Structure of PDB 8c90 Chain O Binding Site BS01

Receptor Information

>8c90 Chain O (length=116) Species: 562 (Escherichia coli)

DKKSARIRRATRARRKLQELGATRLVVHRTPRHIYAQVIAPNGSEVLVAA
STVEKAIAEQLKYTGNKDAAAAVGKAVAERALEKGIKDVSFDRSGFQYHG
RVQALADAAREAGLQF

Ligand information

>8c90 Chain A (length=2100)

gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucaccgggagauagc
ugguucuccccgaaagcuauuuagguagcgccucgugaauucaucuccgg
ggguagagcacuguuucggcaacccgaugcaaacugcgaauaccggagaa
uguuaucacgggagacacacggcgggugcuaacguccgucgugaagaggg
aaacaacccagaccgccagcuaaggucccaaagucaugguuaagugggaa
acgaugugggaaggcgucggccugcgcggaagauguaacggggcuaaacc
augcaccgaagcugcggcagcgacgcuuaugcguuguuggguaggggagc
guucuguaagccugcgaaggugugcugugaggcaugcuggagguaucaga
agugcgaaugcugacauaaguaacgauaaagcgggugaaaagcccgcucg
ccggaagaccaaggguuccuguccaacguuaaucggggcagggugagucg
accccuaaggcgaggccgaaaggcguagucgaugggaaacagguuaauau
uccuguacuugguguuacugcgaaggggggacggagaaggcuauguuggc
cgggcgacgguugucccgguuuaagcguguaggcugguuuuccaggcaaa
uccggaaaaucaaggcugaggcgugaugacgaggcacuacggugcugaag
caacaaaugcccugcuuccaggaaaagccucuaagcaucagguaacauca
aaucguaccccaaaccgacacagguggucagguagagaauaccaaggcgc
uugagagaacucgggugaaggaacuaggcaaaauggugccggcacgcuga
uauguaggugaggucccucgcggauggagcugaaaucagucgaagauacc
agcuggcgccaggcugucuccacccgagacucagugaaauugaacucgcu
gugaagaugcaguguacccgcggcaagacggaaaguccuccuaaagagua
acggaggagcacgaagguuggcuaauccuggucggacaucaggagguuag
ugcaauggcauaagccagcuugacugcgagcgugacggcgcgagcaggug
cgaaagcaggucauagugauccggugguucugaauggaagggccaucgcu
caacgucccuaucugccgugggcgcuggagaacugaggggggcugcuccu
aguacgagaggaccggaguggacgcaucacugguguucggguugucaugc
caauggcacugcccgguagcuaaaugcggaagagauaagugcugaaagca
ucuaagcacgaaacuugccccgagaugaguucucccugacccuuuaaggg
uccugaaggaacguugaagacgacgacguugauaggccggguguguaagc
gcagcgaugcguugagcuaaccgguacuaaugaaccgugaggcuuaaccu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8c90 Cryo-EM captures early ribosome assembly in action.
• Resolution: 3.15 Å
• Binding residue (original residue number in PDB): R9 R10 R13 R16 L21 S91 F92 R94 Q98 Y99 R111
• Binding residue (residue number reindexed from 1): R8 R9 R12 R15 L20 S90 F91 R93 Q97 Y98 R110

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0008097 5S rRNA binding
• GO:0019843 rRNA binding

Biological Process

• 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:8c90, PDBe:8c90, PDBj:8c90
• PDBsum: 8c90
• PubMed: 36797249
• UniProt: P0C018|RL18_ECOLI Large ribosomal subunit protein uL18 (Gene Name=rplR)