Structure of PDB 8q4f Chain z Binding Site BS01

Receptor Information
>8q4f Chain z (length=56) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AVQQNKPTRSKRGMRRSHDALTAVTSLSVDKTSGEKHLRHHITADGYYRG
RKVIAK
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)
A2 V3 Q4 Q5 N6 K7 P8 T9 R10 S11 K12 R13 M15 R16 R17 S18 H19 T26 S27 V30 K32 R40 H41 Y49 R50
Binding residue
(residue number reindexed from 1)
A1 V2 Q3 Q4 N5 K6 P7 T8 R9 S10 K11 R12 M14 R15 R16 S17 H18 T25 S26 V29 K31 R39 H40 Y48 R49
External links
PDB RCSB:8q4f, PDBe:8q4f, PDBj:8q4f
PDBsum8q4f
PubMed
UniProtP0A7N4|RL32_ECOLI Large ribosomal subunit protein bL32 (Gene Name=rpmF)

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