Structure of PDB 6zon Chain C Binding Site BS01

Receptor Information

>6zon Chain C (length=625) Species: 9606 (Homo sapiens)

RVVRSAKDKRFEELTNLIRTIRNAMKIRDVTKCLEEFELLGKAYGKAKSI
VDKEGVPRFYIRILADLEDYLNELWEDKEGKKKMNKNNAKALSTLRQKIR
KYNKGTEITHAVVIKKLNEILQARGKKGTDRAAQIELLQLLVQIAAENNL
GEGVIVKIKFNIIASLYDYNPNLATYMKPEMWGKCLDCINELMDILFANP
NIFVGENILEESENLHNADQPLRVRGCILTLVERMDEEFTKIMQNTDPHS
QEYVEHLKDEAQVCAIIERVQRYLEEKGTTEEVCRIYLLRILHTYYKFDY
KAHSAVLMERLCKYIYAKDRTDRIRTCAILCHIYHHALHSRWYQARDLML
MSHLQDNIQHADPPVQILYNRTMVQLGICAFRQGLTKDAHNALLDIQSSG
RAKELLGQGLNQEQEKVERRRQVPFHLHINLELLECVYLVSAMLLEIPYM
AAHERMISKQFHHQLRVGERQPLLGPPESMREHVVAASKAMKMGDWKTCH
SFIINEKMNGKVWDLFPEADKVRTMLVRKIQEESLRTYLFTYSSVYDSIS
METLSDMFELDLPTVHSIISKMIINEELMASLDQPTQTVVMHRTEPTAQQ
NLALQLAEKLGSLVENNERVFDHKQ

Ligand information

>6zon Chain 2 (length=1721)

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

Structure summary

• PDB: 6zon Structural basis for translational shutdown and immune evasion by the Nsp1 protein of SARS-CoV-2.
• Resolution: 3.0 Å
• Binding residue (original residue number in PDB): R47 V49 W121 N131 K132 A135 S139 T140 Q143
• Binding residue (residue number reindexed from 1): R1 V3 W75 N85 K86 A89 S93 T94 Q97

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003743 translation initiation factor activity
• GO:0005515 protein binding
• GO:0031369 translation initiation factor binding
• GO:0043022 ribosome binding

Biological Process

• GO:0001732 formation of cytoplasmic translation initiation complex
• GO:0002183 cytoplasmic translational initiation
• GO:0006412 translation
• GO:0006413 translational initiation
• GO:0045727 positive regulation of translation
• GO:1902416 positive regulation of mRNA binding

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005852 eukaryotic translation initiation factor 3 complex
• GO:0016282 eukaryotic 43S preinitiation complex
• GO:0032991 protein-containing complex
• GO:0033290 eukaryotic 48S preinitiation complex

External links

• PDB: RCSB:6zon, PDBe:6zon, PDBj:6zon
• PDBsum: 6zon
• PubMed: 32680882
• UniProt: Q99613|EIF3C_HUMAN Eukaryotic translation initiation factor 3 subunit C (Gene Name=EIF3C)