Structure of PDB 5tcu Chain L6 Binding Site BS01

Receptor Information

>5tcu Chain L6 (length=89) Species: 93061 (Staphylococcus aureus subsp. aureus NCTC 8325)

EARDILKRPVITEKSSEAMAEDKYTFDVDTRVNKTQVKMAVEEIFNVKVA
SVNIMNYKPKKKRMGRYQGYTNKRRKAIVTLKEGSIDLF

Ligand information

>5tcu Chain B (length=2755)

uuaaguuauuaagggcgcacgguggaugccuuggcacuagaagccaauga
aggacguuacuaacgacgauaugcuuuggggagcuguaaguaagcuuuga
uccagagauuuccgaauggggaaacccagcaugaguuaugucauguuauc
gauaugugaauacauagcauaucagaaggcacacccggagaacugaaaca
ucuuaguacccggaggaagagaaagaaaauucgauucccuuaguagcggc
gagcgaaacgggaagagcccaaaccaacaagcuugcuuguugggguugua
ggacacucuaugaguuacaaaggacgacauuagacgaaucaucuggaaag
augaaucaaagaagguaauaauccuguagucgaaaauguugucucucuug
aguggauccugaguacgacggagcacgugaaauuccgucggaaucuggga
ggaccaucuccuaaggcuaaauacucucuagugaccgauagugaaccagu
accgugagggaaaggugaaaagcaccccggaaggggagugaaauagaacc
ugaaaccgugugcuuacaaguagucagagcccguuaaugggugauggcgu
gccuuuuguagaaugaaccggcgaguuacgauuugaugcaagguuaagca
guaaauguggagccguagcgaaagcgagucugaauagggcguuuaguauu
uggucguagacccgaaaccaggugaucuacccuuggucagguugaaguuc
agguaacacugaauggaggaccgaaccgacuuacguugaaaagugagcgg
augaacugaggguagcggagaaauuccaaucgaaccuggagauagcuggu
ucucuccgaaauagcuuuagggcuagccucaagugaugauuauuggaggu
agagcacuguuuggacgaggccgaauucagacaaacuccgaaugccaauu
aauuuaacuugggagucagaacaugggugauaagguccguguucgaaagg
gaaacagcccagaccaccagcuaaggucccaaaauauauguuaaguggaa
aaggauguggcguugcccagacaacuaguagucgagugacacugcgccga
aaauguaccggggcuaaacauauuaccgaagcuguggauuguccuuugga
caaugguaggagagcguucuaagggcguugaagcaugaucguaaggacau
guggagcgcuuagaagugagaaugccggugugaguagcgaaagacgggug
agaaucccguccaccgauugacuaagguuuccagaggaaggcucguccgc
ucuggguuagucggguccuaagcugaggccgacaggcguaggcgauggau
aacagguugauauuccuguaccaccuauaaucgaucgauggggggacgca
guaggauaggcgaagcgugcgauuggauugcacgucuaagcaguaaggcu
gaguaauccgguacucgggcugagcugugauggggagaagacucuucgag
ucguugauuucacacugccgagaaaagccucuagauagaaaauaggugcc
cguaccgcaaaccgacacagguagucaagaugagaauucuaaggugagcg
agcgaacucucguuaaggaacucggcaaaaugaccccguaacuucgggag
aaggggugcucuuuaggguuaacgcccagaagagccgcagugaauaggcc
caagcgacuguuuaucaaaaacacaggucucugcuaaaccguaaggugau
guauaggggcugacgccugcccggugcuggaagguuaagaggagugguua
gcuucugcgaagcuacgaaucgaagccccaguaaacggcggccguaacua
uaacgguccuaagguagcgaaauuccuugucggguaaguuccgacccgca
cgaaaggcguaacgauuugggcacugucucaacgagagacucggugaaau
cauaguaccugugaagaugcagguuacccgcgacaggacggaaagacccc
guggagcuuuacuguagccugauauugaaauucggcacagcuagcugugu
uggcuuucuaacccgcaccacuuaucguggugggagacagugucaagcgg
gcaguuugacuggggcggucgccuccuaaaagguaacggaggcgcucaaa
gguucccucagaaugguuggaaaucauucauagaguguaaaggcauaagg
gagcuugacugcgagaccuacaagucgagcagggucgaaagacggacuua
gugauccggugguuccgcauggaagggccaucgcucaacggauaaaagcu
accccggggauaacaggcuuaucucccccaagaguucacaucgacgggga
gguuuggcaccucgaugucggcucaucgcauccuggggcuguagucgguc
ccaaggguugggcuguucgcccauuaaagcgguacgcgagcuggguucag
aacgucgugagacaguucggucccuauccgucgugggcguaggaaauuug
agaggagcuguccuuaguacgagaggaccgggauggacauaccucuggug
uaccaguugucgugccaacggcauagcuggguagcuauguguggacggga
uaagugcugaaagcaucuaagcaugaagccccccucaagaugagauuucc
caacuucgguuauaagaucccucaaagaugaugagguuaauagguucgag
guggaagcauggugacauguggagcugacgaauacuaaucgaucgaagac
uuaau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5tcu Structural Basis for Linezolid Binding Site Rearrangement in the Staphylococcus aureus Ribosome.
• Resolution: 3.9 Å
• Binding residue (original residue number in PDB): K15 K24 N34 K35 Q37 K39 N54 I55 N57 K59 Y68 G70 N73 R76 K77 I79
• Binding residue (residue number reindexed from 1): K14 K23 N33 K34 Q36 K38 N53 I54 N56 K58 Y67 G69 N72 R75 K76 I78

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:5tcu, PDBe:5tcu, PDBj:5tcu
• PDBsum: 5tcu
• PubMed: 28487427
• UniProt: Q2FW08|RL23_STAA8 Large ribosomal subunit protein uL23 (Gene Name=rplW)