucccccaagaguucacaucgacgggga
gguuuggcaccucgaugucggcucaucgcauccuggggcuguagucgguc
ccaaggguugggcuguucgcccauuaaagcgguacgcgagcuggguucag
aacgucgugagacaguucggucccuauccgucgugggcguaggaaauuug
agaggagcuguccuuaguacgagaggaccgggauggacauaccucuggug
uaccaguugucgugccaacggcauagcuggguagcuauguguggacggga
uaagugcugaaagcaucuaagcaugaagccccccucaagaugagauuucc
caacuucgguuauaagaucccucaaagaugaugagguuaauagguucgag
guggaagcauggugacauguggagcugacgaauacuaaucgaucgaagac
uuaau

<<<<<<......<<<<<<<<<<<.....[[..[[<<<<<<<[.<<.....
.<<<<<<.[...((.>>>.....<<<<<<<..<<<))...].>>>.....
>>>>>>>...>>>....<<<....>>><<<<<<<......>>>>>>>.<<
<<<<<<<.........>>>>>>>.>>.>>....<<<<<......<<....
>>.......>>>>.>.........<<....>>..<<<<<......<<...
..>>.....>>>>>..(((....<<<<<<<<....>>>>>>>>......<
<<<.<<...........................<<<...<<<<<......
>>>>>((......<<<.....))>>>...>>>..................
..>>...>>>>.....<<<<<<<<.........>>>>>>>>......<<<
<<..<<<<>>>>>..))).......].>>>>>>>.]].............
..<<....>>....]].........<<<<....>>>>.............
.....>>>>>>>>>>>.......<<<<..<<<<......>>>>..>>>>.
..<.<........>.>.<<<<<<....<<<<<<<.<<<<<..<<<...<<
<.....>>>...>>>...<<....>>..<<<<.....>>>>.....>>>>
>.>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<<<....<<<
<<<......>>>>>>.....>>>...<<<.<<<<<........>>>>>>>
>....>>>>>>>>>...<<<.....>>>......>>>>>>...>..>.>>
..<<<<<<....<<<<<....>>>>><<<<<<<<<...<<<<<<<<<...
..<<<...<<<<<<<<...<<.........>>...>>>>>>>>..>>.>.
....>>>>.>>>>>..>>>>>>>.>>..<<<<<<<<<<......>>>>>>
>>>>....<<<......>>>...<<<<.<<<...<<<(((.....<<<<<
<...........<<.<<<<<.<<<<........<<....<<...<<<...
......>>>...>>.........................>>....>>>>.
>>>>>>>...........))).....>>>>>>.>>>...>>>>>>><<<<
<<.....>>>>>>....>>>>>><.<<<<<<<.<<......<<<<<.<<.
...>>.>>>>>...>>.>>>>>>>..>.....>>>>>><......<<...
.<<<<<<.......>>>>>><<<<....<<<<<.<<...<<<<<<...<<
.....>>.>>>>>>....((<<<<.<<...<<<...<<<....>>>...>
>>...>>...<<<<<........>>>>>))<<<<<<<...........<<
...<<<<....<<<<..<<<...<....<.<<<.....{...>>>.>.<<
...<<<<...<<<.<<<<<<..<<.....>>.>>>>>>......>>>...
>>>>....>>..........................>...>>>...>>>>
.........>>>>..>>......>>>>>>>>>>>..>>.....<<.....
.>>>>>>>.<<<.......>>>..>>>>..<<<<....<<<<<<<<.<<.
........<.....<<<<<....<....>.....>>>>><<<<<<<.<<<
......>>>.>>>>>>>............<<<<<<<<<..<<<.......
..>>>..<<<<<<<.....<<<....>>>.......>>>>>>>.<<<<<.
<<<..<<<<<<<...<<...<<...<<<<<.............>>>>>..
.>>...>>.>>>>>..>>>>><<<<<.....>>>>>........<.....
......<<<<<<.....>>>>>>.....>....>>>>>..>>.>>>>>>>
..>..>>.>>>>>>>>.>>>>>>.....>.....<<<<<........>>>
>>..<<<<<<<<.(((.[[......<<<<.[[<<<<..<<<<<.<<<<<<
<<<.<<<<.<<<<....<<...............<<..............
<<<........>>>.....................>>......>>..>..
>>>.>>>>....<<.<<<<<<.....>>>>>>>>.....>>>>>>>>>..
>>>>>..<<<<.....>>>><<<<<<...........>>>>>>..<<...
<<<<<<<...<<<<<<.......>>>>>>.....<<.[.(((>>....>>
>>>>>...<<<<..<<<......>>>..>>>>.<<<....>>>.>>)))]
......<<<<<<<.((..>>>>..))>>>>>>>.............>>>>
..]]>>>>.......<<<<.<.<<<<<<...<<.......>>...>>>>>
>...>>>>.>.......<<<<<.<<<<<<..<<<<<<<<<......>>>>
>>..>>>.<<<<<.....>>>>>.....>>>>>..>...>>>.>>....<
<<<<<<....>>>.>>>>....]]..)))>>>>>>>>....<<<<<<<..
.<<<<..<<<<<<<...............>>>>>>>.<<<<<...<<<<.
..<<<<<<<<<<<.}..>>>>>>..>>>>>...>>>>.>>>>>...<<<.
...<<<<<...........>>>>>....>>>.>>>>.......>>>>>>>
..<<....>>.....<<<<<<<<<.......>>>>>....<<<<<<<<.<
<<....<<<<<....>>>>>...>>>..>>>>>.>>>...>>>>....>>
>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6s0z Exit tunnel modulation as resistance mechanism of S. aureus erythromycin resistant mutant.
• Resolution: 2.3 Å
• Binding residue (original residue number in PDB): P2 R3 V4 K5 T8 T10 R11 R13 R14 K15 K16 K19 G23 Y24 F25 G26 S27 K28 H29 K33 K36 Q37 Q38 K41 Y45 A46 F47 R48 D49 R50 R51 R53 K54 R55 F57 R58 K59 W61 N66 R70 Y76 S77 N81 N91 R92 K93
• Binding residue (residue number reindexed from 1): P1 R2 V3 K4 T7 T9 R10 R12 R13 K14 K15 K18 G22 Y23 F24 G25 S26 K27 H28 K32 K35 Q36 Q37 K40 Y44 A45 F46 R47 D48 R49 R50 R52 K53 R54 F56 R57 K58 W60 N65 R69 Y75 S76 N80 N90 R91 K92

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6s0z, PDBe:6s0z, PDBj:6s0z
• PDBsum: 6s0z
• PubMed: 31391518
• UniProt: A0A077VMP6