Structure of PDB 5hl7 Chain 2 Binding Site BS01

Receptor Information

>5hl7 Chain 2 (length=43) Species: 93061 (Staphylococcus aureus subsp. aureus NCTC 8325)

VKRTYQPNKRKHSKVHGFRKRMSTKNGRKVLARRRRKGRKVLS

Ligand information

>5hl7 Chain X (length=2705)

auuaaguuauuaagggcgcacgguggaugccuuggcacuagaagccaaug
aaggacguuacuaacgacgauaugcuuuggggagcuguaaguaagcuuug
auccagagauuuccgaauggggaaacccagcaugaguuaugucauguuau
cgauauguauacauagcauaucagaaggcacacccggagaacugaaacau
cuuaguacccggaggaagagaaagaaaauucgauucccuuaguagcggcg
agcgaaacgggaagagcccaaaccaacaagcuugcuuguugggguuguag
gacacucuaugaguuacaaaggacgacauuagacgaaucaucuggaaaga
ugaaucaaagaagguaauaauccuguagucgaaaauguugucucucuuga
guggauccugaguacgacggagcacgugaaauuccgucggaaucugggag
gaccaucuccuaaggcuaaauacucucuagugaccgauagugaaccagua
ccgugagggaaaggugaaaagcaccccggaaggggagugaaauagaaccu
gaaaccgugugcuuacaaguagucagagcccguuaaugggugauggcgug
ccuuuuguagaaugaaccggcgaguuacgauuugaugcaagguuaagcag
uaaauguggagccguagcgaaagcgagucugaauagggcguuuaguauuu
ggucguagacccgaaaccaggugaucuacccuuggucagguugaaguuca
ggcugaauggaggaccgaaccgacuuacguugaaaagugagcggaugaac
ugaggguagcggagaaauuccaaucgaaccuggagauagcugguucucuc
cgaaauagcuuuagggcuagccucaagugaugauuauuggagguagagca
cuguuuggacgaggguuaccgaauucagacaaacuccgaaugccaauuaa
uuuaacuugggagucagaacaugggugauaagguccguguucgaaaggga
aacagcccagaccaccagcuaaggucccaaaauauauguuaaguggaaaa
ggauguggcguugcccagacaacuagcucacuagucgagugacacugcgc
cgaaaauguaccggggcuaaacauauuaccgaagcuguggauuguccuug
gacaaugguaggagagcguucuaagggcguugaagcaugaucguaaggac
auguggagcgcuuagaagugagaaugccggugugaguagcgaaagacggg
ugagaaucccguccaccgauugacuaagguuuccagaggaaggcucgucc
gcucuggguuagucggguccuaagcugaggccgacaggcguaggcgaugg
auaacagguugauauuccuguaccaccuacguaucgauggggggacgcag
uaggauaggcgaagcgugcgauuggauugcacgucuaagcaguaggcgag
uaauccgguacucguggcugagcugugauggggagaagagagucguugau
uucacacugccgagaaaagccucuagauagaauaggugcccguaccgcaa
accgacacagguagucaagaugagaauucuaaggugagcgagcgaacucu
cguuaaggaacucggcaaaaugaccccguaacuucgggagaaggggugcu
cuuuaggguuaacgcccagaagagccgcagugaauaggcccaagcgacug
uuuaucaaaaacacaggucucugcuaaaccguaaggugauguauaggggc
ugacgccugcccgugcuggaagguuaagaggagugguuagcugcgaagcu
acgaaucgaagccccaguaaacggcggcuaagguagcgaaauuccuuguc
ggguaaguuccgacccgcacgaaaggcguaacgauuugggcacugucuca
acgagagacucggugaaaucauaguaccugugaagaugcagguuacccgc
gacaggacggaaagaccccguggagcuuuacuguagccugauauugaaau
ucgggcuuucuaacccgcaccacuuaucguggugggagacagugucaagc
gggcaguuugacuggggcggucgccuccuaaaagguaacggaggcgcuca
aagguucccucagaaugguugaaaucauucauagaguguaaaggcauaag
ggagcuugacugcgagaccuacaagucgagcagggucgaaagacggacuu
agugauccggugguuccgcauggaagggccaucgcucaacggauaaaagc
uaccccggggauaacaggcuuaucucccccaagaguucacaucgacgggg
agguuuggcaccucgaugucggcucaucgcauccuggggcuguagucggu
cccaaggguugggcuguucgcccauuaaagcgguacgcgagcuggguuca
gaacgucgugagacaguucggucccuauccgucgugggcguaggaaauuu
gagaggagcuguccuuaguacgagaggaccgggauggacauaccucuggu
guaccaguugucgugccaacggcauagcuggguagcuauguguggacggg
auaagugcugaaagcaucuaagcaugaagccccccucaagaugagauuuc
ccaacuugguuauaagaucccucaaagaugaugagguuaauagguucgag
guggaagcauggugacauguggagcugacgaauacuaaucgaucgaagac
uuaau

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 5hl7 A novel pleuromutilin antibacterial compound, its binding mode and selectivity mechanism.
• Resolution: 3.55 Å
• Binding residue (original residue number in PDB): V2 R4 T5 Y6 Q7 P8 K10 R11 K12 H13 H17 G18 F19 R20 R22 K26 N27 A33 R34 R35 R36 R37 K38 R40 K41
• Binding residue (residue number reindexed from 1): V1 R3 T4 Y5 Q6 P7 K9 R10 K11 H12 H16 G17 F18 R19 R21 K25 N26 A32 R33 R34 R35 R36 K37 R39 K40

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005840 ribosome
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5hl7, PDBe:5hl7, PDBj:5hl7
• PDBsum: 5hl7
• PubMed: 27958389
• UniProt: Q2FUQ0|RL34_STAA8 Large ribosomal subunit protein bL34 (Gene Name=rpmH)