7O81

Rabbit 80S ribosome colliding in another ribosome stalled by the SARS-CoV-2 pseudoknot

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 3.1 of the entry. See complete history. 


Literature

Structural basis of ribosomal frameshifting during translation of the SARS-CoV-2 RNA genome.

Bhatt, P.R., Scaiola, A., Loughran, G., Leibundgut, M., Kratzel, A., Meurs, R., Dreos, R., O'Connor, K.M., McMillan, A., Bode, J.W., Thiel, V., Gatfield, D., Atkins, J.F., Ban, N.

(2021) Science 372: 1306-1313

  • DOI: https://doi.org/10.1126/science.abf3546
  • Primary Citation of Related Structures:  
    7O7Y, 7O7Z, 7O80, 7O81

  • PubMed Abstract: 

    Programmed ribosomal frameshifting is a key event during translation of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RNA genome that allows synthesis of the viral RNA-dependent RNA polymerase and downstream proteins. Here, we present the cryo-electron microscopy structure of a translating mammalian ribosome primed for frameshifting on the viral RNA. The viral RNA adopts a pseudoknot structure that lodges at the entry to the ribosomal messenger RNA (mRNA) channel to generate tension in the mRNA and promote frameshifting, whereas the nascent viral polyprotein forms distinct interactions with the ribosomal tunnel. Biochemical experiments validate the structural observations and reveal mechanistic and regulatory features that influence frameshifting efficiency. Finally, we compare compounds previously shown to reduce frameshifting with respect to their ability to inhibit SARS-CoV-2 replication, establishing coronavirus frameshifting as a target for antiviral intervention.

    • Organizational Affiliation: 

    Department of Biology, Institute of Molecular Biology and Biophysics, ETH Zurich, Zurich, Switzerland.


