Structure of PDB 6zon Chain k Binding Site BS01

Receptor Information
>6zon Chain k (length=140) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
LVIPEKFQHILRVLNTNIDGRRKIAFAITAIKGVGRRYAHVVLRKADIDL
TKRAGELTEDEVERVITIMQNPRQYKIPDWFLNRQKDVKDGKYSQVLANG
LDNKLREDLERLKKIRAHRGLRHFWGLRVRGQHTKTTGRR
Ligand information
>6zon Chain 2 (length=1721) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucguacuuggauaacugugguaa
uucuagagcuaauacaugccgacgggcgcugacccccuucgcggggggga
ugcgugcauuuaucaguggugacucuagauaaccucgggccgaucgcacg
ccgcggcgacgacccauucgaacgucugcccuaucaacuuucgaugguag
ucgccgugccuaccauggugaccacgggugacggggaaucaggguucgau
uccggagagggagccugagaaacggcuaccacauccaaggaaggcagcag
gcgcgcaaauuacccacucccgacccggggagguagugacgaaaaauaac
aauacaggacucuuucgaggcccuguaauuggaaugaguccacuuuaaau
ccuuuaacgaggauccauuggagggcaagucuggugccagcagccgcggu
aauuccagcuccaauagcguauauuaaaguugcugcaguuaaaaagcucg
uaguuggaucuugggagcgggcgggcgguccgccgcgaggcgagccaccg
cccguccccgcccucucggccgaagcguuuacuuugaaaaaauuagagug
uucaaagcaggccgccuggauaccgcagcuaggaauaauggaauaggacc
gcgguucuauuuuguugguuuucggaacugaggccaugauuaagagggac
ggccgggggcauucguauugcgccgcuagaggugaaauucuuggaccggc
gcaagacggaccagagcgaaagcauuugccaagaauguuuucauuaauca
agaacgaaagucggagguucgaagacgaucagauaccgucguaguuccga
ccauaaacgaugccgaccggcgaugcggcggcguuauucccaugacccgc
cgggcagcuuccgggaaaccaaagucuuuggguuccggggggaguauggu
ugcaaagcugaaacuuaaaggaauugacggaagggcaccaccaggagugg
agccugcggcuuaauuugacucaacacgggaaaccucacccggcccggac
acggacaggauugacagauugauagcucuuucucgauuccguggguggug
gugcauggccguucuuaguugguggagcgauuugucugguuaauuccgau
aacgaacgagacucuggcaugcuaacuaguuacgcgaccggucggcguaa
cuucuuagagggacaaguggcguucagccacccgagauugagcaauaaca
ggucugugaugcccuuagauguccggggcugcacgcgcgcuacacugacu
ggcucagcgugugccuacccuacgccggcaggcgcggguaacccguugaa
ccccauucgugauggggaucggggauugcaauuauuccccaugaacgagg
aauucccaguaagugcgggucauaagcuugcguugauuaagucccugccc
uuuguacacaccgcccgucgcuacuaccgauuggaugguuuagugaggcc
cucggaucggccccgccggggugcccuggcggagcgcugagaagacgguc
gaacuugacuaucuagaggaaguaaaagucguaacaagguuuccguaggu
gaaccugcggaaggaucauua
...<<<<<.[.((((>>>>><<<.<<<<<<...<.<<..<......<<<.
<<<..<<....<<....<<..........>>...>>.>>......<<...
.....<<<.<....<<....<<<<<.........<<.....<<.<<<...
..>>>.>>......>>.........<<<<...<<<<<.....>.>>>>..
.>>>><<..<<<<<...<......>..>>>>>......>>...<<<<.<<
<.>>>>>>>.>>.>>>...>>..>.>>>.<<<....<<<....<<<<<<<
.........>>>>>>>>>>......>>>...<<<.<<<<....>>>>...
.>>>.>>.<<.<<<..........>>>.>>.<.<<....>>.>...>>>>
>>.........<<<....<<<<...>>>>..>>>..>...>>.>.....<
<<<<<<<<.<<......>>..>>>>>>.>>>......<<..<........
...>..>>.........<<<<<((......<<<<.....<<..))>>...
....>>>>.>>>>>..>>>>>>.>>>.........<.<((.....<.<<.
..<<<.<<.....<<.<.<<<<<<<<<<<.<<<<....>>>>....>>>>
>>>>>>>.>.>><...........>...<<<<<<.<.......<<...<.
......>.<<<<.>>>>...>>......>.>>>..>>>........<.<<
.<<<<<...................>>>>>.>>.>....>>....<<<<<
<..<...<<<<..<<..<<<<<<<<...<<<......>>>......>>>>
>>>>..>>.......<<....>>...>>>>..>..>>>.>>>...>>>..
.>>.>....<<<<<<<...<...<<<<.........>>>>...>>>>>>>
>..........<<<.<<.<<<..<.<<<<<<.<<<<<....>>>>>>>>>
>>.>..>>>...<<..))>>...>>.....>>>.>.>.<<<......<<<
......>>>....>>>..)))).]<<<<<.<<<<<<<..<<..<<<<...
<<<.<.<<........<<........>>..........<<<<<.<....<
<<<<<.......<<.<<<........>>>.>>.....>>>>>>...<..<
<<.......<<<.....<<<.<<<<<....>>>...<<<......>>>..
.>>.>>>....<<<...<...<<<...<<<.<<<<<<<..>>>.>>>>.>
>>...>>>..>.....<<<<<.....>>>>>........>>>.....>>.
>.........>>>.>.....>.>>>>>......>>.>.>>>.....<<.<
<<........<.......<<<.<<<<....>>>>.>>>....>.......
..>>>.>>......<.....<<<<<..........>>>>>.....>....
..>>>>.....<<<<<<<<.......>>>>>>>>......>>...>>>>>
>>>>>.>>....<..<<.<..<<<<.<<....<<<<<<<<.<<<..<<<<
.<<...<<<<.<.....................>..>>>>...>>.>>>>
..>>>.>>>>>>>>...>>.>>>>...>.>>...>.....<<<<<<<<<.
...>>>>>>>>>.........
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]
PDB6zon Structural basis for translational shutdown and immune evasion by the Nsp1 protein of SARS-CoV-2.
Resolution3.0 Å
Binding residue
(original residue number in PDB)
R24 K25 F28 K34 G35 R38 R39 W82 F83 L84 N85 Q87 K88 H120 R121 R124 H125 L129 R130 V131 R132 Q134 H135 T136 K137 T139 G140 R141 R142
Binding residue
(residue number reindexed from 1)
R22 K23 F26 K32 G33 R36 R37 W80 F81 L82 N83 Q85 K86 H118 R119 R122 H123 L127 R128 V129 R130 Q132 H133 T134 K135 T137 G138 R139 R140
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0003723 RNA binding
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:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005840 ribosome
GO:0005925 focal adhesion
GO:0014069 postsynaptic density
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:1990904 ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component
External links
PDB RCSB:6zon, PDBe:6zon, PDBj:6zon
PDBsum6zon
PubMed32680882
UniProtP62269|RS18_HUMAN Small ribosomal subunit protein uS13 (Gene Name=RPS18)

[Back to BioLiP]