Structure of PDB 8q4f Chain m Binding Site BS01

Receptor Information
>8q4f Chain m (length=118) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MRHRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEP
LITLAKTDSVANRRLAFARTRDNEIVAKLFNELGPRFASRAGGYTRILKC
GFRAGDNAPMAYIELVDR
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)
M1 R2 H3 R4 K5 S6 R8 Q9 N11 S15 H16 N23 H31 I34 K35 K40 K42 R45 E49 V60 R63 R64 A68 R71 N73 E74 A77 R90 A91 G92 G93 R96 K99 R103 G105 D106 N107 A108
Binding residue
(residue number reindexed from 1)
M1 R2 H3 R4 K5 S6 R8 Q9 N11 S15 H16 N23 H31 I34 K35 K40 K42 R45 E49 V60 R63 R64 A68 R71 N73 E74 A77 R90 A91 G92 G93 R96 K99 R103 G105 D106 N107 A108
External links
PDB RCSB:8q4f, PDBe:8q4f, PDBj:8q4f
PDBsum8q4f
PubMed
UniProtP0AG44|RL17_ECOLI Large ribosomal subunit protein bL17 (Gene Name=rplQ)

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