Structure of PDB 8c91 Chain L Binding Site BS01

Receptor Information

>8c91 Chain L (length=108) Species: 562 (Escherichia coli)

RLNTLSPAEGSKKAGKRLGRGIGSGLGKTGGRGHAAITAEIRLSDLAKVE
GGVVDLNTLKAANIIGIQIEFAKVILAGEVTTPVTVRGLRVTKGARAAIE
AAGGKIEE

Ligand information

>8c91 Chain A (length=2077)

gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaucuagccaugggcag
guugaagguuggguaacacuaacuggaggaccgaaccgacuaauguugaa
aaauuagcggaugacuuguggcugggggugaaaggccaaucaaaccggga
gauagcugguucuccccgaaagcuauuuagguagcgccucgugaauucau
cuccggggguagagcaccaaacugcgaauaccggagaauguuaucacggg
agacacacggcgggugcuaacguccgucgugaagagggaaacaacccaga
ccgccagcuaaggucccaaagucaugguuaagugggaaacgcggaagaug
uaacggggcuaaaccaugcaccgaagcugcggcagcgacgcuuaugcguu
guuggguaggggagcguucuguaagccugcgaaggugugcugugaggcau
gcuggagguaucagaagugcgaaugcugacauaaguaacgauaaagcggg
ugaaaagcccgcucgccggaagaccaaggguuccuguccaacguuaaucg
gggcagggugagucgaccccuaaggcgaggccgaaaggcguagucgaugg
gaaacagguuaauauuccuguacuugguguuacugcgaaggggggacgga
gaaggcuauguuggccgggcgacgguugucccgguuuaagcguguaggcu
gguuuuccaggcaaauccggaaaaucaaggcugaggcgugaugacgaggc
acuacggugcugaagcaacaaaugcccugcuuccaggaaaagccucuaag
caucagguaacaucaaaucguaccccaaaccgacacagguggucagguag
agaauaccaaggcgcuugagagaacucgggugaaggaacuaggcaaaaug
gugccggcacgcugauauguaggugaggucccucgcggauggagcugaaa
ucagucgaagauaccagcuggcugcaacuguuuauuaaaaacacagcacu
gugcaaacacgaaaguggacguauacggugugacgccuggaauggcguaa
ugauggccaggcugucuccacccgagacucagugaaauugaacucgcugu
gaagaugcaguguacccgcggcaagacggaaaucccuaucugccgugggc
gcuggagaacugaggggggcugcuccuaguacgagaggaccggaguggac
gcaucacugguguucggguugucaugccaauggcacugcccgguagcuaa
augcggaagagauaagugcugaaagcaucuaagcacgaaacuugccccga
gaugaguucucccugacccuuuaaggguccugaaggaacguugaagacga
cgacguugauaggccggguguguaagcgcagcgaugcguugagcuaaccg
guacuaaugaaccgugaggcuuaaccu

<<<<<<<<......<<<<<<<<<<<....<.<<.<<<<<<<<<<<<<...
...<<<<<<....(((.>>>.....<<<<<<<..<<<)))....>>>...
...>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<
<<<<<<<<.........>>>>>>>>>.>>...<<<<<<.....<<....>
>......>>>>>.>...................<<<<<<.....<<....
.>>....>>>>>>..<<<..<<<<......<<<<<<<<<<<<<.<<<...
<<<<<......>>>>>((......<<<.....))>>>...>>>...>>>>
>>>>>>>>>...>>>>......<.<.<.<<<<.........>>>>.>>..
.>....<<<<......>>.>>..>>>......>>.>>>>>>>.>>.....
..........<<....>>....>>.........<<<<.....>>>>....
.........>....>>>>>>>>>>>.......<<<<..<<<<<......>
>>>>..>>>>...<.<........>.>.<<<<<<....<<<<<<<<<<<<
<..<<<...<<.....>>...>>>...<<....>>..<<<<.....>>>>
.....>>>>>>>>>>>>>..<<.<..<<<<<<<.....<<<<<<<<<..<
<<<...<<<<<<......>>>>>>...>.>>>...<<<.<<<<<......
..>>>>>>>>....>>>>>>>>>...<<<.....>>>......>>>>>>.
..>..>.>>..<<<<<<....<<<<<....>>>>>.<<<<<<<<...<<<
<<<<<<......<<.......>>.......>>>>>>.>>>...>>>>>>>
.>...<<<<<<<<<........>>>>>>>>>....<<<......>>>...
<<<<.<<<...<<<(((.....<<<<<<...........<<>>.......
....))).....>>>>>>.>>>...>>>>>>><<<<<<<<<....>>>>>
>>>>....>>>>>><<<<<<<...<<<......<<<<<<<<....>>>>>
>>>...>>>..>>>>>.>>.....>>>>>><......<<.....<<<<<<
.......>>>>>><<<<....<<<<<.<<...<<<<<<...<<.....>>
.>>>>>>....((<<<.<<<...<<....<<<....>>>....>>...>>
>..<<<<<........>>>>>))<<<<<<<<<<<<<...<<<<....<<<
<..<<<..<<<<<<<<<<<....(((...>>>>>><<..<<<<...<<<<
<<<<<<<<.<<.....>>>>>>>>>>..>>>>...>>>>...>><..<<<
<<....>>>>>...>>>>>>...>>>...>>>>.........>>>>...>
>....>>>>>>>>>>>.>>>..>>.....<<......>>>>>>>.<<<<.
....>>>>..>>>>..<<<<....<<<<<<<<.<<...............
<<<<..>>>><<<<<<.....<<<...<<<.<....>>>>...>>>...>
>>>>>............<<<<<<<<<..<<<.........>>>..<<<<<
<<.....<<<....>>>.......>>>>>>>.<<<<<......>>>>>..
>>.>>>>>>>.....>>.>>>>>>>>.>>>>>>.....>.....<<<<<.
.......>>>>>..<<<<<<<<.<<<.<<.....>>..>>>>>>>>>>>.
...<<<<<<<...<<<<..<<<<<<<...............>>>>>>>.<
<<<<...<<<<...<<<<<<<<<<<))).>>>>>>..>>>>>...>>>>.
>>>>>...<<<....<<<<.............>>>>....>>>.>>>>..
.....>>>>>>>..<<<<<.....>>>>><....<<..<<<<<.......
>>>>>....<<<<<<<<..<<....<<<<<....>>>>>...>>...>>>
>>.>>>.....>>..>..>>>>>>>>.

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8c91 Cryo-EM captures early ribosome assembly in action.
• Resolution: 4.19 Å
• Binding residue (original residue number in PDB): L3 N4 T5 S7 P8 G11 S12 K13 K14 G16 K17 R18 L19 G20 R21 G22 G24 S25 L27 G28 K29 T30 R33 H35 E76 R78 F107 I111 L112 A113 E115 R126 T128 G130 A131
• Binding residue (residue number reindexed from 1): L2 N3 T4 S6 P7 G10 S11 K12 K13 G15 K16 R17 L18 G19 R20 G21 G23 S24 L26 G27 K28 T29 R32 H34 E40 R42 F71 I75 L76 A77 E79 R90 T92 G94 A95

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0005515 protein binding
• GO:0019843 rRNA binding

Biological Process

• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

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

External links

• PDB: RCSB:8c91, PDBe:8c91, PDBj:8c91
• PDBsum: 8c91
• PubMed: 36797249
• UniProt: P02413|RL15_ECOLI Large ribosomal subunit protein uL15 (Gene Name=rplO)