Structure of PDB 8qk7 Chain X Binding Site BS01

Receptor Information
>8qk7 Chain X (length=77) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRV
SAKGMRVIDKKGIDTVLAELRARGEKY
Ligand information
>8qk7 Chain 1 (length=2899) [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
guugaagguuggguaacacuaacuggaggaccgaaccgacuaauguugaa
aaauuagcggaugacuuguggcugggggugaaaggccaaucaaaccggga
gauagcugguucuccccgaaagcuauuuagguagcgccucgugaauucau
cuccggggguagagcacuguuucggcaagggggucaucccgacuuaccaa
cccgaugcaaacugcgaauaccggagaauguuaucacgggagacacacgg
cgggugcuaacguccgucgugaagagggaaacaacccagaccgccagcua
aggucccaaagucaugguuaagugggaaacgaugugggaaggcccagaca
gccaggauguuggcuuagaagcagccaucauuuaaagaaagcguaauagc
ucacuggucgagucggccugcgcggaagauguaacggggcuaaaccaugc
accgaagcugcggcagcgacgcgcguuguuggguaggggagcguucugua
agccugcgaaggugugcugugaggcaugcuggagguaucagaagugcgaa
ugcugacauaaguaacgauaaagcgggugaaaagcccgcucgccggaaga
ccaaggguuccuguccaacguuaaucggggcagggugagucgaccccuaa
ggcgaggccgaaaggcguagucgaugggaaacagguuaauauuccuguac
uugguguuacugcgaaggggggacggagaaggcuauguuggccgggcgac
gguugucccgguuuaagcguguaggcugguuuuccaggcaaauccggaaa
aucaaggcugaggcgugaugacgaggcacuacggugcugaagcaacaaau
gcccugcuuccaggaaaagccucuaagcaucagguaacaucaaaucguac
cccaaaccgacacagguggucagguagagaauaccaaggcgcuugagaga
acucgggugaaggaacuaggcaaaauggugccguaacuucgggagaaggc
acgcugauauguaggugaggucccucgcggauggagcugaaaucagucga
agauaccagcuggcugcaacuguuuauuaaaaacacagcacugugcaaac
acgaaaguggacguauacggugugacgccugcccggugccggaagguuaa
uugaugggguuagcgcaagcgaagcucuugaucgaagccccgguaaacgg
cggccguaacuauaacgguccuaagguagcgaaauuccuugucggguaag
uuccgaccugcacgaauggcguaaugauggccaggcugucuccacccgag
acucagugaaauugaacucgcugugaagaugcaguguacccgcggcaaga
cggaaagaccccgugaaccuuuacuauagcuugacacugaacauugagcc
uugauguguaggauaggugggaggcuuugaaguguggacgccagucugca
uggagccgaccuugaaauaccacccuuuaauguuugauguucuaacguug
acccguaauccggguugcggacagugucugguggguaguuugacuggggc
ggucuccuccuaaagaguaacggaggagcacgaagguuggcuaauccugg
ucggacaucaggagguuagugcaauggcauaagccagcuugacugcgagc
gugacggcgcgagcaggugcgaaagcaggucauagugauccggugguucu
gaauggaagggccaucgcucaacggauaaaagguacuccggggauaacag
gcugauaccgcccaagaguucauaucgacggcgguguuuggcaccucgau
gucggcucaucacauccuggggcugaaguaggucccaaggguauggcugu
ucgccauuuaaagugguacgcgagcuggguuuagaacgucgugagacagu
ucggucccuaucugccgugggcgcuggagaacugaggggggcugcuccua
guacgagaggaccggaguggacgcaucacugguguucggguugucaugcc
aauggcacugcccgguagcuaaaugcggaagagauaagugcugaaagcau
cuaagcacgaaacuugccccgagaugaguucucccugacccuuuaagggu
ccugaaggaacguugaagacgacgacguugauaggccggguguguaagcg
cagcgaugcguugagcuaaccgguacuaaugaaccgugaggcuuaaccu
<<<<<<<<......<<<<<<<<<<<.....[[..[[<<<<<<<[[<<...
...<<<<<<.[..(((.>>>.....<<<<<<<..<<<)))..].>>>...
...>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<
<<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>
>......>>>>>.>.........<<....>>..<<<<<<.....<<....
.>>....>>>>>>..(((..<<<<......<<<<<<<<<<<<<.<<<...
<<<<<......>>>>>((......<<<.....))>>>...>>>...>>>>
>>>>>>>>>...>>>>........<<<<<<<<.........>>>>>>>>.
.....<<<<<..<<<<>>>>>..)))......]].>>>>>>>.]].....
..........<<....>>....]].........<<<<.....>>>>....
..............>>>>>>>>>>>.......<<<<..<<<<<<....>>
>>>>..>>>>...<............>.<<<<<<....<<<<<<<<<<<<
<..<<<...<<.....>>...>>>...<<....>>..<<<<.....>>>>
.....>>>>>>>>>>>>>..<<.<...<<<<<<.....<<<<<<<<<..<
<<<...<<<<<<......>>>>>>.>...>>>...<<<.<<<<<......
