Structure of PDB 8c97 Chain S Binding Site BS01

Receptor Information

>8c97 Chain S (length=93) Species: 562 (Escherichia coli)

METIAKHRHARSSAQKVRLVADLIRGKKVSQALDILTYTNKKAAVLVKKV
LESAIANAEHNDGADIDDLKVTKIFVDEGPSRTSHITVVVSDR

Ligand information

>8c97 Chain A (length=1292)

gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguaacuuauauucuguagcaagguuaa
ccgaauaggggagccgaagggaaaccgagucuuaacugggcguuaaguug
caggguaugauaaagcgggugaaaagcccgcucgccggaagaccaagggu
uccuguccaacguuaaucggggcagggugagucgaccccuaaggcgaggc
cgaaaggcguagucgaugggaaacagguuaauauuccuguacuugguguu
acugcgaaggggggacggagaaggcuauguuggccgggcgacgguugucc
cgguuuaagcguguaggcugguuuuccaggcaaauccggaaaaucaaggc
ugaggcgugaugacgaggcacuacggugcugaagcaacaaaugcccugcu
uccaggaaaagccucuaagcaucagguaacaucaaaucguaccccaaacc
gacacagguggucagguagagaauaccaaggcgcucgcugauauguaggu
gaggucccucgcggauggagcugaaaucagucgaagacugcuggagaacu
gaggggggcugcuccuaguacgagaggaccggaguggacgcaucacuggu
guucggguugucaugccaauggcacugcccgguagcuaaaugcggaagag
auaaacuugccccgagaugaguucucccugacccuuuaaggguccugaag
gaacguugaagacgacgacguugauaggccggguguguaagcgcagcgau
gcguugagcuaaccgguacuaaugaaccgugaggcuuaaccu

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

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8c97 Cryo-EM captures early ribosome assembly in action.
• Resolution: 4.07 Å
• Binding residue (original residue number in PDB): I4 K6 H7 R8 H9 R11 R18 A56 N57 H60 N61 D77 E78 P80
• Binding residue (residue number reindexed from 1): I4 K6 H7 R8 H9 R11 R18 A56 N57 H60 N61 D77 E78 P80

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0019843 rRNA binding
• GO:0070180 large ribosomal subunit rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation
• GO:0042255 ribosome assembly
• GO:0042256 cytosolic ribosome assembly
• GO:0046677 response to antibiotic
• GO:1902626 assembly of large subunit precursor of preribosome

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:8c97, PDBe:8c97, PDBj:8c97
• PDBsum: 8c97
• PubMed: 36797249
• UniProt: P61175|RL22_ECOLI Large ribosomal subunit protein uL22 (Gene Name=rplV)