Structure of PDB 6ysi Chain E Binding Site BS01

Receptor Information

>6ysi Chain E (length=175) Species: 575584 (Acinetobacter baumannii ATCC 19606 = CIP 70.34 = JCM 6841)

SRVAKAPVTVPNGVTVTQNGRQVEVKGSKGTLSFNLHALVELKQEEGKLQ
LAPAKESKDAWMQAGTARAVLNNLVKGVSEGFERKLQLVGVGYKAAVKGT
VVNLNLGYSHPIDYALPEGVTAETPTATEIILKSANKQLLGQVAAEIRAY
RSPEPYKGKGVRYSDEVILRKEAKK

Ligand information

>6ysi 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: 6ysi Structure of the 70S Ribosome from the Human Pathogen Acinetobacter baumannii in Complex with Clinically Relevant Antibiotics.
• Resolution: 2.5 Å
• Binding residue (original residue number in PDB): S2 R3 V4 M63 Q64 G66 T67 A70 N74 G108 Y109 S110 K138 Q139 G142 Q143 A146 Y157 K158 K160 K172 A174
• Binding residue (residue number reindexed from 1): S1 R2 V3 M62 Q63 G65 T66 A69 N73 G107 Y108 S109 K137 Q138 G141 Q142 A145 Y156 K157 K159 K171 A173

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:6ysi, PDBe:6ysi, PDBj:6ysi
• PDBsum: 6ysi
• PubMed: 32857965
• UniProt: D0CD12