Structure of PDB 7ryg Chain T Binding Site BS01

Receptor Information

>7ryg Chain T (length=103) Species: 480119 (Acinetobacter baumannii AB0057)

AKIKKGDQVIVIAGKEKGKQGTVLSVSEDRVKVEGLNLVKKHQKPNRVTG
AEGGIVTQEASLHISNVAILNATTQKADRVGYQVIDGVKTRVYKSTGESV
AVA

Ligand information

>7ryg Chain A (length=2685)

gucaaguaauuaagugcaugugguggaugccuuggcagucagaggcgaug
aaagacgugauagccugcgaaaagcuccggggaggcggcaaauauccuuu
gauccggagaugucugaaugggggaacccaccuacuuuaagguagguauu
gcaacaugaauacauaguguugcaaggcgaacgaggggaagugaaacauc
ucaguacccuuaggaaaagaaaucaauugagauucccucaguagcggcga
gcgaacggggaucagcccauuaaguuauguguguuuuaguggaacgcucu
gggaagugcgaacguagagggugauauucccguacacgaaagggcacaca
uaaugaugacgaguagggcgaggcacgugaaaccuugucugaauaugggg
ggaccauccuccaaggcuaaauacuccugacugaccgauagugaaccagu
accgugagggaaaggcgaaaagaaccccugugaggggagugaaauagauc
cugaaaccgcaugcauacaagcagugggagcaccuucguggugugacugc
guaccuuuuguauaaugggucagcgacuuauauucaguagcgagguuaac
cguauaggggagccguagagaaaucgagucuuaauagggcguuuaguugc
uggguauagacccgaaaccaggcgaucuauccaugagcagguugaagguu
ggguaacacuaacuggaggaccgaacccacugucguugaaaagccagggg
augacuuguggauaggggugaaaggcuaaucaagccuggugauagcuggu
ucuccccgaaagcuauuuagguagcgccucggacgaauaccauagggggu
agagcacuguuucggcaccgaugcaaacuccgaauaccuaugaguacuau
ccgggagacagacugcgggugcuaacguccguagucaagaggaaaacaau
ccagaccgccagcuaaggccccaaaaucauaguuaagugggaaacgaugu
gggaaggcauagacagcuauagucgagucggccugcgcggaagauguaac
ggggcuaaaacuaugugccgaagcugcggauguauacuuuguauacgugg
uaggggagcguucuguaagccgaugaagguguguugagaagcaugcugga
gguaucagaagugcgaaugcugacgugaguaacgacaaaacgggugaaaa
acccguucgccgaaagaccaaggguuccaguccaacguuaaucggggcug
ggugagucgaccccuaaggcgaggccgaaaggcguagucgaugggaaaau
gguuaauauuccauuacuucuguguaaugcgaugagaggacggagaaggc
uaaaucagccuggcguugguuguccaggugaaaggauguaggcaaugcug
agaucugauagcaagcuguacuugugcagcgaagugguugaugccaugcu
uccaggaaaagucucuaagcuucaguuacacaggaaucguacccgaaacc
gacacagguggucaggucgaguagaccaaggcgcuugagagaacucugcu
gaaggaacuaggcaaaaugguaccguaacuucgggagaagguacgcuguu
guuggugauggaacucgcuuccugagcugacgacagccgcagaaaccagg
ccgcugcaacuguuuauuaaaaacauagcacucugcaaacacgaaagugg
acguauagggugugaugccugcccggugcuggaagguuaauugauggggu
uagcguaagcgaagcucuugaucgaagccccaguaaacggcgccuaaggu
agcgaaauuccuugucggguaaguuccgaccugcacgaauggcauaauga
uggcggcgcugucuccagcagaggcucagugaaaucgaaaucgcugugaa
gaugcaguguacccgcggcuagacggaaagaccccgugaaccuuuacugc
agcuugacacugaacuuugauugagguucuaacucugucccgugauccgg
gacgaggaccgugucugguggguaguuugacuggggcggucuccuccuaa
agaguaacggaggaguacgaaggugcgcucagcguggucggaaaucacgc
guagaguauaaaggcaaaagcgcgcuuaacugcgagacccacaagucgag
cagguacgaaaguaggucuuagugauccggugguucuguauggaagggcc
aucgcucaacggauaaaagguacucuggggauaacaggcugauaccgccc
aagaguucauaucgacggcgguguuuggcaccucgaugucggcucaucuc
auccuggggcugaagcaggucccaaggguauggcuguucgccauuuaaag
agguacgcgagcuggguuuagaacgucgugagacaguucggucccuaucu
accgugggcgcuggaaauuugagaggaucugcuccuaguacgagaggacc
agaguggacgaaccucugguguaccgguugugacgccagucgcaucgccg
gguagcuauguucggaagggauaaccgcugaaagcaucuaagcgggaagc
cuaccucaagauaagauuucccuaggacuuuauguccucuaaagagccgu
ucgagacuaggacguugauagguuggauguggaagcauagugauauguga
agcugaccaauacuaauugcucgugaggcuugacu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7ryg An Analysis of the Novel Fluorocycline TP-6076 Bound to Both the Ribosome and Multidrug Efflux Pump AdeJ from Acinetobacter baumannii.
• Resolution: 2.38 Å
• Binding residue (original residue number in PDB): K5 K16 V40 K42 H43 K45 P46 G54 G55 S66 N67 R80 K90 K95
• Binding residue (residue number reindexed from 1): K4 K15 V39 K41 H42 K44 P45 G53 G54 S65 N66 R79 K89 K94

Gene Ontology

Molecular Function

• 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:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:7ryg, PDBe:7ryg, PDBj:7ryg
• PDBsum: 7ryg
• PubMed: 35100868
• UniProt: B7IA28|RL24_ACIB5 Large ribosomal subunit protein uL24 (Gene Name=rplX)