5E8C | pdb_00005e8c

pseudorabies virus nuclear egress complex, pUL31, pUL34

• PDB DOI: https://doi.org/10.2210/pdb5E8C/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Suid alphaherpesvirus 1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2015-10-14 Released: 2015-12-23 
• Deposition Author(s): Zeev-Ben-Mordehai, T., Cheleski, J., Whittle, C., El Omari, K., Harlos, K., Hagen, C., Klupp, B., Mettenleiter, T.C., Gruenewald, K.
• Funding Organization(s): Wellcome Trust

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 
  0.265 (Depositor), 0.256 (DCC) 
• R-Value Work: 
  0.219 (Depositor), 0.224 (DCC) 
• R-Value Observed: 
  0.222 (Depositor) 

Literature

Crystal Structure of the Herpesvirus Nuclear Egress Complex Provides Insights into Inner Nuclear Membrane Remodeling.

Zeev-Ben-Mordehai, T., Weberru, M., Lorenz, M., Cheleski, J., Hellberg, T., Whittle, C., El Omari, K., Vasishtan, D., Dent, K.C., Harlos, K., Franzke, K., Hagen, C., Klupp, B.G., Antonin, W., Mettenleiter, T.C., Grunewald, K.

(2015) Cell Rep 13: 2645-2652

• PubMed: 26711332 
• DOI: https://doi.org/10.1016/j.celrep.2015.11.008
• Primary Citation Related Structures: 
  5E8C, 5FKI


• PubMed Abstract: 
  

  Although nucleo-cytoplasmic transport is typically mediated through nuclear pore complexes, herpesvirus capsids exit the nucleus via a unique vesicular pathway. Together, the conserved herpesvirus proteins pUL31 and pUL34 form the heterodimeric nuclear egress complex (NEC), which, in turn, mediates the formation of tight-fitting membrane vesicles around capsids at the inner nuclear membrane. Here, we present the crystal structure of the pseudorabies virus NEC. The structure revealed that a zinc finger motif in pUL31 and an extensive interaction network between the two proteins stabilize the complex. Comprehensive mutational analyses, characterized both in situ and in vitro, indicated that the interaction network is not redundant but rather complementary. Fitting of the NEC crystal structure into the recently determined cryoEM-derived hexagonal lattice, formed in situ by pUL31 and pUL34, provided details on the molecular basis of NEC coat formation and inner nuclear membrane remodeling.

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Organizational Affiliation: 
• Division of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK.
Friedrich Miescher Laboratory of the Max Planck Society, 72076 Tübingen, Germany.
Institute of Molecular Virology and Cell Biology, Friedrich-Loeffler-Institut, Federal Research Institute for Animal Health, 17493 Greifswald - Insel Riems, Germany.
Friedrich Miescher Laboratory of the Max Planck Society, 72076 Tübingen, Germany. Electronic address: [e-mail].
Division of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK. Electronic address: [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 47.15 kDa 
• Atom Count: 3,175 
• Modeled Residue Count: 406 
• Deposited Residue Count: 418 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UL31	A	247	Suid alphaherpesvirus 1	Mutation(s): 0  Gene Names: UL31
UniProt
Find proteins for G3G955 (Suid herpesvirus 1) Explore G3G955  Go to UniProtKB:  G3G955

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
UL34 protein	B	171	Suid alphaherpesvirus 1	Mutation(s): 0  Gene Names: UL34
UniProt
Find proteins for G3G8R3 (Suid herpesvirus 1) Explore G3G8R3  Go to UniProtKB:  G3G8R3

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	C [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CL	D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free:  0.265 (Depositor), 0.256 (DCC) 
• R-Value Work:  0.219 (Depositor), 0.224 (DCC) 
• R-Value Observed: 0.222 (Depositor) 

Space Group: P 4₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 91.69	α = 90
b = 91.69	β = 90
c = 108.26	γ = 90

Software Package:

Software Name	Purpose
BUSTER-TNT	refinement
PDB_EXTRACT	data extraction
xia2	data reduction
xia2	data scaling
PHENIX	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2015-12-23 
Deposition Author(s): Zeev-Ben-Mordehai, T., Cheleski, J., Whittle, C., El Omari, K., Harlos, K., Hagen, C., Klupp, B., Mettenleiter, T.C., Gruenewald, K.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	090895/Z/09/Z

Revision History  

• Version 1.0: 2015-12-23
  Type: Initial release
  
• Version 1.1: 2016-01-13
  Changes: Database references
• Version 1.2: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Structure summary