Structure of PDB 8y0x Chain SN Binding Site BS01

Receptor Information
>8y0x Chain SN (length=150) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIG
VILRDSHGVAQVRFVTGNKILRILKSKGLAPDLPEDLYHLIKKAVAVRKH
LERNRKDKDAKFRLILIESRIHRLARYYKTKRVLPPNWKYESSTASALVA
Ligand information
>8y0x Chain S2 (length=1739) [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
ugaguccacuuuaaauccuuuaacgaggauccauuggagggcaagucugg
ugccagcagccgcgguaauuccagcuccaauagcguauauuaaaguugcu
gcaguuaaaaagcucguaguuggaucuugggagcgggcguccccgcccuc
ucggccggggcccgaagcguuuacuuugaaaaaauuagaguguucaaagc
aggcccgagccgccuggauaccgcagcuaggaauaauggaauagaccgcg
guucuauuuuguugguuuucggaacugaggccaugauuaagagggacggc
cgggggcauucguauugcgccgcuagaggugaaauucuuggaccggcgca
agacggaccagagcgaaagcauuugccaagaauguuuucauuaaucaaga
acgaaagucggagguucgaagacgaucagauaccgucguaguuccgacca
uaaacgaugccgaccggcgaugcggcggcguuauucccaugacccgccgg
gcagcuuccgggaaaccaaagucuuuggguuccggggggaguaugguugc
aaagcugaaacuuaaaggaauugacggaagggcaccaccaggaguggagc
cugcggcuuaauuugacucaacacgggaaaccucacccggcccggacacg
gacaggauugacagauugauagcucuuucucgauuccgugggugguggug
cauggccguucuuaguugguggagcgauuugucugguuaauuccgauaac
gaacgagacucuggcaugcuaacuaguuacgcgacccccgagcggucggc
gucccccaacuucuuagagggacaaguggcguucagccacccgagauuga
gcaauaacaggucugugaugcccuuagauguccggggcugcacgcgcgcu
acacugacuggcucagcgugugccuacccuacgccggcaggcgcggguaa
cccguugaaccccauucgugauggggaucggggauugcaauuauucccca
ugaacgaggaauucccaguaagugcgggucauaagcuugcguugauuaag
ucccugcccuuuguacacaccgcccgucgcuacuaccgauuggaugguuu
agugaggcccucggaucggccccgccggggucggcccacggcccuggcgg
agcgcugagaagacggucgaacuugacuaucuagaggaaguaaaagucgu
aacaagguuuccguaggugaaccugcggaaggaucauua
...<<<<<.[.((((>>>>><<<.<<<<<<...<.<<..<......<<<.
<<<..<<....<<....<<..........>>...>>.>>......<<...
.....<<<.<....<<....<<<<<..................<<.....
<<.<<<.....>>>.>>......>>.........<<<<...<<<<.....
...>>>>...>>>><<..<<<<<...<......>..>>>>>......>>.
..<<<<.<<<<......>>>>>>>>.>>.>>>...>>..>.>>>.<<<..
..<<<....<<<<<<<.........>>>>>>>>>>......>>>...<<<
.<<<<....>>>>....>>>.>>.<<.<<<..........>>>.>>.<.<
<<..>>>.>...>>>>>>.........<<<....<<<<...>>>>..>>>
..>...>>.>.....<<.....<<..<<....>>..>>.......>>...
...<<..<...........>..>>.........<<<<<((....<.<<<<
.....<<..))>>.......>>>>>>>>>>..>>>>>>.>>>........
.<.<((.....<.<<...<<<.<<.......................<<.
<.............>>>...<<<<<<.<.......<<...<.......>.
<<<<.......>>>>...>>......>.>>>..>>>.......<.<<.<<
<.<<<...............>>>.>>>.>>.>....>>....<<<<<<..
<...<<<<..<<..<<<<<<<<...<<<......>>>......>>>>>>>
>..>>.......<<....>>...>>>>..>..>>>.>>>...>>>...>>
.>....<<<<<<<...<...<<<<.<.....>.>>>>...>>>>>>>>..
........<<<.<<.<<<..<.<<<<<<.<<<<......>>>>>>>>>>.
>..>>>...<<..))>>...>>.....>>>.>.>.<<<......<<<<..
..>>>>....>>>..)))).]<<<<<.<<<<<<<..<<..<<<<<..<<<
.<<<<<<......<<........>>..........<<<<<.<....<<<<
<<.......<<.<<<........>>>.>>.....>>>>>>...<<.<<<.
.<<.<<<<<<....<<<.<<<<<....>>>...<<<......>>>...>>
.>>>....<<<...<...<<<<..<<<<<<<<<<<<.......>>>>.>>
>>.....>>>>..>>>>..>.....<<<<<.....>>>>>........>>
>....>>>.>>>.....>>>>>>>.....>.>>>>>...>>.>>>>.>>>
.....<<.<<<........<.......<<<.<<<<....>>>>.>>>...
.>.........>>>.>>............<<<<<..........>>>>>.
..........>>>>>.....<<<<<<<<.......>>>>>>>>......>
>...>>>>>>>>>>.>>....<..<<....<<<<.<<....<<<<<<<<.
<<<..<<<<.<<...<<<<<...<<.....................>>..
...>>>>>...>>.>>>>..>>>.>>>>>>>>...>>.>>>>.....>>.
..>.....<<<<<<<<<<..>>>>>>>>>>.........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB8y0x The global structure of dormant ribosome
Resolution3.3 Å
Binding residue
(original residue number in PDB)		G2 R3 M4 H5 P7 K9 G10 L11 S12 S14 A15 P17 R19 R20 S48 R55 A61 R64 K70 L72 R73 D87 H90 K94 H101 N105 K107 D108 K112 F113 R114 I116 S120 R121 R124 R127 Y128
Binding residue
(residue number reindexed from 1)		G1 R2 M3 H4 P6 K8 G9 L10 S11 S13 A14 P16 R18 R19 S47 R54 A60 R63 K69 L71 R72 D86 H89 K93 H100 N104 K106 D107 K111 F112 R113 I115 S119 R120 R123 R126 Y127
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003729 mRNA binding
GO:0003735 structural constituent of ribosome
GO:0005515 protein binding
GO:0048027 mRNA 5'-UTR binding
GO:0070181 small ribosomal subunit rRNA binding
Biological Process
GO:0002181 cytoplasmic translation
GO:0006412 translation
GO:0033119 negative regulation of RNA splicing
GO:0042274 ribosomal small subunit biogenesis
Cellular Component
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005840 ribosome
GO:0005925 focal adhesion
GO:0014069 postsynaptic density
GO:0016020 membrane
GO:0022626 cytosolic ribosome
GO:0022627 cytosolic small ribosomal subunit
GO:0032040 small-subunit processome
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:8y0x, PDBe:8y0x, PDBj:8y0x
PDBsum8y0x
PubMed38698775
UniProtP62277|RS13_HUMAN Small ribosomal subunit protein uS15 (Gene Name=RPS13)

[Back to BioLiP]