Structure of PDB 8ppk Chain a Binding Site BS01

Receptor Information
>8ppk Chain a (length=101) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TKKRRNNGRAKKGRGHVQPIRCTNCARCVPKDKAIKKFVIRNIVEAAAVR
DISEASVFDAYVLPKLYVKLHYCVSCAIHSKVVRNRSREARKDRTPPPRF
R
Ligand information
>8ppk Chain 2 (length=1771) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucguacuuggauaacugugguaa
uucuagagcuaauacaugccgacgggcgcugacccccuucgcggggggga
ugcgugcauuuaucagaucaaaaccaacccggugccggcggcuuugguga
cucuagauaaccucgggccgaucgcacgccccccguggcggcgacgaccc
auucgaacgucugcccuaucaacuuucgaugguagucgccgugccuacca
uggugaccacgggugacggggaaucaggguucgauuccggagagggagcc
ugagaaacggcuaccacauccaaggaaggcagcaggcgcgcaaauuaccc
acucccgacccggggagguagugacgaaaaauaacaauacaggacucuuu
cgaggcccuguaauuggaaugaguccacuuuaaauccuuuaacgaggauc
cauuggagggcaagucuggugccagcagccgcgguaauuccagcuccaau
agcguauauuaaaguugcugcaguuaaaaagcucguaguuggaucuuggg
agcgggcggccguccccgccccgccucucggcgccccggggcccgaagcg
uuuacuuugaaaaaauuagaguguucaaagcaggcccgagccgccuggau
accgcagcuaggaauaauggaauaggaccgcgguucuauuuuguugguuu
ucggaacugaggccaugauuaagagggacggccgggggcauucguauugc
gccgcuagaggugaaauucuuggaccggcgcaagacggaccagagcgaaa
gcauuugccaagaauguuuucauuaaucaagaacgaaagucggagguucg
aagacgaucagauaccgucguaguuccgaccauaaacgaugccgaccggc
gaugcggcggcguuauucccaugacccgccgggcagcuuccgggaaacca
aagucuuuggguuccggggggaguaugguugcaaagcugaaacuuaaagg
aauugacggaagggcaccaccaggaguggagccugcggcuuaauuugacu
caacacgggaaaccucacccggcccggacacggacaggauugacagauug
auagcucuuucucgauuccgugggugguggugcauggccguucuuaguug
guggagcgauuugucugguuaauuccgauaacgaacgagacucuggcaug
cuaacuaguuacgcgacccccgagcggucggcgucccccaacuucuuaga
gggacaaguggcguucagccacccgagauugagcaauaacaggucuguga
ugcccuuagauguccggggcugcacgcgcgcuacacugacuggcucagcg
ugugccuacccuacgccggcaggcgcggguaacccguugaaccccauucg
ugauggggaucggggauugcaauuauuccccaugaacgaggaauucccag
uaagugcgggucauaagcuugcguugauuaagucccugcccuuuguacac
accgcccgucgcuacuaccgauuggaugguuuagugaggcccucggaucg
gccccgccggggucggcccacggcccuggcggagcgcugagaagacgguc
gaacuugacuaucuagaggaaguaaaagucguaacaagguuuccguaggu
gaaccugcggaaggaucauua
...<<<<<...[[[[>>>>>[[[.((((((.....{{.........[[[.
[[[..<<....<<....<<..........>>...>>.>>......{{...
.....[[[......{{....[[[{..........<<.....<<.<<<...
..>>>.>>......>>.........<<<<...<<<<<<....>>>>>>..
.>>>>[[..(((((.....<<<<<<<<<<<<<..>>>>.......<....
..>..)))))......]]...<<<<.<<<<......>>>>>>>>..}.]]
]...}}....]]].<<<....<<<....<<<<<<<.........>>>>>>
>>>>......>>>...<<<.<<<<....>>>>....>>>.}}.<<.<<<.
.........>>>.>>.<.<<....>>.>...]]]]]].........<<<.