Macromolecules

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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S27B [auth AA]84Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1TZ76 (Oryctolagus cuniculus)
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein S28C [auth AB]69Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TIB4 (Oryctolagus cuniculus)
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein S27aD [auth AC]156Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SK22 (Oryctolagus cuniculus)
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S30E [auth AD]133Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1T8A2 (Oryctolagus cuniculus)
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein eS26F [auth AE]115Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
RACK1G [auth AF]317Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SJB4 (Oryctolagus cuniculus)
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
uS14H [auth AG]56Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1U7M4 (Oryctolagus cuniculus)
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
EDF1L [auth AU]148Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein SAM [auth AZ]295Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TLT8 (Oryctolagus cuniculus)
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S3aN [auth Aa]264Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SS70 (Oryctolagus cuniculus)
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein uS5O [auth Ab]293Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S3P [auth Ac]281Oryctolagus cuniculusMutation(s): 0 
EC: 4.2.99.18
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Find proteins for G1TNM3 (Oryctolagus cuniculus)
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein eS4Q [auth Ad]263Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein S5R [auth Ae]204Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TFM5 (Oryctolagus cuniculus)
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S6S [auth Af]249Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TM55 (Oryctolagus cuniculus)
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S7T [auth Ag]432Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SVB0 (Oryctolagus cuniculus)
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Entity ID: 21
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S8U [auth Ah]208Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TJW1 (Oryctolagus cuniculus)
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Entity ID: 22
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein S9 (Predicted)V [auth Ai]194Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for B7NZS8 (Oryctolagus cuniculus)
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein eS10W [auth Aj]165Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TPV3 (Oryctolagus cuniculus)
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Entity ID: 24
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S11X [auth Ak]158Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TRM4 (Oryctolagus cuniculus)
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Entity ID: 25
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S12Y [auth Al]132Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SFR8 (Oryctolagus cuniculus)
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
uS15Z [auth Am]151Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SP51 (Oryctolagus cuniculus)
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Entity ID: 27
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein uS11AA [auth An]151Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1T1F0 (Oryctolagus cuniculus)
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Entity ID: 28
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein uS19BA [auth Ao]145Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1U0Q2 (Oryctolagus cuniculus)
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Entity ID: 29
MoleculeChains Sequence LengthOrganismDetailsImage
uS9CA [auth Ap]172Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SGX4 (Oryctolagus cuniculus)
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Entity ID: 30
