8QOI

Structure of the human 80S ribosome at 1.9 A resolution - the molecular role of chemical modifications and ions in RNA

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 1.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 

Re-refinement Note

This entry reflects an alternative modeling of the original data in: 6QZP


Literature

The structure of the human 80S ribosome at 1.9 angstrom resolution reveals the molecular role of chemical modifications and ions in RNA.

Holvec, S., Barchet, C., Lechner, A., Frechin, L., De Silva, S.N.T., Hazemann, I., Wolff, P., von Loeffelholz, O., Klaholz, B.P.

(2024) Nat Struct Mol Biol 31: 1251-1264

  • DOI: https://doi.org/10.1038/s41594-024-01274-x
  • Primary Citation of Related Structures:  
    8QOI

  • PubMed Abstract: 

    The ribosomal RNA of the human protein synthesis machinery comprises numerous chemical modifications that are introduced during ribosome biogenesis. Here we present the 1.9 Å resolution cryo electron microscopy structure of the 80S human ribosome resolving numerous new ribosomal RNA modifications and functionally important ions such as Zn 2+ , K + and Mg 2+ , including their associated individual water molecules. The 2'-O-methylation, pseudo-uridine and base modifications were confirmed by mass spectrometry, resulting in a complete investigation of the >230 sites, many of which could not be addressed previously. They choreograph key interactions within the RNA and at the interface with proteins, including at the ribosomal subunit interfaces of the fully assembled 80S ribosome. Uridine isomerization turns out to be a key mechanism for U-A base pair stabilization in RNA in general. The structural environment of chemical modifications and ions is primordial for the RNA architecture of the mature human ribosome, hence providing a structural framework to address their role in healthy states and in human diseases.

    • Organizational Affiliation: 

    Centre for Integrative Biology, Department of Integrated Structural Biology, Institute of Genetics and of Molecular and Cellular Biology, Illkirch, France.


