Structure of PDB 8q4f Chain l Binding Site BS01

Receptor Information
>8q4f Chain l (length=134) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MLQPKRTKFRKMHKGRNRGLAQGTDVSFGSFGLKAVGRGRLTARQIEAAR
RAMTRAVKRQGKIWIRVFPDKPITEKPLAVGKGKGNVEYWVALIQPGKVL
YEMDGVPEELAREAFKLAAAKLPIKTTFVTKTVM
Ligand information
>8q4f Chain a (length=2732) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucuagccaugggcag
guugaagguuggguaacacuaacuggaggaccgaaccgacuaaugaaaaa
uuagcggaugacuuguggcugggggugaaaggccaaucaaaccgggagau
agcugguucuccccgaaagcuauuuagguagcgccucgugaauucaucuc
cggggguagagcacuguuucggcaagggggucaucccgacuuaccaaccc
gaugcaaacugcgaauaccggagaauguuaucacgggagacacacggcgg
ggcuaacguccgucgugaagagggaaacaacccagaccgccagcuaaggu
cccaaagucaugguuaagugggaaacgaugugggaaggcccagacagcgu
cgagucggccugcgcggaagauguaacggggcuaaaccaugcaccgaagc
ugcggcagcgacgcgcguuguuggguaggggagcguucuguaagccugcg
aaggugugcugugaggcaugcuggagguaucagaagugcgaaugcugaca
uaaguaacgauaaagcgggugaaaagcccgcucgccggaagaccaagggu
uccuguccaacguuaaucggggcagggugagucgaccccuaaggcgaggc
cgaaaggcguagucgaugggaaacagguuaauauuccuguacuugguguu
acugcgaaggggggacggagaaggcuauguuggccgggcgacgguugucc
cgguuuaagcguguaggcugguuuuccaggcaaauccggaaaaucaaggc
ugaggcgugaugacgaggcacuacggugcugaagcaacaaaugcccugcu
uccaggaaaagccucuaagcaucagguaacaucaaaucguaccccaaacc
gacacgguggucagguagagaauaccaaggcgcuugagagaacucgggug
aaggaacuaggcaaaauggugccguaacuucgggagaaggcacgcugaua
uguaggugaggucccucgcggauggagcugaaaucagucgaagauaccag
cuggcugcaacuguuuauuaaaaacacagcacugugcaaacacgaaagug
gacguauacggugugacgccucccggugccggaagguuaauugauggggu
uagcgcaagcgaagcucuugaucgaagccccgguaaacggcggccguaac
uauaacgguccuaagguagcgaaauccuugucggguaaguuccgacugca
cgaauggcguaaugauggccaggcugucuccacccgagacucagugaaau
ugaacucgcugugagaugcaguguacccgcggcaagacggaaagaccccg
uaaccuuuacuauagcuugacacugaacauauguucuaacguugacccgu
aauccggguugcggacagugucugguggguaguuugacugggcggucucc
uccuaaagaguaacggaggagcacgaagguuggcuaauccuggucggaca
ucaggagguuagugcaauggcauaagccagcuugacugcgagcgugacgg
cgcgagcaggugcgaaagcaggucauagugauccggugguucugaaugga
agggccaucgcucaacggauaaaagguacuccgggaaacaggcgauaccg
cccaagaguucauaucgacggcgguguuuggcacucggucggcucaucac
auccuggggcugaaguaggucccaaggguauggcguucgccauuuaaagu
gguacgcgagcggguuuagaacgucgugagacagcggucccuaucugccg
ugggcgcuggagaacugaggggggcugcuccuaguacgagaggaccggag
uggacgcaucacugguguucggguugucaugccaauggcacugcccggua
gcuaaaugcggaagagauaagugcugaaagcaucuaagcacgaaacuugc
cccgagaugaguucucccugacccuuuaaggguccugaaggaacguugaa
gacgacgacguugauaggccggguguguaagcgcagcgaugcguugagcu
aaccgguacuaaugaaccgugaggcuuaaccu
..<<<<<<......<<<<<<<<<<<.....<<..<<<<<<<<<<<<<...
...<<<<<<.[..(((.>>>.....<<<<<<<..<<<)))..].>>>...
...>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<
<<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>
>......>>>>>.>.........<<....>>..<<<<<<.....<<....
.>>....>>>>>>..<<<..<<<<......<<<<<<<<<<<<<.<<<...
.<<<<......>>>>.((......<<<.....))>>>...>>>...>>>>
>>>>>>>>>...>>>>........<<<<<<<<.........>>>>>>>>.
.....<<<<<..((((>>>>>..>>>......>>.>>>>>>>.>>.....
..........<<....>>....>>.........<<<<.....>>>>....
