Structure of PDB 6yhs Chain S Binding Site BS01

Receptor Information

>6yhs Chain S (length=76) Species: 575584 (Acinetobacter baumannii ATCC 19606 = CIP 70.34 = JCM 6841)

STKNGRDSNPKMLGVKVYGGQTVTAGNIIVRQRGTEFHAGANVGMGRDHT
LFATADGVVKFEVKGQFGRRYVKVET

Ligand information

>6yhs Chain 1 (length=2672)

gucaaguaauuaagugcaugugguggaugccuuggcagucagaggcgaug
aaagacgugauagccugcgaaaagcuccggggaggcggcaaauauccuuu
gauccggagaugucugaaugggggaacccaccuacuuuaagguagguauu
gcaacaugaauacauaguguugcaaggcgaacgaggggaagugaaacauc
ucaguacccuuaggaaaagaaaucaauugagauucccucaguagcggcga
gcgaacggggaucagcccauuaaguuauguguguuuuaguggaacgcucu
gggaagugcgaacguagagggugauauucccguacacgaaagggcacaca
uaaugaugacgaguagggcgaggcacgugaaaccuugucugaauaugggg
ggaccauccuccaaggcuaaauacuccugacugaccgauagugaaccagu
accgugagggaaaggcgaaaagaaccccugugaggggagugaaauagauc
cugaaaccgcaugcauacaagcagugggagcaccuuuguggugugacugc
guaccuuuuguauaaugggucagcgacuuauauucaguagcgagguuaac
cguauaggggagccguagagaaaucgagucuuaauagggcguuuaguugc
uggguauagacccgaaaccaggcgaucuauccaugagcagguugaagguu
ggguaacacuaacuggaggaccgaacccacugucguugaaaagccagggg
augacuuguggauaggggugaaaggcuaaucaagccuggugauagcuggu
ucuccccgaaagcuauuuagguagcgccucggacgaauaccauagggggu
agagcacuguuucggcuaaccgaugcaaacuccgaauaccuaugaguacu
auccgggagacagacugcgggugcuaacguccguagucaagaggaaaaca
auccagaccgccagcuaaggccccaaaaucauaguuaagugggaaacgau
gugggaaggcaagucggccugcgcggaagauguaacggggcuaaaacuau
gugccgaagcugcggauguauacuuuguauacgugguaggggagcguucu
guaagccgaugaagguguguugagaagcaugcuggagguaucagaagugc
gaaugcugacgugaguaacgacaaaacgggugaaaaacccguucgccgaa
agaccaaggguuccaguccaacguuaaucggggcugggugagucgacccc
uaaggcgaggccgaaaggcguagucgaugggaaaaugguuaauauuccau
uacuucuguguaaugcgaugagaggacggagaaggcuaaaucagccuggc
guugguuguccaggugaaaggauguaggcauguaucuuaggcaaauccgg
gguacucuaugcugagaucugaaagugguugaugccaugcuuccaggaaa
agucucuaagcuucaguuacacaggaaucguacccgaaaccgacacaggu
ggucaggucgaguagaccaaggcgcuugagagaacucugcugaaggaacu
aggcaaaaugguaccguaacuucgggagaagguacgcuguuguuggugau
ugagcugacgacagccgcagaaaccaggccgcugcaacuguuuauuaaaa
acauagcacucugcaaacacgaaaguggacguauagggugugaugccugc
ccggugcuggaagguuaauugaugggguuagcguaagcgaagcucuugau
cgaagccccaguaaacggcggccguaacuauaacgguccuaagguagcga
aauuccuugucggguaaguuccgaccugcacgaauggcauaaugauggcg
gcgcugucuccagcagaggcucagugaaaucgaaaucgcugugaagaugc
aguguacccgcggcuagacggaaagaccccgugaaccuuuacugcagcuu
gacacugaacugguucuaacucugucccgugauccgggacgaggaccgug
ucugguggguaguuugacuggggcggucuccuccuaaagaguaacggagg
aguacgaaggugcgcucagcguggucggaaaucacgcguagaguauaaag
gcaaaagcgcgcuuaacugcgagacccacaagucgagcagguacgaaagu
aggucuuagugauccggugguucuguauggaagggccaucgcucaacgga
uaaaagguacucuggggauaacaggcugauaccgcccaagaguucauauc
gacggcgguguuuggcaccucgaugucggcucaucucauccuggggcuga
agcaggucccaaggguauggcuguucgccauuuaaagagguacgcgagcu
ggguuuagaacgucgugagacaguucggucccuaucuaccgugggcgcug
gaaauuugagaggaucugcuccuaguacgagaggaccagaguggacgaac
cucugguguaccgguugugacgccagucgcaucgccggguagcuauguuc
ggaagggauaaccgcugaaagcaucuaagcgggaagccuaccucaagaua
agauuucccuaggacuuuauguccucuaaagagccguucgagacuaggac
guugauagguuggauguggaagcauagugauaugugaagcugaccaauac
uaauugcucgugaggcuugacu