Macromolecules

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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L8D [auth LA]257Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000161016 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Large ribosomal subunit protein uL3E [auth LB]402Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000100316 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Large ribosomal subunit protein uL4F [auth LC]368Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000174444 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Large ribosomal subunit protein uL18G [auth LD]293Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000122406 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Large ribosomal subunit protein eL6H [auth LE]247Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000089009 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Large ribosomal subunit protein uL30I [auth LF]248Homo sapiensMutation(s): 0 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L7aJ [auth LG]266Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000148303 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L9K [auth LH]192Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000163682 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L10-likeL [auth LI]214Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000165496 
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L11M [auth LJ]178Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000142676 
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L13N [auth LL]211Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000167526 
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L14O [auth LM]215Homo sapiensMutation(s): 0 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L15P [auth LN]204Homo sapiensMutation(s): 0 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L13aQ [auth LO]203Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000142541 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L17R [auth LP]184Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000265681 
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Entity ID: 19
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L18S [auth LQ]188Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000063177 
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Entity ID: 20
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L19T [auth LR]196Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000108298 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L18aU [auth LS]176Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000105640 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L21V [auth LT]160Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000122026 
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Entity ID: 23
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L22W [auth LU]128Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000116251 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L23X [auth LV]140Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000125691 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L24Y [auth LW]157Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000114391 
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Entity ID: 26
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L23aZ [auth LX]156Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000198242 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L26AA [auth LY]145Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000161970 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L27BA [auth LZ]136Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000131469 
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MoleculeChains Sequence LengthOrganismDetailsImage
Large ribosomal subunit protein uL15CA [auth La]148Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000166441 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L29DA [auth Lb]159Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000162244 
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60S ribosomal protein L30EA [auth Lc]115Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000156482 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L31FA [auth Ld]125Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000071082 
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60S ribosomal protein L32GA [auth Le]135Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000144713 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L35aHA [auth Lf]110Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000182899 
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60S ribosomal protein L34IA [auth Lg]117Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000109475 
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60S ribosomal protein L35JA [auth Lh]123Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000136942 
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60S ribosomal protein L36KA [auth Li]105Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000130255 
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Entity ID: 38
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L37LA [auth Lj]97Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000145592 
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Entity ID: 39