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein eS17DA [auth Aq]135Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TU13 (Oryctolagus cuniculus)
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Entity ID: 31
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S18EA [auth Ar]152Oryctolagus cuniculusMutation(s): 0 
UniProt
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Entity ID: 32
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein eS19FA [auth As]145Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 33
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein uS10GA [auth At]119Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SIZ2 (Oryctolagus cuniculus)
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Entity ID: 34
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein eS21HA [auth Au]83Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 35
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein S15aIA [auth Av]130Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TG89 (Oryctolagus cuniculus)
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Entity ID: 36
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S23JA [auth Aw]143Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SZ47 (Oryctolagus cuniculus)
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Entity ID: 37
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S24KA [auth Ax]130Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1T3D8 (Oryctolagus cuniculus)
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S25LA [auth Ay]124Oryctolagus cuniculusMutation(s): 0 
UniProt
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
60s ribosomal protein l41MA [auth Az]25Oryctolagus cuniculusMutation(s): 0 
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Find proteins for A0A087WNH4 (Oryctolagus cuniculus)
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Entity ID: 43
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein uL2QA [auth BA]257Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L3RA [auth BB]403Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TL06 (Oryctolagus cuniculus)
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L4SA [auth BC]413Oryctolagus cuniculusMutation(s): 0 
UniProt
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Entity ID: 46
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal_L18_c domain-containing proteinTA [auth BD]297Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L6UA [auth BE]291Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SKF7 (Oryctolagus cuniculus)
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal Protein uL30VA [auth BF]247Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein eL8WA [auth BG]266Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L9XA [auth BH]192Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SWI6 (Oryctolagus cuniculus)
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L10YA [auth BI]214Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for B7NZQ2 (Oryctolagus cuniculus)
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L11ZA [auth BJ]178Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TUB8 (Oryctolagus cuniculus)
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
Replicase polyprotein 1abAB [auth BK]1,071Severe acute respiratory syndrome coronavirus 2Mutation(s): 0 
Gene Names: rep, 1a-1b
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Find proteins for P0DTD1 (Severe acute respiratory syndrome coronavirus 2)
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein eL13BB [auth BL]211Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L14CB [auth BM]218Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SZ12 (Oryctolagus cuniculus)
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L15DB [auth BN]204Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L13aEB [auth BO]203Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 58
MoleculeChains Sequence LengthOrganismDetailsImage
uL22FB [auth BP]184Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 59
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L18GB [auth BQ]188Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 60
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L19HB [auth BR]196Oryctolagus cuniculusMutation(s): 0 
UniProt
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Entity ID: 61
