6J2D

Crystal structure of bat (Pteropus Alecto) MHC class I Ptal-N*01:01 in complex with Hendra virus-derived peptide HeV1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.31 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.224 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Peptide presentation by bat MHC class I provides new insight into the antiviral immunity of bats.

Lu, D.Liu, K.Zhang, D.Yue, C.Lu, Q.Cheng, H.Wang, L.Chai, Y.Qi, J.Wang, L.F.Gao, G.F.Liu, W.J.

(2019) PLoS Biol 17: e3000436-e3000436

  • DOI: 10.1371/journal.pbio.3000436
  • Primary Citation of Related Structures:  
    6K7U, 6K7T, 6J2G, 6J2F, 6J2I, 6J2H, 6J2J, 6J2E, 6J2D

  • PubMed Abstract: 
  • Bats harbor many zoonotic viruses, including highly pathogenic viruses of humans and other mammals, but they are typically asymptomatic in bats. To further understand the antiviral immunity of bats, we screened and identified a series of bat major histocompatibility complex (MHC) I Ptal-N*01:01-binding peptides derived from four different bat-borne viruses, i ...

    Bats harbor many zoonotic viruses, including highly pathogenic viruses of humans and other mammals, but they are typically asymptomatic in bats. To further understand the antiviral immunity of bats, we screened and identified a series of bat major histocompatibility complex (MHC) I Ptal-N*01:01-binding peptides derived from four different bat-borne viruses, i.e., Hendra virus (HeV), Ebola virus (EBOV), Middle East respiratory syndrome coronavirus (MERS-CoV), and H17N10 influenza-like virus. The structures of Ptal-N*01:01 display unusual peptide presentation features in that the bat-specific 3-amino acid (aa) insertion enables the tight "surface anchoring" of the P1-Asp in pocket A of bat MHC I. As the classical primary anchoring positions, the B and F pockets of Ptal-N*01:01 also show unconventional conformations, which contribute to unusual peptide motifs and distinct peptide presentation. Notably, the features of bat MHC I may be shared by MHC I from various marsupials. Our study sheds light on bat adaptive immunity and may benefit future vaccine development against bat-borne viruses of high impact on humans.


    Organizational Affiliation

    NHC Key Laboratory of Medical Virology and Viral Diseases, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Ptal-N*01:01A277Pteropus alectoMutation(s): 0 
Gene Names: Ptal-N
Find proteins for A0A125R585 (Pteropus alecto)
Explore A0A125R585 
Go to UniProtKB:  A0A125R585
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
beta-2 microglobulinB98Pteropus alectoMutation(s): 0 
Gene Names: PAL_GLEAN10023531
Find proteins for L5K3Y9 (Pteropus alecto)
Explore L5K3Y9 
Go to UniProtKB:  L5K3Y9
Protein Feature View
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  • Reference Sequence
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
HeV1C8Hendra henipavirusMutation(s): 0 
Find proteins for O55778 (Hendra virus (isolate Horse/Autralia/Hendra/1994))
Explore O55778 
Go to UniProtKB:  O55778
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.31 Å
  • R-Value Free: 0.282 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.224 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 72.458α = 90
b = 86.272β = 90
c = 134.728γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-09-18
    Type: Initial release
  • Version 1.1: 2019-09-25
    Changes: Data collection, Structure summary
  • Version 1.2: 2019-12-04
    Changes: Structure summary