Structure of PDB 8bgh Chain K Binding Site BS01

Receptor Information

>8bgh Chain K (length=118) Species: 83333 (Escherichia coli K-12)

MRHRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEP
LITLAKTDSVANRRLAFARTRDNEIVAKLFNELGPRFASRAGGYTRILKC
GFRAGDNAPMAYIELVDR

Ligand information

>8bgh Chain 0 (length=2758)

gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucuagccaugggcag
guugaagguuggguaacacuaacuggaggaccgaaccgacuaauguugaa
aaauuagcggaugacuuguggcugggggugaaaggccaaucaaaccggga
gauagcugguucuccccgaaagcuauuuagguagcgccucgugaauucau
cuccggggguagagcacuguuucggcaagggggcuuaccaacccgaugca
aacugcgaauaccggagaauguuaucacgggagacacacggcgggugcua
acguccgucgugaagagggaaacaacccagaccgccagcuaaggucccaa
agucaugguuaagugggaaacgaugugggaaggcccagacagccgagucg
gccugcgcggaagauguaacggggcuaaaccaugcaccgaagcugcggca
gcgacgcuuaugcguuguuggguaggggagcguucuguaagccugcgaag
gugugcugugaggcaugcuggagguaucagaagugcgaaugcugacauaa
guaacgauaaagcgggugaaaagcccgcucgccggaagaccaaggguucc
uguccaacguuaaucggggcagggugagucgaccccuaaggcgaggccga
aaggcguagucgaugggaaacagguuaauauuccuguacuugguguuacu
gcgaaggggggacggagaaggcuauguuggccgggcgacgguugucccgg
uuuaagcguguaggcugguuuuccaggcaaauccggaaaaucaaggcuga
ggcgugaugacgaggcacuacggugcugaagcaacaaaugcccugcuucc
aggaaaagccucuaagcaucagguaacaucaaaucguaccccaaaccgac
acagguggucagguagagaauaccaaggcgcuugagagaacucgggugaa
ggaacuaggcaaaauggugccguaacuucgggagaaggcacgcugauaug
uaggugaggucccucgcggauggagcugaaaucagucgaagauaccagcu
ggcugcaacuguuuauuaaaaacacagcacugugcaaacacgaaagugga
cguauacggugugacgccugcccggugccggaagguuaauugaugggguu
agcgcaagcgaagcucuugaucgaagccccgguaaacggcggccguaacu
auaacgguccuaagguagcgaaauuccuugucggguaaguuccgaccugc
acgaauggcguaaugauggccaggcugucuccacccgagacucagugaaa
uugaacucgcugugaagaugcaguguacccgcggcaagacggaaagaccc
cgugaaccuuuacuauagcuugacacugaacauugagccuguuugauguu
cuaacguugacccguaauccggguugcggacagugucugguggguaguuu
gacuggggcggucuccuccuaaagaguaacggaggagcacgaagguuggc
uaauccuggucggacaucaggagguuagugcaauggcauaagccagcuug
acugcgagcgugacggcgcgagcaggugcgaaagcaggucauagugaucc
ggugguucugaauggaagggccaucgcucaacggauaaaagguacuccgg
ggauaacaggcugauaccgcccaagaguucauaucgacggcgguguuugg
caccucgaugucggcucaucacauccuggggcugaaguaggucccaaggg
uauggcuguucgccauuuaaagugguacgcgagcuggguuuagaacgucg
ugagacaguucggucccuaucugccgugggcgcuggagaacugagggggg
cugcuccuaguacgagaggaccggaguggacgcaucacugguguucgggu
ugucaugccaauggcacugcccgguagcuaaaugcggaagagauaagugc
ugaaagcaucuaagcacgaaacuugccccgagaugaguucucccugaccc
uuuaaggguccugaaggaacguugaagacgacgacguugauaggccgggu
guguaagcgcagcgaugcguugagcuaaccgguacuaaugaaccgugagg
cuuaaccu

