Structure of PDB 6wru Chain Y Binding Site BS01

Receptor Information

>6wru Chain Y (length=136) Species: 1280 (Staphylococcus aureus)

MLLPKRVKYRRQHRPKTTGRSKGGNYVTFGEFGLQATTTSWITSRQIESA
RIAMTRYMKRGGKVWIKIFPHTPYTKKPLEVRMGAGKGAVEGWIAVVKPG
RILFEVAGVSEEVAREALRLASHKLPVKTKFVKREE

Ligand information

>6wru Chain 1 (length=2665)

uaaguuauuaagggcgcacgguggaugccuuggcacuagaagccgaugaa
ggacguuacuaacgacgauaugcuuuggggagcuguaaguaagcuuugau
ccagagauuuccgaauggggaaacccagcaugaguuaugucauguuaucg
auaugugaauacauagcauaucagaaggcacacccggagaacugaaacau
cuuaguacccggaggaagagaaagaaaauucgauucccuuaguagcggcg
agcgaaacgggaagagcccaaaccaacaagcuugcuuguugggguuguag
gacacucuaguuacaaaggacgacauuagacgaaucaucuggaaagauga
aucaaagaagguaauaauccuguagucgaaaauguugucucucuugagug
gauccugaguacgacggagcacgugaaauuccgucggaaucugggaggac
caucuccuaaggcuaaauacucucuagugaccgauagugaaccaguaccg
ugagggaaaggugaaaagcaccccggaaggggagugaaauagaaccugaa
accgugugcuuacaaguagucagagcccguuaaugggugauggcgugccu
uuuguagaaugaaccggcgaguuacgauuugaugcaagguuaagcaguaa
auguggagccguagcgaaagcgagucugaauagggcguuuaguauuuggu
cguagacccgaaaccaggugaucuacccuuggucagguugaaguucaggu
aacacugaauggaggaccgaaccgacuuacguugaaaagugagcggauga
acugaggguagcggagaaauuccaaucgaaccuggagauagcugguucuc
uccgaaauagcuuuagggcuagccucaagugaugauuauuggagguagag
cacuguuuggacucagacaaacuccgaaugccaauuaauuuaacuuggga
gucagaacaugggugauaagguccguguucgaaagggaaacagcccagac
caccagcuaaggucccaaaauauauguuaaguggaaaaggauguggcguu
gccgugacacugcgccgaaaauguaccggggcuaaacauauuaccgaagc
uguggauuguccuuuggacaaugguaggagagcguucuaagggcguugaa
gcaugaucguaaggacauguggagcgcuuagaagugagaaugccggugug
aguagcgaaagacgggugagaaucccguccaccgauugacuaagguuucc
agaggaaggcucguccgcucuggguuagucggguccuaagcugaggccga
caggcguaggcgauggauaacagguugauauuccuguaccaccuauaucg
auggggggacgcaguaggauaggcgaagcgugcgauuggauugcacgucu
aagcaguaaggauccgguacgcugagcugugauggggagaagacauugug
ucuucgagucguugauuucacacugccgagaaaagccucuagggugcccg
uaccgcaaaccgacacagguagucaagaugagaauucuaaggugagcgag
cgaacucucguuaaggaacucggcaaaaugaccccguaacuucgggagaa
ggggugcucuuuagggucccagaagagccgcagugaauaggcccaagcga
cuguuuaucaaaaacacaggucucugcuaaaccguaaggugauguauagg
ggcugacgccugcccagugcuggaagguuaagaggagugguuagcuucug
cgaagcuacgaaucgaagccccaguaaacggcggccguaacuauaacggu
ccuaagguagcgaaauuccuugucggguaaguuccgacccgcacgaaagg
cguaacgauuugggcacugucucaacgagagacucggugaaaucauagua
ccugugaagaugcagguuacccgcgacaggacggaaagaccccguggagc
uuuacuguagccugauauugaaaugcuuucuaacccgcaccacuuaucgu
ggugggagacagugucaggcgggcaguuugacuggggcggucgccuccua
aaagguaacggaggcgcucaaagguucccucagaaauucauagaguguaa
aggcauaagggagcuugacugcgagaccuacaagucgagcagggucgaaa
gacggacuuagugauccggugguuccgcauggaagggccaucgcucaacg
gauaaaagcuaccccggggauaacaggcuuaucucccccaagaguucaca
ucgacggggagguuuggcaccucgaugucggcucaucgcauccuggggcu
guagucggucccaaggguugggcuguucgcccauuaaagcgguacgcgag
cuggguucagaacgucgugagacaguucggucccuauccgucgugggcgu
aggaaauuugagaggagcuguccuuaguacgagaggaccgggauggacau
accucugguguaccaguugucgugccaacggcauagcuggguagcuaugu
guggacgggauaagugcugaaagcaucuaagcaugaagccccccucaaga
ugagauuucccaacuucgguuauaagaucccucaaagaugaugagguuaa
uagguucgagguggaagcauggugacauguggagcugacgaauacuaauc
gaucgaagacuuaau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6wru Characterization of the Core Ribosomal Binding Region for the Oxazolidone Family of Antibiotics Using Cryo-EM.
• Resolution: 3.1 Å
• Binding residue (original residue number in PDB): P4 K5 R6 Y9 R11 H13 R14 K22 G24 F29 R45 Q46 S49 R56 K63 W65 F69 H71 K77 E80 R82 M83 G84 A85 G86 K87 R101 H123 K124 P126 K128
• Binding residue (residue number reindexed from 1): P4 K5 R6 Y9 R11 H13 R14 K22 G24 F29 R45 Q46 S49 R56 K63 W65 F69 H71 K77 E80 R82 M83 G84 A85 G86 K87 R101 H123 K124 P126 K128

Gene Ontology

Molecular Function

• GO:0000049 tRNA 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

External links

• PDB: RCSB:6wru, PDBe:6wru, PDBj:6wru
• PDBsum: 6wru
• PubMed: 32566908
• UniProt: Q2FW13|RL16_STAA8 Large ribosomal subunit protein uL16 (Gene Name=rplP)