Structure of PDB 5tcu Chain LK Binding Site BS02

Receptor Information

>5tcu Chain LK (length=166) Species: 93061 (Staphylococcus aureus subsp. aureus NCTC 8325)

NRLKEKFNTEVTENLMKKFNYSSVMEVPKIDKIVVNMGVGDAVQNSKVLD
NAVEELELITGQKPLVTKAKKSIATFRLREGMPIGAKVTLRGERMYEFLD
KLISVSLPRVRDFQGVSKKAFDGRGNYTLGVKEQLIFPEIDYDKVSKVRG
MDIVIVTTANTDEEAR

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): K33 V35 N37 K69 F114 G116 V117 F122 D123 G124 Y143 D144
• Binding residue (residue number reindexed from 1): K32 V34 N36 K68 F113 G115 V116 F121 D122 G123 Y142 D143

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

External links

• PDB: RCSB:5tcu, PDBe:5tcu, PDBj:5tcu
• PDBsum: 5tcu
• PubMed: 28487427
• UniProt: Q2FW18|RL5_STAA8 Large ribosomal subunit protein uL5 (Gene Name=rplE)