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L38MA [auth Lk]70Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000172809 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L39NA [auth Ll]51Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000198918 
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Entity ID: 41
MoleculeChains Sequence LengthOrganismDetailsImage
Ubiquitin-60S ribosomal protein L40OA [auth Lm]128Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000221983 
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Entity ID: 42
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L41PA [auth Ln]25Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000229117 
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MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L36aQA [auth Lo]106Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000241343 
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Entity ID: 44
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L37aRA [auth Lp]92Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000197756 
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Entity ID: 45
MoleculeChains Sequence LengthOrganismDetailsImage
60S ribosomal protein L28SA [auth Lr]137Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000108107 
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Entity ID: 47
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S4, X isoformUA [auth SE]263Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000198034 
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Entity ID: 48
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein SAVA [auth SA]295Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000168028 
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Entity ID: 49
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S3aWA [auth SB]264Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000145425 
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Entity ID: 50
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S3XA [auth SD]243Homo sapiensMutation(s): 0 
EC: 4.2.99.18
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GTEx:  ENSG00000149273 
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Entity ID: 51
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S5YA [auth SF]204Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000083845 
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Entity ID: 52
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S7ZA [auth SH]194Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000171863 
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Entity ID: 53
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S8AB [auth SI]208Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000142937 
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Entity ID: 54
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S10BB [auth SK]165Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000124614 
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Entity ID: 55
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S11CB [auth SL]158Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000142534 
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Entity ID: 56
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S15DB [auth SP]145Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000115268 
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Entity ID: 57
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S16EB [auth SQ]146Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000105193 
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Entity ID: 58
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S18FB [auth SS]152Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000231500 
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Entity ID: 59
MoleculeChains Sequence LengthOrganismDetailsImage
Small ribosomal subunit protein eS19GB [auth ST]145Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000105372 
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Entity ID: 60
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S20HB [auth SU]119Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000008988 
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Entity ID: 61
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S21IB [auth SV]83Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000171858 
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Entity ID: 62
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S23JB [auth SX]143Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000186468 
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Entity ID: 63
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S26KB [auth Sa]115Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000197728 
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Entity ID: 64
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S28LB [auth Sc]69Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000233927 
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Entity ID: 65
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S29MB [auth Sd]56Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000213741 
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Entity ID: 66
MoleculeChains Sequence LengthOrganismDetailsImage
Receptor of activated protein C kinase 1NB [auth Sg]317Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000204628 
