Structure of PDB 8yoo Chain SU Binding Site BS01

Receptor Information
>8yoo Chain SU (length=104) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AIHRIRITLTSRNVKSLEKVCADLIRGAKEKNLKVKGPVRMPTKTLRITT
RKTPCGEGSKTWDRFQMRIHKRLIDLHSPSEIVKQITSISIEPGVEVEVT
IADA
Ligand information
>8yoo Chain S2 (length=1719) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucgcuccucucccacuuggauaa
cugugguaauucuagagcuaauacaugccgacgggcgcugacccccuucg
cgggggggaugcgugcauuuaucaguggugacucuagauaaccucgggcc
gaucgcacgccccccguggcggcgacgacccauucgaacgucugcccuau
caacuuucgaugguagucgccgugccuaccauggugaccacgggugacgg
ggaaucaggguucgauuccggagagggagccugagaaacggcuaccacau
ccaaggaaggcagcaggcgcgcaaauuacccacucccgacccggggaggu
agugacgaaaaauaacaauacaggacucuuucgaggcccuguaauuggaa
ugaguccacuuuaaauccuuccgcgaggauccauuggagggcaagucugg
ugccagcagccgcgguaauuccagcuccaauagcguauauuaaaguugcu
gcaguuaaaaagcucguaguuggaucuuggcucucggcgcccgaagcauu
uacuuugaaaaaauuagaguguucaaagcaggcccgagccgccuggauac
cgcagcuaggaauaauggaauaggaccgcgguucuauuuuguugguuuuc
ggaacugaggccaugauuaagagggacggccgggggcauucguauugcgc
cgcuagaggugaaauucuuggaccggcgcaagacggaccagagcgaaagc
auuugccaagaauguuuucauuaaucaagaacgaaagucggagguucgaa
gacgaucagauaccgucguaguuccgaccauaaacgaugccgacuggcga
ugcggcggcguuauucccaugacccgccgggcagcuuccgggaaaccaaa
gucuuuggguuccggggggaguaugguugcaaagcugaaacuuaaaggaa
uugacggaagggcaccaccaggaguggagccugcggcuuaauuugacuca
acacgggaaaccucacccggcccggacacggacaggauugacagauugau
agcucuuucucgauuccgugggugguggugcauggccguucuuaguuggu
ggagcgauuugucugguuaauuccgauaacgaacgagacucuggcaugcu
aacuaguuacgcgacccccgagcggucggcgucccccaacuucuuagagg
gacaaguggcguucagccacccgagauugagcaauaacaggucugugaug
cccuuagauguccggggcugcacgcgcgcuacacugacuggcucagcgug
ugccuacccuacgccggcaggcgcggguaacccguugaaccccauucgug
auggggaucggggauugcaauuauuccccaugaacgaggaauucccagua
agugcgggucauaagcuugcguugauuaagucccugcccuuuguacacac
cgcccgucgcuacuaccgauuggaugguuuagugaggcccucggaucggc
cccgccggggucggcccacggcccuggcggagcgcugagaagacggucga
acuugacuaucuagaggaaguaaaagucguaacaagguuuccguagguga
accugcggaaggaucauua
...<<<<<.[.((((>>>>><<<.<<<<<<...<.<<..<......<<<.
<<<..<<....<<....<<..........>>...>>.>>......<<...
.....<<<.<....<<....<<<<<..................<<.....
<<.<<<.....>>>.>>......>>.........<<<<...<<<<<....
.>.>>>>...>>>><<..<<<<<...<......>..>>>>>......>>.
..<<<<.<<<<......>>>>>>>>.>>.>>>...>>..>.>>>.<<<..
..<<<....<<<<<<<.........>>>>>>>>>>......>>>...<<<
.<<<<....>>>>....>>>.>>.<<.<<<..........>>>.>>.<.<
<....>>.>...>>>>>>.........<<<....<<<<...>>>>..>>>
..>...>>.>.....<<<<<<<<<.<<<....>>>..>>>>>.>>>>...
...<<..<...........>..>>.........<<<<<((......<<<<
.....<<..))>>.......>>>>.>>>>>..>>>>>>.>>>........
.<.<((.....<.<<...<<<.<<......<<.<........>.>>...<
<<<<<.<.......<<...<.......>.<<<<.......>>>>...>>.
.....>.>>>..>>>........<.<<.<<<<<<<...............
>>>>>>>.>>.>....>>....<<<<<<..<...<<<<..<<..<<<<<<
<<...<<<......>>>......>>>>>>>>..>>.......<<....>>
...>>>>..>..>>>.>>>...>>>...>>.>....<<<<<<<...<...
<<<<.<.....>.>>>>...>>>>>>>>..........<<<.<<.<<<..
<.<<<<<<.<<<<<....>>>>>>>>>>>.>..>>>...<<..))>>...
>>.....>>>.>.>.<<<......<<<......>>>....>>>..)))).
]<<<<<.<<<<<<<..<<..<<<<<..<<<.<<<<<<......<<.....
...>>..........<<<<<.<....<<<<<<.......<<.<<<.....
...>>>.>>.....>>>>>>...<<.<<<..<<.<<<<<<....<<<.<<
<<<....>>>...<<<......>>>...>>.>>>....<<<...<...<<
<<..<<<<<<<<<<<<.......>>>>.>>>>.....>>>>..>>>>..>
.....<<<<<.....>>>>>........>>>....>>>.>>>.....>>>
>>>>.....>.>>>>>...>>.>>>>.>>>.....<<.<<<........<
.......<<<.<<<<....>>>>.>>>....>.........>>>.>>...
...<.....<<<<<..........>>>>>.....>.....>>>>>.....
<<<<<<<<.......>>>>>>>>......>>...>>>>>>>>>>.>>...
.<..<<.<..<<<<.<<....<<<<<<<<.<<<..<<<<.<<...<<<<<
...<<<...................>>>.....>>>>>...>>.>>>>..
>>>.>>>>>>>>...>>.>>>>...>.>>...>.....<<<<<<<<<<..
>>>>>>>>>>.........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8yoo Structural basis for differential inhibition of eukaryotic ribosomes by tigecycline.
Resolution2.0 Å
Binding residue
(original residue number in PDB)		R21 V29 E33 K51 G52 V54 R55 M56 P57 T58 T64 T65 R66 K67 T68 P69 C70 G71 E72 G73 S74 K75 T76 W77 R79 R83 H85 R87 L88
Binding residue
(residue number reindexed from 1)		R6 V14 E18 K36 G37 V39 R40 M41 P42 T43 T49 T50 R51 K52 T53 P54 C55 G56 E57 G58 S59 K60 T61 W62 R64 R68 H70 R72 L73
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0097371 MDM2/MDM4 family protein binding
GO:1990948 ubiquitin ligase inhibitor activity
Biological Process
GO:0002181 cytoplasmic translation
GO:0006412 translation
GO:1901798 positive regulation of signal transduction by p53 class mediator
Cellular Component
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005840 ribosome
GO:0016020 membrane
GO:0022626 cytosolic ribosome
GO:0022627 cytosolic small ribosomal subunit
GO:0045202 synapse
GO:0070062 extracellular exosome
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8yoo, PDBe:8yoo, PDBj:8yoo
PDBsum8yoo
PubMed38942792
UniProtP60866|RS20_HUMAN Small ribosomal subunit protein uS10 (Gene Name=RPS20)

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