Structure of PDB 8c97 Chain T Binding Site BS01

Receptor Information

>8c97 Chain T (length=91) Species: 562 (Escherichia coli)

REERLLKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFE
VEVEVVNTLVVKGKVKRHGQRIGRRSDWKKAYVTLKEGQNL

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): R3 S17 E18 K19 K40 N59 L61 V62 K66 K68 R73 K82 Y84
• Binding residue (residue number reindexed from 1): R1 S15 E16 K17 K38 N57 L59 V60 K64 K66 R71 K80 Y82

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• 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:8c97, PDBe:8c97, PDBj:8c97
• PDBsum: 8c97
• PubMed: 36797249
• UniProt: P0ADZ0|RL23_ECOLI Large ribosomal subunit protein uL23 (Gene Name=rplW)