..............>>>>>>>>>>>.......<<<<..<<<<<<<..>>>
>>>>..>>>>...<.<........>.>.<<<<<<....<<<<<<<<<<<<
<..<<<...<<.....>>...>>>...<<....>>..<<<<.....>>>>
.....>>>>>>>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<
<<....<<<<<<......>>>>>>.....>>>...<<<.<<<<<.....>
>>>>>>>....>>>>>>>>>...<<<.....>>>......>>>>>>...>
..>.>>..<<<<<<....<<<<<....>>>>>.<<<<<<<<...<<<<<<
<<<.....<<<...<<<.<<<<...<<.<..<.....>..>..>>...>>
>>.>>>..>>.>.....>>>>>>.>>>...>>>>>>>.>...<<<<<<<<
<.......>>>>>>>>>....<<<......>>>...<<<<.<<<...<<<
(((.....<<<<<<...........<<..<<<<<..<<........<..>
....>>..>>>>>.>>...........))).....>>>>>>.>>>...>>
>>>>><<<<<<<<..>>>>>>>>....>>>>>>..<<<<<...<<<....
..<<<<<<<<....>>>>>>>>...>>>..>>>>>........>>>>>><
......<<.....<<<<<<.......>>>>>><<<<....<<<<<.<<..
.<<<<<<...<<.....>>.>>>>>>....((<<<.<<<.<.<<<...<<
<....>>>...>>>..>>>>..<<<<<........>>>>>))<<<<<<<<
<<<<<...<<<<....<<<<..<<<..<<<<<<<<<<<....[[[...>>
>>>><<..<<<<...<<<<<<<<<<<<.<<.....>>>>>>>>>>..>>>
>...>>>>...>><..<<<<<<..>>>>>>...>>>>>>...>>>...>>
>.>........>>>>...>>....>>>>>>>>>>>.>>>..>>.....<<
.....>>>>>>>.<<<<.....>>>>..>>>>..<<<<....<<<<<<<<
.<<.........<.....<<<<<.....<..>......>>>>><<<<<<.
....<<<...<<<<.....>>>>...>>>...>>>>>>............
<<<<<<<<<..<<<.........>>>..<<<<<<<.....<<<....>>>
.......>>>>>>>.<<<<<.<<..<<<<<<<..<<<<.......<<<<<
<.<<....>>..>>>>>>.......>>>>>>>>>..>>>>.<<<<<<...
....>>>>>>........<..........<<<<<.......>>>>>....
>....>>>>>..>>.>>>>>>>..>..>>.>>>>>>>>.>>>>>>.....
>.....<<<<<.......>>>>>..<<<<<<<<.<<<.<<.......<<<
..<<<<..<<<<<.<<<.<<<<<.<<<<<..>>>>>...<<<.<<<<<<.
....>>>>>>>>>....>>>>>.>>>..>>>>>..<<<......>>><<<
<<<...........>>>>>>..<<...<<<<<<<...<<<<<<.......
>>>>>>.....<<...(((>>....>>>>>>>...<<<<..<<<<....>
>>>..>>>>.<<<....>>>.>>))).......<<<<<<<.<<..)))).
.>>>>>>>>>.............>>>>....>>>.......<<.<.<<<<
<<...<<.......>>...>>>>>>...>.>>......<<.<<..<<<<<
..<<<<<<<<<......>>>>>>>..>>.<<<<<....>>>>>.....>>
>>>......>>.>>....<...<<<....>>>..>....>>..>>>>>>>
>>>>....<<<<<<<...<<<<..<<<<<<<...............>>>>
>>>.<<<<<...<<<<...<<<<<<<<<<<]]].>>>>>>..>>>>>...
>>>>.>>>>>...<<<.<..<<<<.............>>>>...>>>>.>
>>>.......>>>>>>>..<<<<<.....>>>>><....<<..<<<<<..
.....>>>>>....<<<<<<<<..<<....<<<<<....>>>>>...>>.
..>>>>>.>>>.....>>..>..>>>>>>...
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8q4f Structure of arbekacin bound Escherichia coli 70S ribosome
Resolution3.1 Å
Binding residue
(original residue number in PDB)
K5 R6 K8 F9 H13 K14 R16 R18 Q22 F28 R44 Q45 R51 R55 W64 R66 F68 E75 G83 K84 G85 K100 L119 K123 K127
Binding residue
(residue number reindexed from 1)
K5 R6 K8 F9 H13 K14 R16 R18 Q22 F28 R44 Q45 R51 R55 W64 R66 F68 E75 G81 K82 G83 K98 L117 K121 K125
External links
PDB RCSB:8q4f, PDBe:8q4f, PDBj:8q4f
PDBsum8q4f
PubMed
UniProtP0ADY7|RL16_ECOLI Large ribosomal subunit protein uL16 (Gene Name=rplP)

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