<<<<<<<......<<<<<<<<<<<.....[[..[[<<<<<<<[[<<....
..<<<<<<....(((.>>>.....<<<<<<<..<<.)))......>>...
..>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<<
<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>>
......>>>>>.>.........<<....>>...<<<<<.....<<.....
>>....>>>>>...<<<......<<<<<<<<<<<<<<.<<<...<<<.<.
.....>.>>>((......<<<.....))>>>...>>>...>>>>>>>>>>
>>>>...........<<<<<<<<.........>>>>>>>>......<<<<
<..<<<<>>>>>..>>>......]].>>>>>>>.]]..............
.<<....>>....]].........<<<<.....>>>>.............
.....>>>>>>>>>>>.......<<<<..<<<<<.....>>>>>..>>>>
...<.<........>.>.<<<<<<....<<<<<<<<<<<<<..<<<...<
<.....>>...>>>...<<....>>..<<<<.....>>>>.....>>>>>
>>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<<<<...<<<<
<<......>>>>>>.>...>>>...<<<.<<<.<........>.>>>>>>
....>>>>>>>>>...<<<.....>>>......>>>>>>...>..>.>>.
.<<<<<<....<<<<<....>>>>>.<<<<<<<....<<<<<<<<<....
.<<<...<<<.<<<<....>>>>.>>>..>>.>.....>>>>>>.>>>..
.>>>>>>.>...<<<<<<<<<<......>>>>>>>>>>....<<<.....
.>>>...<<<<.<<<...<<<(((.....<<<<<<...........<<..
<<<<<..<<....>>..>>>>>.>>...........)))......>>>>>
>.>>>...>>>>>>><<<<<<<<...>>>>>>>>....>>>>>><.<<<<
<...<<<......<<<<<<<<....>>>>>>>>...>>>..>>>>>..>.
....>>>>>><......<<.....<<<<<<.......>>>>>><<<<...
.<<<<<.<<...<<<<<<...<<.....>>.>>>>>>....((<<<.<<<
...<<<...<<<....>>>...>>>...>>>..<<<<<........>>>>
>))<<<<<<<<<<<<<...<<<<....<<<<..<<<..<<<<<<<<<<<.
..((((...>>>>>>....<<<<...<<<<.<<<<<<..<<.....>>.>
>>>>>....>>>>...>>>>.....>>>>>...>>>...>>>.>......
..>>>>...>>....>>>>>>>>>>>.>>>..>>.....<<......>>>
>>>>.<<<<.....>>>>..>>>>..<<<<....<<<<<<<<.<<.....
....<.....<<<<<....<<..>>.....>>>>><<<<<<<<<<<<...
...>>>>>>>>>>>>............<<<<<<<<<..<<<.........
>>>..<<<<<<<.....<<<....>>>.......>>>>>>>.<<<<<.<<
<..<<<<<<<..<<<<.......<<<<<..<<....>>...>>>>>....
...>>>>>>>>>..>>>>><<<<<<.......>>>>>>........<...
........<<<<<<.....>>>>>>.....>....>>>>>..>>.>>>>>
>>..>..>>.>>>>>>>>.>>>>>>.....>.....<<<<<........>
>>>>..<<<<<<<.<<<<.[[......<<<<.[[<<<<..<<<<..<<<.
<<<<<.<<<<..>>>>...<<<.<<<<<<.....>>>>>>>>>....>>>
>>.>>>...>>>>..<<<<.....>>>><<<<<<...........>>>>>
>..<<...<<<<<<<...<<<<<<.......>>>>>>.....<<.[.(((
>>....>>>>>>>...<<<<..<<<......>>>..>>>>.<<<....>>
>.>>)))]......<<<<<<<.((..>>>>..))>>>>>>>.........
....>>>>..]]>>>>.......<<<<...<<<<<<...<<.......>>
...>>>>>>....>>>.>.......<<<<<.<<<<<<..<<<<<<<<<..
....>>>>>>>..>>.<<<<<.....>>>>>.....>>>>>..>...>>>
.>>....<<<<<<<....>>>.>>>>....]]..>>>>>>>>>>>....<
<<<<<<...<<<<..<<<<<<.................>>>>>>.<<<<<
...<<<<...<<<<<<<<<<<))))>>>>>>..>>>>>...>>>>.>>>>
>...<<<....<<<<<...........>>>>>....>>>.>>>>......
.>>>>>>>..<<<<<.....>>>>><....<<<<<<<<<.......>>>>
>....<<<<<<<<..<<....<<<<<....>>>>>...>>...>>>>>.>
>>...>>>>..>..>>>>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 6yhs Structure of the 70S Ribosome from the Human Pathogen Acinetobacter baumannii in Complex with Clinically Relevant Antibiotics.
• Resolution: 2.7 Å
• Binding residue (original residue number in PDB): S9 N12 R14 D15 S16 N17 P18 K19 M20 K24 Y26 G27 Q29 A33 G34 N35 I36 R39 R41 G42 T43 H46 G54 R55 D56 F60 F69 R77 R78
• Binding residue (residue number reindexed from 1): S1 N4 R6 D7 S8 N9 P10 K11 M12 K16 Y18 G19 Q21 A25 G26 N27 I28 R31 R33 G34 T35 H38 G46 R47 D48 F52 F61 R69 R70

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome

Biological Process

• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:6yhs, PDBe:6yhs, PDBj:6yhs
• PDBsum: 6yhs
• PubMed: 32857965
• UniProt: D0CDQ7