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L18aIB [auth BS]176Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 62
MoleculeChains Sequence LengthOrganismDetailsImage
eL21JB [auth BT]160Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1SHQ2 (Oryctolagus cuniculus)
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Entity ID: 63
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein eL22KB [auth BU]128Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 64
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L23LB [auth BV]140Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1T6D1 (Oryctolagus cuniculus)
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Entity ID: 65
MoleculeChains Sequence LengthOrganismDetailsImage
eL24MB [auth BW]157Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1SE28 (Oryctolagus cuniculus)
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Entity ID: 66
MoleculeChains Sequence LengthOrganismDetailsImage
uL23NB [auth BX]156Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1SE76 (Oryctolagus cuniculus)
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Entity ID: 67
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L26OB [auth BY]145Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SQH0 (Oryctolagus cuniculus)
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Entity ID: 68
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L27PB [auth BZ]136Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1TXF6 (Oryctolagus cuniculus)
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Entity ID: 69
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L27aQB [auth Ba]148Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1SNY0 (Oryctolagus cuniculus)
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Entity ID: 70
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L29RB [auth Bb]245Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 71
MoleculeChains Sequence LengthOrganismDetailsImage
eL30SB [auth Bc]115Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1TDL2 (Oryctolagus cuniculus)
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Entity ID: 72
MoleculeChains Sequence LengthOrganismDetailsImage
eL31TB [auth Bd]125Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 73
MoleculeChains Sequence LengthOrganismDetailsImage
eL32UB [auth Be]135Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 74
MoleculeChains Sequence LengthOrganismDetailsImage
eL33VB [auth Bf]110Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SF08 (Oryctolagus cuniculus)
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Entity ID: 75
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L34WB [auth Bg]117Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1TXG5 (Oryctolagus cuniculus)
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Entity ID: 76
MoleculeChains Sequence LengthOrganismDetailsImage
uL29XB [auth Bh]123Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 77
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L36YB [auth Bi]105Oryctolagus cuniculusMutation(s): 0 
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Find proteins for G1TTQ5 (Oryctolagus cuniculus)
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Entity ID: 78
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L37ZB [auth Bj]97Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for U3KPD5 (Oryctolagus cuniculus)
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Entity ID: 79
MoleculeChains Sequence LengthOrganismDetailsImage
eL38AC [auth Bk]70Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1U001 (Oryctolagus cuniculus)
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Entity ID: 80
MoleculeChains Sequence LengthOrganismDetailsImage
eL39BC [auth Bl]51Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 81
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L40CC [auth Bm]128Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 82
MoleculeChains Sequence LengthOrganismDetailsImage
eL42DC [auth Bo]106Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 83
MoleculeChains Sequence LengthOrganismDetailsImage
eL43EC [auth Bp]92Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SY53 (Oryctolagus cuniculus)
