7NXQ

Structure of the pentameric C-terminal domain of the capsid protein from Kaposi's sarcoma-associated herpesvirus (KSHV)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.42 Å
  • R-Value Free: 0.235 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.208 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Assembly of infectious Kaposi's sarcoma-associated herpesvirus progeny requires formation of a pORF19 pentamer.

Naniima, P.Naimo, E.Koch, S.Curth, U.Alkharsah, K.R.Stroh, L.J.Binz, A.Beneke, J.M.Vollmer, B.Boning, H.Borst, E.M.Desai, P.Bohne, J.Messerle, M.Bauerfeind, R.Legrand, P.Sodeik, B.Schulz, T.F.Krey, T.

(2021) PLoS Biol 19: e3001423-e3001423

  • DOI: https://doi.org/10.1371/journal.pbio.3001423
  • Primary Citation of Related Structures:  
    7NXP, 7NXQ, 7NXR

  • PubMed Abstract: 

    Herpesviruses cause severe diseases particularly in immunocompromised patients. Both genome packaging and release from the capsid require a unique portal channel occupying one of the 12 capsid vertices. Here, we report the 2.6 Å crystal structure of the pentameric pORF19 of the γ-herpesvirus Kaposi's sarcoma-associated herpesvirus (KSHV) resembling the portal cap that seals this portal channel. We also present the structure of its β-herpesviral ortholog, revealing a striking structural similarity to its α- and γ-herpesviral counterparts despite apparent differences in capsid association. We demonstrate pORF19 pentamer formation in solution and provide insights into how pentamerization is triggered in infected cells. Mutagenesis in its lateral interfaces blocked pORF19 pentamerization and severely affected KSHV capsid assembly and production of infectious progeny. Our results pave the way to better understand the role of pORF19 in capsid assembly and identify a potential novel drug target for the treatment of herpesvirus-induced diseases.


  • Organizational Affiliation

    Institute of Virology, Hannover Medical School, Hannover, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Capsid vertex component 2
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J
443Human gammaherpesvirus 8Mutation(s): 0 
UniProt
Find proteins for Q2HRB3 (Human herpesvirus 8 type P (isolate GK18))
Explore Q2HRB3 
Go to UniProtKB:  Q2HRB3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2HRB3
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ACT
Query on ACT

Download Ideal Coordinates CCD File 
AA [auth I]
BA [auth I]
CA [auth J]
DA [auth J]
K [auth A]
AA [auth I],
BA [auth I],
CA [auth J],
DA [auth J],
K [auth A],
L [auth A],
M [auth B],
N [auth B],
O [auth C],
P [auth C],
Q [auth D],
R [auth D],
S [auth E],
T [auth E],
U [auth F],
V [auth F],
W [auth G],
X [auth G],
Y [auth H],
Z [auth H]
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.42 Å
  • R-Value Free: 0.235 
  • R-Value Work: 0.207 
  • R-Value Observed: 0.208 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 95.51α = 90
b = 239.138β = 90
c = 264.402γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata reduction
XDSdata scaling
autoSHARPphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Federal Ministry for Education and ResearchGermanyGerman Center for Infection Research (DZIF) - TTU 07.704

Revision History  (Full details and data files)

  • Version 1.0: 2021-10-13
    Type: Initial release
  • Version 1.1: 2021-11-17
    Changes: Data collection, Database references