Structure of PDB 6zoj Chain L Binding Site BS01

Receptor Information
>6zoj Chain L (length=151) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ADIQTERAYQKQPTIFQNKKRVLLGETGKEKLPRYYKNIGLGFKTPKEAI
EGTYIDKKCPFTGNVSIRGRILSGVVTKMKMQRTIVIRRDYLHYIRKYNR
FEKRHKNMSVHLSPCFRDVQIGDIVTVGECRPLSKTVRFNVLKVTKAAGT
K
Ligand information
>6zoj Chain 2 (length=1704) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
uaccugguugauccugccaguagcauaugcuugucucaaagauuaagcca
ugcaugucuaaguacgcacggccgguacagugaaacugcgaauggcucau
uaaaucaguuaugguuccuuuggucgcucguacuuggauaacugugguaa
uucuagagcuaauacaugccgacgggcgcugacccccuucgcggggggga
ugcgugcauuuaucaguggugacucuagauaaccucgggccgaucgcacg
ccccccguggcggcgacgacccauucgaacgucugcccuaucaacuuucg
augguagucgccgugccuaccauggugaccacgggugacggggaaucagg
guucgauuccggagagggagccugagaaacggcuaccacauccaaggaag
gcagcaggcgcgcaaauuacccacucccgacccggggagguagugacgaa
aaauaacaauacaggacucuuucgaggcccuguaauuggaaugaguccac
uuuaaauccuuuaacgaggauccauuggagggcaagucuggugccagcag
ccgcgguaauuccagcuccaauagcguauauuaaaguugcugcaguuaaa
aagcucguaguuggaucucucucggccgaagcguuuacuuugaaaaaauu
agaguguucaaagcaggcccgagccgccuggauaccgcagcuaggaauaa
uggaauaggaccgcgguucuauuuuguugguuuucggaacugaggccaug
auuaagagggacggccgggggcauucguauugcgccgcuagaggugaaau
ucuuggaccggcgcaagacggaccagagcgaaagcauuugccaagaaugu
uuucauuaaucaagaacgaaagucggagguucgaagacgaucagauaccg
ucguaguuccgaccauaaacgaugccgaccggcgaugcggcggcguuauu
cccaugacccgccgggcagcuuccgggaaaccaaagucuuuggguuccgg
ggggaguaugguugcaaagcugaaacuuaaaggaauugacggaagggcac
caccaggaguggagccugcggcuuaauuugacucaacacgggaaaccuca
cccggcccggacacggacaggauugacagauugauagcucuuucucgauu
ccgugggugguggugcauggccguucuuaguugguggagcgauuugucug
guuaauuccgauaacgaacgagacucuggcaugcuaacuaguuacgcgac
ccccgagcggucggcgucccccaacuucuuagagggacaaguggcguuca
gccacccgagauugagcaauaacaggucugugaugcccuuagauguccgg
ggcugcacgcgcgcuacacugacuggcucagcgugugccuacccuacgcc
ggcaggcgcggguaacccguugaaccccauucgugauggggaucggggau
ugcaauuauuccccaugaacgaggaauucccaguaagugcgggucauaag
cuugcguugauuaagucccugcccuuuguacacaccgcccgucgcuacua
ccgauuggaugguuuagugaggcccucggaucggccccgccggggucggc
ccacggcccuggcggagcgcugagaagacggucgaacuugacuaucuaga
ggaaguaaaagucguaacaagguuuccguaggugaaccugcggaaggauc
auua
...<<<<<.[.((((>>>>><<<.<<<<<<...<.<<..<......<<<.
<<<..<<....<<....<<..........>>...>>.>>......<<...
.....<<<.<....<<....<<<...........<<.....<<.<<<...
..>>>.>>......>>.........<<<<...<<<<<<....>>>>>>..
.>>>><<..<<<<<...<......>..>>>>>......>>...<<<<.<<
<<......>>>>>>>>....>>>...>>..>.>>>.<<<....<<<....
<<<<<<<.........>>>>>>>>>>......>>>...<<<.<<<<....
>>>>....>>>.>>.<<.<<<..........>>>.>>.<.<<<..>>>.>
...>>>>>>.........<<<....<<<<...>>>>..>>>..>...>>.
>.....<<<<<<<<<.<<<....>>>..>>>>>>.>>>......<<..<.
..........>..>>.........<<<<<((......<<<<.....<<..
))>>.......>>>>.>>>>>..>>>>>>.>>>.........<.<((...
..<.<<...<<<.<<...<<.<<<..>>>>>...<<<<<<.<.......<
<...<.......>.<<<<.......>>>>...>>......>.>>>..>>>
........<.<<.<<<<<<<...............>>>>>>>.>>.>...
.>>....<<<<<<..<...<<<<..<<..<<<<<<<<...<<<......>
>>......>>>>>>>>..>>.......<<....>>...>>>>..>..>>>
.>>>...>>>...>>.>....<<<<<<<...<...<<<<.<.....>.>>
>>...>>>>>>>>..........<<<.<<.<<<..<.<<<<<<.<<<<<.
...>>>>>>>>>>>.>..>>>...<<..))>>...>>.....>>>.>.>.
<<<......<<<<....>>>>....>>>..)))).]<<<<<.<<<<<<<.
.<<..<<<<<..<<<.<<<<<<......<<........>>..........
<<<<<.<....<<<<<<.......<<.<<<........>>>.>>.....>
>>>>>...<<.<<<..<<.<<<<<<....<<<.<<<<......>>...<<
<......>>>...>>.>>>....<<<...<...<<<<..<<<<<<<<<<<
<.......>>>>.>>>>.....>>>>..>>>>..>.....<<<<<.....
>>>>>........>>>....>>>.>>>.....>>>>>>>.....>.>>>>
>...>>.>>>>.>>>.....<<.<<<........<.......<<<.<<<<
....>>>>.>>>....>.........>>>.>>......<.....<<<<<.
.........>>>>>.....>.....>>>>>.....<<<<<<<<.......
>>>>>>>>......>>...>>>>>>>>>>.>>....<..<<.<..<<<<.
<<....<<<<<<<<.<<<..<<<<.<<...<<<<<.<<<<<<<<<<<<..
...>>>>>>>>>>>>...>>>>>...>>.>>>>..>>>.>>>>>>>>...
>>.>>>>...>.>>...>.....<<<<<<<<<....>>>>>>>>>.....
....
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]
PDB6zoj SARS-CoV-2 Nsp1 binds the ribosomal mRNA channel to inhibit translation.
Resolution2.8 Å
Binding residue
(original residue number in PDB)		E7 F17 Y36 N39 I40 L42 K58 K59 N65 S67 I68 R69 R71 K79 K81 M82 Q83 T85 R89 Y92 H94 K98 Y99 K104 R105 H106 K107 N108 M109 E130 R132 P133 L134 S135 K136 T137 R139 F140
Binding residue
(residue number reindexed from 1)		E6 F16 Y35 N38 I39 L41 K57 K58 N64 S66 I67 R68 R70 K78 K80 M81 Q82 T84 R88 Y91 H93 K97 Y98 K103 R104 H105 K106 N107 M108 E129 R131 P132 L133 S134 K135 T136 R138 F139
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
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
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:0016020 membrane
GO:0022626 cytosolic ribosome
GO:0022627 cytosolic small ribosomal subunit
GO:0032040 small-subunit processome
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:6zoj, PDBe:6zoj, PDBj:6zoj
PDBsum6zoj
PubMed32908316
UniProtP62280|RS11_HUMAN Small ribosomal subunit protein uS17 (Gene Name=RPS11)

[Back to BioLiP]