Structure of PDB 8c90 Chain Y Binding Site BS01

Receptor Information

>8c90 Chain Y (length=63) Species: 562 (Escherichia coli)

MKAKELREKSVEELNTELLNLLREQFNLRMQAASGQLQQSHLLKQVRRDV
ARVKTLLNEKAGA

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): K2 Q39 S40 H41 K44 R47 R48 A51 R52 K54 T55 N58
• Binding residue (residue number reindexed from 1): K2 Q39 S40 H41 K44 R47 R48 A51 R52 K54 T55 N58

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

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

Cellular Component

• GO:0005737 cytoplasm
• 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: P0A7M6|RL29_ECOLI Large ribosomal subunit protein uL29 (Gene Name=rpmC)