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Entity ID: 84
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein eL28FC [auth Br]137Oryctolagus cuniculusMutation(s): 0 
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Entity ID: 85
MoleculeChains Sequence LengthOrganismDetailsImage
60S acidic ribosomal protein P0GC [auth Bs]318Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SPK4 (Oryctolagus cuniculus)
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Entity ID: 86
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein L12HC [auth Bt]165Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SMR7 (Oryctolagus cuniculus)
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Entity ID: 87
MoleculeChains Sequence LengthOrganismDetailsImage
Ribosomal protein uL1IC [auth Bv]217Oryctolagus cuniculusMutation(s): 0 
UniProt
Find proteins for G1SKZ8 (Oryctolagus cuniculus)
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Entity ID: 1
MoleculeChains LengthOrganismImage
18S rRNAA [auth A2]1,870Oryctolagus cuniculus
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Entity ID: 9
MoleculeChains LengthOrganismImage
mRNA containing SARS-CoV-2 sequenceI [auth AH]217Severe acute respiratory syndrome coronavirus 2
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Entity ID: 10
MoleculeChains LengthOrganismImage
A-site Met-tRNA(Met)J [auth AJ]76Bos taurus
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Entity ID: 11
MoleculeChains LengthOrganismImage
P-site tRNA(Pro)K [auth AT]75Bos taurus
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Entity ID: 40
MoleculeChains LengthOrganismImage
28S rRNANA [auth B5]4,808Oryctolagus cuniculus
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Entity ID: 41
MoleculeChains LengthOrganismImage
5S rRNAOA [auth B7]120Oryctolagus cuniculus
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Entity ID: 42
MoleculeChains LengthOrganismImage
5.8S rRNAPA [auth B8]158Oryctolagus cuniculus
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Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
SPD
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EI [auth B5]SPERMIDINE
C7 H19 N3
ATHGHQPFGPMSJY-UHFFFAOYSA-N
ZN
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AI [auth AE]
BI [auth AG]
DAA [auth Bg]
FAA [auth Bj]
GAA [auth Bm]
AI [auth AE],
BI [auth AG],
DAA [auth Bg],
FAA [auth Bj],
GAA [auth Bm],
HAA [auth Bo],
IAA [auth Bp],
ZH [auth AC]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
MG
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AAA [auth Ba]
AD [auth A2]
AE [auth A2]
AF [auth A2]
AJ [auth B5]
AAA [auth Ba],
AD [auth A2],
AE [auth A2],
AF [auth A2],
AJ [auth B5],
AK [auth B5],
AL [auth B5],
AM [auth B5],
AN [auth B5],
AO [auth B5],
AP [auth B5],
AQ [auth B5],
AR [auth B5],
BD [auth A2],
BE [auth A2],
BF [auth A2],
BJ [auth B5],
BK [auth B5],
BL [auth B5],
BM [auth B5],
BN [auth B5],
BO [auth B5],
BP [auth B5],
BQ [auth B5],
BR [auth B5],
BZ [auth B8],
CD [auth A2],
CE [auth A2],
CF [auth A2],
CJ [auth B5],
CK [auth B5],
CL [auth B5],
CM [auth B5],
CN [auth B5],
CO [auth B5],
CP [auth B5],
CQ [auth B5],
CR [auth B5],
CZ [auth B8],
DD [auth A2],
DE [auth A2],
DF [auth A2],
DJ [auth B5],
DK [auth B5],
DL [auth B5],
DM [auth B5],
DN [auth B5],
DO [auth B5],
DP [auth B5],
DQ [auth B5],
DR [auth B5],
DZ [auth B8],
ED [auth A2],
EE [auth A2],
EF [auth A2],
EJ [auth B5],
EK [auth B5],
EL [auth B5],
EM [auth B5],
EN [auth B5],
EO [auth B5],
EP [auth B5],
EQ [auth B5],
ER [auth B5],
EZ [auth B8],
FD [auth A2],
FE [auth A2],
FF [auth A2],
FI [auth B5],
FJ [auth B5],
FK [auth B5],
FL [auth B5],
FM [auth B5],
FN [auth B5],
FO [auth B5],
FP [auth B5],
FQ [auth B5],
FR [auth B5],
FZ [auth B8],
GD [auth A2],
GE [auth A2],
GF [auth A2],
GI [auth B5],
GJ [auth B5],
GK [auth B5],
GL [auth B5],
GM [auth B5],
GN [auth B5],
GO [auth B5],
GP [auth B5],
GQ [auth B5],
GR [auth B5],
HD [auth A2],
HE [auth A2],
HF [auth A2],
HI [auth B5],
HJ [auth B5],
HK [auth B5],
HL [auth B5],
HM [auth B5],
HN [auth B5],
HO [auth B5],
HP [auth B5],
HQ [auth B5],
HR [auth B5],
ID [auth A2],
IE [auth A2],
IF [auth A2],
II [auth B5],
IJ [auth B5],
IK [auth B5],
IL [auth B5],
IM [auth B5],
IN [auth B5],
IO [auth B5],
IP [auth B5],
IQ [auth B5],
IR [auth B5],
JC [auth A2],
JD [auth A2],
JE [auth A2],
