Structure of PDB 8q4f Chain y Binding Site BS01

Receptor Information
>8q4f Chain y (length=58) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AKTIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAV
SFMVKVEE
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)
S12 I14 G15 P18 T23 L25 G26 R30 I32 A43 G46 M47
Binding residue
(residue number reindexed from 1)
S11 I13 G14 P17 T22 L24 G25 R29 I31 A42 G45 M46
External links
PDB RCSB:8q4f, PDBe:8q4f, PDBj:8q4f
PDBsum8q4f
PubMed
UniProtP0AG51|RL30_ECOLI Large ribosomal subunit protein uL30 (Gene Name=rpmD)

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