Structure of PDB 8c95 Chain E Binding Site BS01

Receptor Information
>8c95 Chain E (length=197) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MELVLKDAQSALTVSETTFGRDFNEALVHQVVVAYAAGARQGTRAQKTRA
EVTGSGKKPWRQKGTGGSIKSPIWRSGGVTFAARPQDHSQKVNKKMYRGA
LKSILSELVRQDRLIVVEKFSVEAPKTKLLAQKLKDMALEDVLIITGELD
ENLFLAARNLHKVDVRDATGIDPVSLIAFDKVVMTADAVKQVEEMLA
Ligand information
>8c95 Chain A (length=1220) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gguuaagcgacuaagcguacacgguggaugcccuggcagucagaggcgau
gaaggacgugcuaaucugcgauaagcgucgguaaggugauaugaaccguu
auaaccggcgauuuccgaauggggaaacccaguguguuucgacacacuau
cauuaacugaauccauagguuaaugaggcgaaccgggggaacugaaacau
cuaaguaccccgaggaaaagaaaucaaccgagauucccccaguagcggcg
agcgaacggggagcagcccagagccugaaucaguguguguguuaguggaa
gcgucuggaaaggcgcgcgauacagggugacagccccguacacaaaaaug
cacaugcugugagcucgaugaguagggcgggacacgugguauccugucug
aauauggggggaccauccuccaaggcuaaauacuccugacugaccgauag
ugaaccaguaccgugagggaaaggcgaaaagaaccccggcgaggggagug
aaaaagaaccugaaaccguguacguacaagcagugggagcacgcuuaggc
gugugacugcguaccuuuuguauaaugggucagcgacuuauauucuguag
caagguuaaccgaauaggggagccgaagggaaaccgagucuuaacugggc
guuaaguugcaggguauagacccgaaacccggugaccgggagauagcugg
uucuccccgaaagcuauuuagguagcgccucgugaauucaucuccggggg
uagagcagcaaacugcgaauaccggagaauguuaucacgggagacacacg
gcgggugcuaacguccgucgugaagagggaaacaacccagaccgccagcu
aaggucccaaagucaugguuaagucggggcuaaaccaugcaccgaagcug
cggcagcgacgcuuaugcguuguuggguaggggagcguucuguaagccug
cgaaggugugcugugaggcaugcuggagguaucagaagugcgaaugcuga
cauaaguaacagacucagugaaauugaacucgcugugugcaguguccucc
uaaagaguaacggaggagcacgaagguuggcuaauccuggucggacauca
ggagguuagugcaauggcauaagccagcuugacugcgagcgugacggcgc
gagcaggugcgaaagcaggucauagugauccggugguucugaauggaagg
gccaucgcuaggcuuaaccu
<<<<<<<<......<<<<<<<<<<<....<<<..<<<<<<<<<<<<<...
...<<<<<<....(((.>>>.....<<<<<<<..<<<)))....>>>...
...>>>>>>>...>>>....<<<....>>><<<<<<<....>>>>>>>.<
<<<<<<<<.........>>>>>>>>>.>>....<<<<<.....<<....>
>......>>>>>...........<<....>>..<<<<<<.....<<....
.>>....>>>>>>..<<<..<<<<......<<<<<<<<<<<<..<<<...
<<<<<......>>>>>((......<<<.....))>>>...>>>....>>>
>>>>>>>>>...>>>>........<<<.<<<...........>>>.>>>.
.....<<<<...((((.>>>>..>>>......>>.>>>>>>>.>>.....
........<.<<....>>...>>>.........<<<<.....>>>>....
.........>....>>>>>>>>>>>.......<<<<..<<<<<......>
>>>>..>>>>...<............>.<<<<<<....<<<<<<<<<<<<
<..<<<...<<.....>>...>>>...<<....>>..<<<<.....>>>>
.....>>>>>>>>>>>>>..<<.<...<<<<<<.>>>>>>......>.>>
..<<<<<<....<<<<<....>>>>>..<<<<<<<...<<<<<<<<<...
..<<<.......>>.>.....>>>>>>>.>>...>>>>>>>.....<<<<
<<<<<<......>>>>>>>>>>....<<<......>>>...<<<<.<<<.
..<<<(((.....<<<<<<......))).....>>>>>>.>>>...>>>>
>>><<<<<<<<<....>>>>>>>>>....>>>>>><<<<<<<....<<..
....<<<<<<<<....>>>>>>>>...>>...>>>>>.>>.....>>>>>
>.......<<.......>>............<<<<....>>>>.<<<<<<
...........>>>>>>..<<...<<<<<<<...<<<<<<.......>>>
>>>.....<<...(((>>....>>>>>>>...<<<<..<<<<....>>>>
..>>>>.<<<....>>>.>>))).......<<<<<<<.<<..))))..>>
>>>>>>>....>>>>>>>>.
Receptor-Ligand Complex Structure
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PDB8c95 Cryo-EM captures early ribosome assembly in action.
Resolution4.92 Å
Binding residue
(original residue number in PDB)		H29 Y35 A36 A37 R40 Q41 T43 R44 Q46 K47 R49 A50 V52 T53 G54 S55 G56 K57 G66 G71 P76 I77 W78 R79 S80 F85 Q90 Q94 K95 N97 K98 K99 M100 K130 T131 R162 N163 H165 T173 M199
Binding residue
(residue number reindexed from 1)		H29 Y35 A36 A37 R40 Q41 T43 R44 Q46 K47 R49 A50 V52 T53 G54 S55 G56 K57 G66 G67 P72 I73 W74 R75 S76 F81 Q86 Q90 K91 N93 K94 K95 M96 K126 T127 R158 N159 H161 T169 M195
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0001070 RNA-binding transcription regulator activity
GO:0003677 DNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0019843 rRNA binding
GO:0030371 translation repressor activity
GO:0048027 mRNA 5'-UTR binding
GO:0060698 endoribonuclease inhibitor activity
Biological Process
GO:0002181 cytoplasmic translation
GO:0006353 DNA-templated transcription termination
GO:0006412 translation
GO:0006417 regulation of translation
GO:0017148 negative regulation of translation
GO:0031555 transcriptional attenuation
GO:0042255 ribosome assembly
GO:0045892 negative regulation of DNA-templated transcription
GO:0046677 response to antibiotic
GO:2000766 negative regulation of cytoplasmic translation
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

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8c95, PDBe:8c95, PDBj:8c95
PDBsum8c95
PubMed36797249
UniProtP60723|RL4_ECOLI Large ribosomal subunit protein uL4 (Gene Name=rplD)

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