...<<<<...>>>>..>>>......}}.......<<<<<<<<<.<<<...
.>>>..>>>>>>.>>>......<<..<...........>..>>.......
..<<<<<((......<<<<.....<<..))>>.......>>>>.>>>>>.
.)))))).]]]............{{.......{{...[[[.[[....<<<
.<.<<<<<..>>>>>.>.>>>.<<...<<<..<<<<<>>>>>.>>>.>>.
.<<<<<<.<.......<<...<.......>.<<<<.......>>>>...>
>......>.>>>..>>>........{.[[.(((((((.....>>>>>>>>
>.))))))).]].}....]]....<<<<<<..<...<<<<..<<..<<<<
<<<<...<<<......>>>......>>>>>>>>..>>.......<<....
>>...>>>>..>..>>>.>>>...]]]...}}......<<<<<<<...<.
..<<<<.<.....>.>>>>...>>>>>>>>..........<<<.<<.<<<
..<.<<<<<<.<<<<<....>>>>>>>>>>>.>..>>>...<<..}}>>.
..>>.....>>>.....<<<......<<<<....>>>>....>>>..]]]
]..<<<<<.<<<<<<<..<<..<<<<<..<<<.<<<<........<<...
.....>>..........<<<<<......<<<<<<.......<<.<<<...
.....>>>.>>.....>>>>>>.<.<<.<<<..<<.<<<<<<....<<<.
<<<<<....>>>...<<<......>>>...>>.>>>....<<<...<...
<<<<..<<<<<<<<<<<<.......>>>>.>>>>.....>>>>..>>>>.
.>.....<<<<<.....>>>>>........>>>....>>>.>>>.....>
>>>>>>>......>>>>>......>>>>.>>>.....<<.<<<.......
.<.......<<<.<<<<....>>>>.>>>....>.........>>>.>>.
...........<<<<<..........>>>>>...........>>>>>...
..<<<<<<<<.......>>>>>>>>......>>...>>>>>>>>>>.>>.
......<<.<..<<<<.<<....<<<<<<<<.<<<..<<<<.<<...<<<
<<.<<<<<<<<<<<<.....>>>>>>>>>>>>...>>>>>...>>.>>>>
..>>>.>>>>>>>>...>>.>>>>...>.>>.........<<<<<<<<<.
...>>>>>>>>>.........
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8ppk Universal features of Nsp1-mediated translational shutdown by coronaviruses.
Resolution2.98 Å
Binding residue
(original residue number in PDB)		T2 K3 K4 R5 R6 N7 N8 G9 R10 K12 K13 G14 R15 G16 H17 R28 K32 K34 K37 F39 Y68 V75 I79 K82 V84 R85 N86 R87 S88 R92 K93 R95 P97 P98
Binding residue
(residue number reindexed from 1)		T1 K2 K3 R4 R5 N6 N7 G8 R9 K11 K12 G13 R14 G15 H16 R27 K31 K33 K36 F38 Y67 V74 I78 K81 V83 R84 N85 R86 S87 R91 K92 R94 P96 P97
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:0045296 cadherin binding
Biological Process
GO:0002181 cytoplasmic translation
GO:0006412 translation
GO:0033119 negative regulation of RNA splicing
Cellular Component
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005783 endoplasmic reticulum
GO:0005791 rough endoplasmic reticulum
GO:0005829 cytosol
GO:0005840 ribosome
GO:0015935 small ribosomal subunit
GO:0016020 membrane
GO:0022626 cytosolic ribosome
GO:0022627 cytosolic small ribosomal subunit
GO:0045202 synapse
GO:0070062 extracellular exosome
GO:0098556 cytoplasmic side of rough endoplasmic reticulum membrane
GO:1990904 ribonucleoprotein complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8ppk, PDBe:8ppk, PDBj:8ppk
PDBsum8ppk
PubMed37802027
UniProtP62854|RS26_HUMAN Small ribosomal subunit protein eS26 (Gene Name=RPS26)

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