<<<<<<<<......<<<<<<<<<<<.....[[..[[<<<<<<<[[<<...
...<<<<<<....(((.>>>.....<<<<<<<..<<<)))....>>>...
...>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<
<<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<......
>......>>>>>.>.........<<....>>...<<<<<.....<<....
.>>....>>>>>...(((..<<<<....<.<<<<<<<<<<<<<.<<<...
<<<<<......>>>>>((......<<<.....))>>>...>>>.>..>>>
>>>>>>>>>>..>>>>........<<<<<<<<.........>>>>>>>>.
.....<<<<<..<<<<>>>>>..)))......]].>>>>>>>.]].....
..........<<....>>....]].........<<<<.....>>>>....
..............>>>>>>>>>>>.......<<<<..<<<<<<....>>
>>>>..>>>>...<.<........>.>.<<<<<<....<<<<<<<<<<<<
<..<<<...<<.....>>...>>>...<<....>>..<<<<.....>>>>
.....>>>>>>>>>>>>>..<<.<...<<<<<<.....<<<<<<<<<..<
<<....<<<<<<......>>>>>>.....>>>...<<<.<<<<<......
..>>>>>>>>....>>>>>>>>>...<<<.....>>>......>>>>>>.
.....>.>>..<<<<<<....<<<<<....>>>>>.<<<<<<<<...<<<
<<<<<<.....<<<...<<<.<<<<...<<<<..>>.>>...>>>>.>>>
..>>.>.....>>>>>>.>>>...>>>>>>>.>...<<<<<<<<<<....
..>>>>>>>>>>....<<<......>>>...<<<<.<<<...<<<(((..
...<<<<<<...........<<..<<<<<..<<..............>>.
.>>>>>.>>...........))).....>>>>>>.>>>...>>>>>>><<
<<<<<<<....>>>>>>>>>....>>>>>><.<<<<<...<<<......<
<<<<<<<....>>>>>>>>...>>>..>>>>>..>.....>>>>>><...
...<<.....<<<<<<.......>>>>>><<<<....<<<<<.<<...<<
<<<<...<<.....>>.>>>>>>....((<<<.<<<...<<<...<<<..
..>>>...>>>...>>>..<<<<<........>>>>>))<<<<<<<<<<<
<<...<<<<....<<<<..<<<..<<<<<<<<<<<....(((...>>>>>
><<..<<<<...<<<<<<<<<<<<.<<.....>>>>>>>>>>..>>>>..
.>>>>...>><..<<<<<<..>>>>>>...>>>>>>...>>>...>>>>.
........>>>>...>>....>>>>>>>>>>>.>>>..>>.....<<...
...>>>>>>>.<<<<.....>>>>..>>>>..<<<<....<<<<<<<<.<
<...............<<<<<....<<..>>.....>>>>><<<<<<...
..<<<...<<<<.....>>>>...>>>...>>>>>>............<<
<<<<<<<..<<<.........>>>..<<<<<<<.....<<<....>>>..
.....>>>>>>>.<<<<<.<<<..<<<<<<<..<<<<.......<<<<<<
.<<....>>..>>>>>>.......>>>>>>>>>..>>>>><<<<<<....
...>>>>>>........<...........<<<<<.......>>>>>....
.>....>>>>>..>>.>>>>>>>.....>>.>>>>>>>>.>>>>>>....
.>.....<<<<<........>>>>>..<<<<<<<<.(((.[[......<<
<<.[[<<<<..<<<<<.<<<.<<<<<.<<<<<<<..<<..>>..>>>>>>
>...<<<.<<<<<<.....>>>>>>>>>....>>>>>.>>>..>>>>>..
<<<<.....>>>><<<<<<...........>>>>>>..<<...<<<<<<<
...<<<<<<.......>>>>>>.....<<...(((>>....>>>>>>>..
.<<<<..<<<<....>>>>..>>>>.<<<....>>>.>>))).......<
<<<<<<.((..>>>>..))>>>>>>>.............>>>>..]]>>>
>.......<<<<.<.<<<<<<...<<.......>>...>>>>>>...>>>
>.>.......<<<<<.<<<<<<..<<<<<<<<<......>>>>>>..>>>
.<<<<<.....>>>>>.....>>>>>..>...>>>.>>....<<<<<<<.
...>>>.>>>>....]]..)))>>>>>>>>....<<<<<<<...<<<<..
<<<<<<<...............>>>>>>>.<<<<<...<<<<...<<<<<
<<<<<.)))..>>>>>..>>>>>...>>>>.>>>>>...<<<.<..<<<<
<...........>>>>>...>>>>.>>>>.......>>>>>>>..<<<<<
.....>>>>><....<<..<<<<<.......>>>>>....<<<<<<<<..
<<....<<<<<....>>>>>...>>...>>>>>.>>>.....>>..>..>
>>>>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8bgh Modulation of translational decoding by m 6 A modification of mRNA.
• Resolution: 2.88 Å
• Binding residue (original residue number in PDB): R2 H3 R4 K5 S6 N11 H16 N23 K42 R46 T53 R64 R71 N73 R90 A91 G92 G93 R96 K99 G105 D106
• Binding residue (residue number reindexed from 1): R2 H3 R4 K5 S6 N11 H16 N23 K42 R46 T53 R64 R71 N73 R90 A91 G92 G93 R96 K99 G105 D106

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8bgh, PDBe:8bgh, PDBj:8bgh
• PDBsum: 8bgh
• PubMed: 37553384
• UniProt: P0AG44|RL17_ECOLI Large ribosomal subunit protein bL17 (Gene Name=rplQ)