..>>>>>>>>....>>>>>>>>>...<<<.....>>>......>>>>>>.
.....>.>>..<<<<<<....<<<<<....>>>>>.<<<<<<<<...<<<
<<<<<<.....<<<...<<<.<<<<...<<.<<<<.....>>>>..>>..
.>>>>.>>>..>>.>.....>>>>>>.>>>...>>>>>>>.>...<<<<<
<<<<<......>>>>>>>>>>....<<<......>>>...<<<<.<<<..
.<<<(((.....<<<<<<...........<<..<<<<<..<<........
<<<<<.<<...<<<<.......>>>>...>>........<<<......>>
>..>>>>>....>>..>>>>>.>>...........))).....>>>>>>.
>>>...>>>>>>><<<<<<<<..>>>>>>>>....>>>>>>..<<<<<..
.<<<......<<<<<<<<....>>>>>>>>...>>>..>>>>>.......
.>>>>>><......<<.....<<<<<<.......>>>>>><<<<....<<
<<<.<<...<<<<<<...<<.....>>.>>>>>>....((<<<.<<<...
<<<...<<<....>>>...>>>...>>>..<<<<<........>>>>>))
<<<<<<<<<<<<<...<<<<....<<<<..<<<..<<<<<<<<<<<....
(((...>>>>>><<..<<<<...<<<<<<<<<<<<.<<.....>>>>>>>
>>>..>>>>...>>>>...>><..<<<<<....>>>>>...>>>>>>...
>>>...>>>>.........>>>>...>>....>>>>>>>>>>>.>>>..>
>.....<<......>>>>>>>.<<<<.....>>>>..>>>>..<<<<...
.<<<<<<<<.<<...............<<<<<.....<..>......>>>
>><<<<<<.....<<<...<<<<.....>>>>...>>>...>>>>>>...
.........<<<<<<<<<..<<<.........>>>..<<<<<<<.....<
<<....>>>.......>>>>>>>.<<<<<.<<<..<<<<<<<..<<<...
.<...<<<<<<.<<....>>..>>>>>>..>.....>>>>>>>>..>>>>
><<<<<<.......>>>>>>........<...........<<<<<<....
.>>>>>>.....>....>>>>>..>>.>>>>>>>.....>>.>>>>>>>>
.>>>>>>.....>.....<<<<<........>>>>>..<<<<<<<<.(((
.[[......<<<<.[[<<<<..<<<<<.<<<.<<<<<.<<<<<<<<<<..
<<<<...........<<<<<..<<.......<<<<<<<<....>>>>>>>
>....>>............>>>>>..>>>>..>>>>>>>>>>...<<<.<
<<<<<.....>>>>>>>>>....>>>>>.>>>..>>>>>..<<<<.....
>>>><<<<<<...........>>>>>>..<<...<<<<<<<...<<<<<<
.......>>>>>>.....<<...(((>>....>>>>>>>...<<<<..<<
<<....>>>>..>>>>.<<<....>>>.>>))).......<<<<<<<.((
..>>>>..))>>>>>>>.............>>>>..]]>>>>.......<
<<<...<<<<<<...<<.......>>...>>>>>>....>>>.>......
.<<<<<.<<<<<<..<<<<<<<<<......>>>>>>..>>>.<<<<<...
..>>>>>.....>>>>>..>...>>>.>>....<<<<<<<....>>>.>>
>>....]]..)))>>>>>>>>....<<<<<<<...<<<<..<<<<<<<..
.............>>>>>>>.<<<<<...<<<<...<<<<<<<<<<<)))
.>>>>>>..>>>>>...>>>>.>>>>>...<<<....<<<<<........
...>>>>>....>>>.>>>>.......>>>>>>>..<<<<<.....>>>>
><....<<..<<<<<.......>>>>>....<<<<<<<<..<<....<<<
<<....>>>>>...>>...>>>>>.>>>.....>>..>..>>>>>>>>.
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8qk7 The compensatory mechanism of a naturally evolved E167K RF2 counteracting the loss of RF1 in bacteria
Resolution2.77 Å
Binding residue
(original residue number in PDB)
S2 R3 K10 V13 T14 G15 N16 R18 S19 H20 A21 L22 N23 K26 R27 R28 F29 L30 P31 N32 H34 H36 R37 R50 A53 K54 M56 R57 K61 K62
Binding residue
(residue number reindexed from 1)
S1 R2 K9 V12 T13 G14 N15 R17 S18 H19 A20 L21 N22 K25 R26 R27 F28 L29 P30 N31 H33 H35 R36 R49 A52 K53 M55 R56 K60 K61
External links
PDB RCSB:8qk7, PDBe:8qk7, PDBj:8qk7
PDBsum8qk7
PubMed
UniProtP0A7M2|RL28_ECOLI Large ribosomal subunit protein bL28 (Gene Name=rpmB)

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