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Entity ID: 67
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S2OB [auth SC]293Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000140988 
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Entity ID: 68
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S6PB [auth SG]249Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000137154 
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Entity ID: 69
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S9QB [auth SJ]194Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000170889 
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Entity ID: 70
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S12RB [auth SM]132Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000112306 
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Entity ID: 71
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S13SB [auth SN]151Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000110700 
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Entity ID: 72
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S14TB [auth SO]151Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000164587 
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Entity ID: 73
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S15aUB [auth SW]130Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000134419 
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Entity ID: 74
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S24VB [auth SY]133Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000138326 
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Entity ID: 75
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S25WB [auth SZ]125Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000118181 
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Entity ID: 76
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S27XB [auth Sb]84Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000177954 
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Entity ID: 77
MoleculeChains Sequence LengthOrganismDetailsImage
Ubiquitin-like FUBI-ribosomal protein eS30 fusion proteinYB [auth Se]133Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000149806 
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Entity ID: 78
MoleculeChains Sequence LengthOrganismDetailsImage
Ubiquitin-40S ribosomal protein S27aZB [auth Sf]156Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000143947 
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Entity ID: 79
MoleculeChains Sequence LengthOrganismDetailsImage
40S ribosomal protein S17AC [auth SR]135Homo sapiensMutation(s): 0 
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GTEx:  ENSG00000182774 
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Entity ID: 1
MoleculeChains LengthOrganismImage
28S rRNA (3773-MER)A [auth L5]5,069Homo sapiens
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Entity ID: 2
MoleculeChains LengthOrganismImage
5S rRNA (120-MER)B [auth L7]120Homo sapiens
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Entity ID: 3
MoleculeChains LengthOrganismImage
5.8S rRNA (156-MER)C [auth L8]157Homo sapiens
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Entity ID: 46
MoleculeChains LengthOrganismImage
18S rRNA (1740-MER)TA [auth S2]1,869Homo sapiens
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Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
SPD
Query on SPD
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RM [auth L5],
SM [auth L5]		SPERMIDINE
C7 H19 N3
ATHGHQPFGPMSJY-UHFFFAOYSA-N
ZN (Subject of Investigation/LOI)
Query on ZN
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JN [auth Lg]
KN [auth Lj]
LN [auth Lm]
MN [auth Lo]
ON [auth Lp]
JN [auth Lg],
KN [auth Lj],
LN [auth Lm],
MN [auth Lo],
ON [auth Lp],
QR [auth Sa],
RR [auth Sd],
UR [auth Sf]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
K (Subject of Investigation/LOI)
Query on K
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AK [auth L5]
AL [auth L5]
AM [auth L5]
AN [auth LA]
AR [auth S2]
AK [auth L5],
AL [auth L5],
AM [auth L5],
AN [auth LA],
AR [auth S2],
BK [auth L5],
BL [auth L5],
BM [auth L5],
BN [auth LB],
BR [auth S2],
CK [auth L5],
CL [auth L5],
CM [auth L5],
CR [auth S2],
DK [auth L5],
DL [auth L5],
DM [auth L5],
DN [auth LI],
DR [auth S2],
EK [auth L5],
EL [auth L5],
EM [auth L5],
ER [auth S2],
FK [auth L5],
FL [auth L5],
FM [auth L5],
FR [auth S2],
GK [auth L5],
GL [auth L5],
GM [auth L5],
GR [auth S2],
HK [auth L5],
HL [auth L5],
HM [auth L5],
HN [auth Le],
HR [auth S2],
IK [auth L5],
IL [auth L5],
IM [auth L5],
IN [auth Lf],
IR [auth S2],
JK [auth L5],
JL [auth L5],
JM [auth L5],
JR [auth S2],
KK [auth L5],
KL [auth L5],
KM [auth L5],
KR [auth S2],
LK [auth L5],
LL [auth L5],
LM [auth L5],
LR [auth S2],
MK [auth L5],
ML [auth L5],
MM [auth L5],
MR [auth S2],
NK [auth L5],
NL [auth L5],
NM [auth L5],
NN [auth Lo],
NR [auth S2],
OK [auth L5],
OL [auth L5],
OM [auth L5],
OR [auth S2],
PK [auth L5],
PL [auth L5],
PM [auth L5],
PR [auth S2],
QK [auth L5],
QL [auth L5],
QM [auth L5],
RJ [auth L5],
RK [auth L5],
RL [auth L5],
SJ [auth L5],
SK [auth L5],
SL [auth L5],
SR [auth Sd],
TJ [auth L5],
TK [auth L5],
TL [auth L5],
TR [auth SO],
UJ [auth L5],
UK [auth L5],
UL [auth L5],
VJ [auth L5],
VK [auth L5],
VL [auth L5],
VM [auth L7],
VQ [auth S2],
WJ [auth L5],
WK [auth L5],