JF [auth A2],
JI [auth B5],
JJ [auth B5],
JK [auth B5],
JL [auth B5],
JM [auth B5],
JN [auth B5],
JO [auth B5],
JP [auth B5],
JQ [auth B5],
JR [auth B5],
KC [auth A2],
KD [auth A2],
KE [auth A2],
KF [auth A2],
KI [auth B5],
KJ [auth B5],
KK [auth B5],
KL [auth B5],
KM [auth B5],
KN [auth B5],
KO [auth B5],
KP [auth B5],
KQ [auth B5],
KR [auth B5],
LC [auth A2],
LD [auth A2],
LE [auth A2],
LF [auth A2],
LI [auth B5],
LJ [auth B5],
LK [auth B5],
LL [auth B5],
LM [auth B5],
LN [auth B5],
LO [auth B5],
LP [auth B5],
LQ [auth B5],
LR [auth B5],
MC [auth A2],
MD [auth A2],
ME [auth A2],
MF [auth A2],
MI [auth B5],
MJ [auth B5],
MK [auth B5],
ML [auth B5],
MM [auth B5],
MN [auth B5],
MO [auth B5],
MP [auth B5],
MQ [auth B5],
MR [auth B5],
NC [auth A2],
ND [auth A2],
NE [auth A2],
NF [auth A2],
NI [auth B5],
NJ [auth B5],
NK [auth B5],
NL [auth B5],
NM [auth B5],
NN [auth B5],
NO [auth B5],
NP [auth B5],
NQ [auth B5],
NR [auth B5],
OC [auth A2],
OD [auth A2],
OE [auth A2],
OF [auth A2],
OI [auth B5],
OJ [auth B5],
OK [auth B5],
OL [auth B5],
OM [auth B5],
ON [auth B5],
OO [auth B5],
OP [auth B5],
OQ [auth B5],
OR [auth B5],
OY [auth B7],
PC [auth A2],
PD [auth A2],
PE [auth A2],
PI [auth B5],
PJ [auth B5],
PK [auth B5],
PL [auth B5],
PM [auth B5],
PN [auth B5],
PO [auth B5],
PP [auth B5],
PQ [auth B5],
PR [auth B5],
PY [auth B7],
QC [auth A2],
QD [auth A2],
QE [auth A2],
QI [auth B5],
QJ [auth B5],
QK [auth B5],
QL [auth B5],
QM [auth B5],
QN [auth B5],
QO [auth B5],
QP [auth B5],
QQ [auth B5],
QR [auth B5],
QY [auth B7],
RC [auth A2],
RD [auth A2],
RE [auth A2],
RI [auth B5],
RJ [auth B5],
RK [auth B5],
RL [auth B5],
RM [auth B5],
RN [auth B5],
RO [auth B5],
RP [auth B5],
RQ [auth B5],
RR [auth B5],
RY [auth B7],
SC [auth A2],
SD [auth A2],
SE [auth A2],
SI [auth B5],
SJ [auth B5],
SK [auth B5],
SL [auth B5],
SM [auth B5],
SN [auth B5],
SO [auth B5],
SP [auth B5],
SQ [auth B5],
SR [auth B5],
SY [auth B7],
TC [auth A2],
TD [auth A2],
TE [auth A2],
TI [auth B5],
TJ [auth B5],
TK [auth B5],
TL [auth B5],
TM [auth B5],
TN [auth B5],
TO [auth B5],
TP [auth B5],
TQ [auth B5],
TR [auth B5],
TY [auth B7],
UC [auth A2],
UD [auth A2],
UE [auth A2],
UI [auth B5],
UJ [auth B5],
UK [auth B5],
UL [auth B5],
UM [auth B5],
UN [auth B5],
UO [auth B5],
UP [auth B5],
UQ [auth B5],
UR [auth B5],
UY [auth B7],
VC [auth A2],
VD [auth A2],
VE [auth A2],
VI [auth B5],
VJ [auth B5],
VK [auth B5],
VL [auth B5],
VM [auth B5],
VN [auth B5],
VO [auth B5],
VP [auth B5],
VQ [auth B5],
WC [auth A2],
WD [auth A2],
WE [auth A2],
WI [auth B5],
WJ [auth B5],
WK [auth B5],
WL [auth B5],
WM [auth B5],
WN [auth B5],
WO [auth B5],
WP [auth B5],
WQ [auth B5],
WZ [auth BP],
XC [auth A2],
XD [auth A2],
XE [auth A2],
XI [auth B5],
XJ [auth B5],
XK [auth B5],
XL [auth B5],
XM [auth B5],
XN [auth B5],
XO [auth B5],
XP [auth B5],
XQ [auth B5],
YC [auth A2],
YD [auth A2],
YE [auth A2],
YI [auth B5],
YJ [auth B5],
YK [auth B5],
YL [auth B5],
YM [auth B5],
YN [auth B5],
YO [auth B5],
YP [auth B5],
YQ [auth B5],
ZC [auth A2],
ZD [auth A2],
ZE [auth A2],
ZI [auth B5],
ZJ [auth B5],
ZK [auth B5],
ZL [auth B5],
ZM [auth B5],
ZN [auth B5],
ZO [auth B5],
ZP [auth B5],
ZQ [auth B5],
ZZ [auth BV]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
UNX
Query on UNX
Download Ideal Coordinates CCD File 
AG [auth A2]
AH [auth A2]
AS [auth B5]
AT [auth B5]
AU [auth B5]
AG [auth A2],
AH [auth A2],
AS [auth B5],
AT [auth B5],
AU [auth B5],
AV [auth B5],
AW [auth B5],
AX [auth B5],
AY [auth B5],
AZ [auth B7],
BAA [auth Be],
BG [auth A2],
BH [auth A2],
BS [auth B5],
BT [auth B5],
BU [auth B5],
BV [auth B5],
BW [auth B5],
BX [auth B5],
BY [auth B5],
CAA [auth Bf],
CG [auth A2],
CH [auth A2],
CI [auth AT],
CS [auth B5],
CT [auth B5],
CU [auth B5],
CV [auth B5],
CW [auth B5],
CX [auth B5],
CY [auth B5],
DG [auth A2],
DH [auth A2],
DI [auth An],
DS [auth B5],
DT [auth B5],
DU [auth B5],
DV [auth B5],
DW [auth B5],
DX [auth B5],
DY [auth B5],
EAA [auth Bg],
EG [auth A2],
EH [auth A2],
ES [auth B5],
ET [auth B5],
EU [auth B5],
EV [auth B5],
EW [auth B5],
EX [auth B5],
EY [auth B5],
FG [auth A2],
FH [auth A2],
FS [auth B5],
FT [auth B5],
FU [auth B5],
FV [auth B5],
FW [auth B5],
FX [auth B5],
FY [auth B5],
GG [auth A2],
GH [auth A2],
GS [auth B5],
GT [auth B5],
GU [auth B5],
GV [auth B5],
