Structure of PDB 8c90 Chain 0 Binding Site BS01

Receptor Information

>8c90 Chain 0 (length=55) Species: 562 (Escherichia coli)

AVQQNKPTRSKRGMRRSHDALTAVTSLSVDKTSGEKHLRHHITADGYYRG
RKVIA

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): A1 V2 Q3 Q4 N5 K6 T8 R9 S10 K11 R12 G13 M14 R15 R16 S17 H18 V29 K31 R39 H40 Y48 R49
• Binding residue (residue number reindexed from 1): A1 V2 Q3 Q4 N5 K6 T8 R9 S10 K11 R12 G13 M14 R15 R16 S17 H18 V29 K31 R39 H40 Y48 R49

Gene Ontology

Molecular Function

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

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0000302 response to reactive oxygen species
• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0009314 response to radiation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015934 large ribosomal subunit
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:8c90, PDBe:8c90, PDBj:8c90
• PDBsum: 8c90
• PubMed: 36797249
• UniProt: P0A7N4|RL32_ECOLI Large ribosomal subunit protein bL32 (Gene Name=rpmF)