WL [auth L5],
WQ [auth S2],
XJ [auth L5],
XK [auth L5],
XL [auth L5],
XQ [auth S2],
YJ [auth L5],
YK [auth L5],
YL [auth L5],
YQ [auth S2],
ZJ [auth L5],
ZK [auth L5],
ZL [auth L5],
ZQ [auth S2]
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
MG
Query on MG
Download Ideal Coordinates CCD File 
AD [auth L5]
AE [auth L5]
AF [auth L5]
AG [auth L5]
AH [auth L5]
AD [auth L5],
AE [auth L5],
AF [auth L5],
AG [auth L5],
AH [auth L5],
AI [auth L5],
AJ [auth L5],
AO [auth S2],
AP [auth S2],
AQ [auth S2],
BC [auth L5],
BD [auth L5],
BE [auth L5],
BF [auth L5],
BG [auth L5],
BH [auth L5],
BI [auth L5],
BJ [auth L5],
BO [auth S2],
BP [auth S2],
BQ [auth S2],
CC [auth L5],
CD [auth L5],
CE [auth L5],
CF [auth L5],
CG [auth L5],
CH [auth L5],
CI [auth L5],
CJ [auth L5],
CN [auth LI],
CO [auth S2],
CP [auth S2],
CQ [auth S2],
DC [auth L5],
DD [auth L5],
DE [auth L5],
DF [auth L5],
DG [auth L5],
DH [auth L5],
DI [auth L5],
DJ [auth L5],
DO [auth S2],
DP [auth S2],
DQ [auth S2],
EC [auth L5],
ED [auth L5],
EE [auth L5],
EF [auth L5],
EG [auth L5],
EH [auth L5],
EI [auth L5],
EJ [auth L5],
EN [auth LN],
EO [auth S2],
EP [auth S2],
EQ [auth S2],
FC [auth L5],
FD [auth L5],
FE [auth L5],
FF [auth L5],
FG [auth L5],
FH [auth L5],
FI [auth L5],
FJ [auth L5],
FN [auth LP],
FO [auth S2],
FP [auth S2],
FQ [auth S2],
GC [auth L5],
GD [auth L5],
GE [auth L5],
GF [auth L5],
GG [auth L5],
GH [auth L5],
GI [auth L5],
GJ [auth L5],
GN [auth LV],
GO [auth S2],
GP [auth S2],
GQ [auth S2],
HC [auth L5],
HD [auth L5],
HE [auth L5],
HF [auth L5],
HG [auth L5],
HH [auth L5],
HI [auth L5],
HJ [auth L5],
HO [auth S2],
HP [auth S2],
HQ [auth S2],
IC [auth L5],
ID [auth L5],
IE [auth L5],
IF [auth L5],
IG [auth L5],
IH [auth L5],
II [auth L5],
IJ [auth L5],
IO [auth S2],
IP [auth S2],
IQ [auth S2],
JC [auth L5],
JD [auth L5],
JE [auth L5],
JF [auth L5],
JG [auth L5],
JH [auth L5],
JI [auth L5],
JJ [auth L5],
JO [auth S2],
JP [auth S2],
JQ [auth S2],
KC [auth L5],
KD [auth L5],
KE [auth L5],
KF [auth L5],
KG [auth L5],
KH [auth L5],
KI [auth L5],
KJ [auth L5],
KO [auth S2],
KP [auth S2],
KQ [auth S2],
LC [auth L5],
LD [auth L5],
LE [auth L5],
LF [auth L5],
LG [auth L5],
LH [auth L5],
LI [auth L5],
LJ [auth L5],
LO [auth S2],
LP [auth S2],
LQ [auth S2],
MC [auth L5],
MD [auth L5],
ME [auth L5],
MF [auth L5],
MG [auth L5],
MH [auth L5],
MI [auth L5],
MJ [auth L5],
MO [auth S2],
MP [auth S2],
MQ [auth S2],
NC [auth L5],
ND [auth L5],
NE [auth L5],
NF [auth L5],
NG [auth L5],
NH [auth L5],
NI [auth L5],
NJ [auth L5],
NO [auth S2],
NP [auth S2],
NQ [auth S2],
OC [auth L5],
OD [auth L5],
OE [auth L5],
OF [auth L5],
OG [auth L5],
OH [auth L5],
OI [auth L5],
OJ [auth L5],
OO [auth S2],
OP [auth S2],
OQ [auth S2],
PC [auth L5],
PD [auth L5],
PE [auth L5],
PF [auth L5],
PG [auth L5],
PH [auth L5],
PI [auth L5],
PJ [auth L5],
PN [auth S2],
PO [auth S2],
PP [auth S2],
PQ [auth S2],
QC [auth L5],
QD [auth L5],
QE [auth L5],
QF [auth L5],
QG [auth L5],
QH [auth L5],
QI [auth L5],
QJ [auth L5],
QN [auth S2],
QO [auth S2],
QP [auth S2],
QQ [auth S2],
RC [auth L5],
RD [auth L5],
RE [auth L5],
RF [auth L5],
RG [auth L5],
RH [auth L5],
RI [auth L5],
RN [auth S2],
RO [auth S2],
RP [auth S2],
RQ [auth S2],
SC [auth L5],
SD [auth L5],
SE [auth L5],
SF [auth L5],
SG [auth L5],
SH [auth L5],
SI [auth L5],
SN [auth S2],
SO [auth S2],
SP [auth S2],
SQ [auth S2],
TC [auth L5],
TD [auth L5],
TE [auth L5],
TF [auth L5],
TG [auth L5],
TH [auth L5],
TI [auth L5],
TM [auth L7],
TN [auth S2],
TO [auth S2],
TP [auth S2],
TQ [auth S2],
UC [auth L5],
UD [auth L5],
UE [auth L5],
UF [auth L5],
UG [auth L5],
UH [auth L5],
UI [auth L5],
UM [auth L7],
UN [auth S2],
UO [auth S2],
UP [auth S2],
UQ [auth S2],
VC [auth L5],
VD [auth L5],
VE [auth L5],
VF [auth L5],
VG [auth L5],
VH [auth L5],
VI [auth L5],
VN [auth S2],
VO [auth S2],
VP [auth S2],
WC [auth L5],
WD [auth L5],
WE [auth L5],
WF [auth L5],
WG [auth L5],
WH [auth L5],
WI [auth L5],
WM [auth L8],
WN [auth S2],
WO [auth S2],
WP [auth S2],
XC [auth L5],
XD [auth L5],
XE [auth L5],
XF [auth L5],
XG [auth L5],
XH [auth L5],
XI [auth L5],
XM [auth L8],
XN [auth S2],
XO [auth S2],
XP [auth S2],
YC [auth L5],
YD [auth L5],
YE [auth L5],
YF [auth L5],
YG [auth L5],
YH [auth L5],
YI [auth L5],
YM [auth L8],
YN [auth S2],
YO [auth S2],
YP [auth S2],
ZC [auth L5],
ZD [auth L5],
ZE [auth L5],
ZF [auth L5],
ZG [auth L5],
ZH [auth L5],
ZI [auth L5],
ZM [auth L8],
ZN [auth S2],
ZO [auth S2],
ZP [auth S2]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Modified Residues  3 Unique
IDChains TypeFormula2D DiagramParent
HIC
Query on HIC		E [auth LB]L-PEPTIDE LINKINGC7 H11 N3 O2HIS
V5N
Query on V5N		CA [auth La]L-PEPTIDE LINKINGC6 H9 N3 O3HIS
NMM
Query on NMM		GB [auth ST]L-PEPTIDE LINKINGC7 H16 N4 O2ARG
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 1.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21

Structure Validation

View Full Validation Report



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

Deposition Data

Funding OrganizationLocationGrant Number
Fondation ARCFrance--
Agence Nationale de la Recherche (ANR)France--
Fondation pour la Recherche Medicale (FRM)France--
La ligue contre le cancerFrance--

Revision History  (Full details and data files)

  • Version 1.0: 2024-06-12
    Type: Initial release
  • Version 1.1: 2024-06-19
    Changes: Database references
  • Version 1.2: 2024-08-28
    Changes: Data collection, Database references