GW [auth B5],
GX [auth B5],
GY [auth B5],
GZ [auth B8],
HG [auth A2],
HH [auth A2],
HS [auth B5],
HT [auth B5],
HU [auth B5],
HV [auth B5],
HW [auth B5],
HX [auth B5],
HY [auth B5],
HZ [auth B8],
IG [auth A2],
IH [auth A2],
IS [auth B5],
IT [auth B5],
IU [auth B5],
IV [auth B5],
IW [auth B5],
IX [auth B5],
IY [auth B5],
IZ [auth B8],
JG [auth A2],
JH [auth A2],
JS [auth B5],
JT [auth B5],
JU [auth B5],
JV [auth B5],
JW [auth B5],
JX [auth B5],
JY [auth B5],
JZ [auth B8],
KG [auth A2],
KH [auth A2],
KS [auth B5],
KT [auth B5],
KU [auth B5],
KV [auth B5],
KW [auth B5],
KX [auth B5],
KY [auth B5],
KZ [auth BA],
LG [auth A2],
LH [auth A2],
LS [auth B5],
LT [auth B5],
LU [auth B5],
LV [auth B5],
LW [auth B5],
LX [auth B5],
LY [auth B5],
LZ [auth BA],
MG [auth A2],
MH [auth A2],
MS [auth B5],
MT [auth B5],
MU [auth B5],
MV [auth B5],
MW [auth B5],
MX [auth B5],
MY [auth B5],
MZ [auth BA],
NG [auth A2],
NH [auth A2],
NS [auth B5],
NT [auth B5],
NU [auth B5],
NV [auth B5],
NW [auth B5],
NX [auth B5],
NY [auth B5],
NZ [auth BA],
OG [auth A2],
OH [auth A2],
OS [auth B5],
OT [auth B5],
OU [auth B5],
OV [auth B5],
OW [auth B5],
OX [auth B5],
OZ [auth BB],
PF [auth A2],
PG [auth A2],
PH [auth A2],
PS [auth B5],
PT [auth B5],
PU [auth B5],
PV [auth B5],
PW [auth B5],
PX [auth B5],
PZ [auth BH],
QF [auth A2],
QG [auth A2],
QH [auth A2],
QS [auth B5],
QT [auth B5],
QU [auth B5],
QV [auth B5],
QW [auth B5],
QX [auth B5],
QZ [auth BI],
RF [auth A2],
RG [auth A2],
RH [auth A2],
RS [auth B5],
RT [auth B5],
RU [auth B5],
RV [auth B5],
RW [auth B5],
RX [auth B5],
RZ [auth BL],
SF [auth A2],
SG [auth A2],
SH [auth A2],
SS [auth B5],
ST [auth B5],
SU [auth B5],
SV [auth B5],
SW [auth B5],
SX [auth B5],
SZ [auth BN],
TF [auth A2],
TG [auth A2],
TH [auth A2],
TS [auth B5],
TT [auth B5],
TU [auth B5],
TV [auth B5],
TW [auth B5],
TX [auth B5],
TZ [auth BN],
UF [auth A2],
UG [auth A2],
UH [auth A2],
US [auth B5],
UT [auth B5],
UU [auth B5],
UV [auth B5],
UW [auth B5],
UX [auth B5],
UZ [auth BN],
VF [auth A2],
VG [auth A2],
VH [auth A2],
VR [auth B5],
VS [auth B5],
VT [auth B5],
VU [auth B5],
VV [auth B5],
VW [auth B5],
VX [auth B5],
VY [auth B7],
VZ [auth BO],
WF [auth A2],
WG [auth A2],
WH [auth A2],
WR [auth B5],
WS [auth B5],
WT [auth B5],
WU [auth B5],
WV [auth B5],
WW [auth B5],
WX [auth B5],
WY [auth B7],
XF [auth A2],
XG [auth A2],
XH [auth A2],
XR [auth B5],
XS [auth B5],
XT [auth B5],
XU [auth B5],
XV [auth B5],
XW [auth B5],
XX [auth B5],
XY [auth B7],
XZ [auth BT],
YF [auth A2],
YG [auth A2],
YH [auth A2],
YR [auth B5],
YS [auth B5],
YT [auth B5],
YU [auth B5],
YV [auth B5],
YW [auth B5],
YX [auth B5],
YY [auth B7],
YZ [auth BT],
ZF [auth A2],
ZG [auth A2],
ZR [auth B5],
ZS [auth B5],
ZT [auth B5],
ZU [auth B5],
ZV [auth B5],
ZW [auth B5],
ZX [auth B5],
ZY [auth B7]
UNKNOWN ATOM OR ION
X
Modified Residues  8 Unique
IDChains TypeFormula2D DiagramParent
SAC
Query on SAC		M [auth AZ]L-PEPTIDE LINKINGC5 H9 N O4SER
NMM
Query on NMM		FA [auth As]L-PEPTIDE LINKINGC7 H16 N4 O2ARG
HY3
Query on HY3		JA [auth Aw]L-PEPTIDE LINKINGC5 H9 N O3PRO
V5N
Query on V5N		QA [auth BA]L-PEPTIDE LINKINGC6 H9 N3 O3HIS
HIC
Query on HIC		RA [auth BB]L-PEPTIDE LINKINGC7 H11 N3 O2HIS
AYA
Query on AYA		SA [auth BC]L-PEPTIDE LINKINGC5 H9 N O3ALA
MLZ
Query on MLZ		RB [auth Bb]L-PEPTIDE LINKINGC7 H16 N2 O2LYS
M3L
Query on M3L		CC [auth Bm]L-PEPTIDE LINKINGC9 H21 N2 O2LYS
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC2

Structure Validation

View Full Validation Report



View more in-depth experimental data
Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Swiss National Science FoundationSwitzerland31003A_182341
Irish Research CouncilIrelandIRCLA/2019/74

Revision History  (Full details and data files)

  • Version 1.0: 2021-06-02
    Type: Initial release
  • Version 1.1: 2021-06-30
    Changes: Database references, Structure summary
  • Version 1.2: 2021-07-21
    Changes: Data collection, Derived calculations, Structure summary
  • Version 2.0: 2021-09-01
    Changes: Advisory, Atomic model, Database references, Derived calculations, Polymer sequence, Source and taxonomy, Structure summary
  • Version 3.0: 2023-11-15
    Changes: Atomic model, Data collection, Derived calculations
  • Version 3.1: 2024-04-24
    Changes: Data collection