5FKI

Pseudorabies virus (PrV) nuclear egress complex proteins fitted as a hexameric lattice into a sub-tomogram average derived from focused- ion beam milled lamellae electron cryo-microscopic data


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 35.0 Å
  • Aggregation State: CELL 
  • Reconstruction Method: TOMOGRAPHY 

wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history


Literature

Crystal Structure of the Herpesvirus Nuclear Egress Complex Provides Insights Into Inner Nuclear Membrane Remodelling

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

(2015) Cell Rep 13: 2645-2652

  • DOI: https://doi.org/10.1016/j.celrep.2015.11.008
  • Primary Citation of 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.


  • Organizational Affiliation

    Division of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Oxford OX3 7BN, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
UL31253Suid alphaherpesvirus 1Mutation(s): 0 
Gene Names: UL31
UniProt
Find proteins for G3G955 (Suid alphaherpesvirus 1)
Explore G3G955 
Go to UniProtKB:  G3G955
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG3G955
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
UL34 protein179Suid alphaherpesvirus 1Mutation(s): 0 
Gene Names: UL34
UniProt
Find proteins for G3G8R3 (Suid alphaherpesvirus 1)
Explore G3G8R3 
Go to UniProtKB:  G3G8R3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG3G8R3
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download Ideal Coordinates CCD File 
AD [auth 1U]
AE [auth 2K]
AF [auth 3A]
CD [auth 1W]
CE [auth 2M]
AD [auth 1U],
AE [auth 2K],
AF [auth 3A],
CD [auth 1W],
CE [auth 2M],
CF [auth 3C],
ED [auth 1Y],
EE [auth 2O],
EF [auth 3E],
GC [auth 1A],
GD [auth 10],
GE [auth 2Q],
GF [auth 3G],
IC [auth 1C],
ID [auth 12],
IE [auth 2S],
IF [auth 3I],
KC [auth 1E],
KD [auth 14],
KE [auth 2U],
KF [auth 3K],
MC [auth 1G],
MD [auth 16],
ME [auth 2W],
OC [auth 1I],
OD [auth 18],
OE [auth 2Y],
QC [auth 1K],
QD [auth 2A],
QE [auth 20],
SC [auth 1M],
SD [auth 2C],
SE [auth 22],
UC [auth 1O],
UD [auth 2E],
UE [auth 24],
WC [auth 1Q],
WD [auth 2G],
WE [auth 26],
YC [auth 1S],
YD [auth 2I],
YE [auth 28]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
CL
Query on CL

Download Ideal Coordinates CCD File 
BD [auth 1U]
BE [auth 2K]
BF [auth 3A]
DD [auth 1W]
DE [auth 2M]
BD [auth 1U],
BE [auth 2K],
BF [auth 3A],
DD [auth 1W],
DE [auth 2M],
DF [auth 3C],
FD [auth 1Y],
FE [auth 2O],
FF [auth 3E],
HC [auth 1A],
HD [auth 10],
HE [auth 2Q],
HF [auth 3G],
JC [auth 1C],
JD [auth 12],
JE [auth 2S],
JF [auth 3I],
LC [auth 1E],
LD [auth 14],
LE [auth 2U],
LF [auth 3K],
NC [auth 1G],
ND [auth 16],
NE [auth 2W],
PC [auth 1I],
PD [auth 18],
PE [auth 2Y],
RC [auth 1K],
RD [auth 2A],
RE [auth 20],
TC [auth 1M],
TD [auth 2C],
TE [auth 22],
VC [auth 1O],
VD [auth 2E],
VE [auth 24],
XC [auth 1Q],
XD [auth 2G],
XE [auth 26],
ZC [auth 1S],
ZD [auth 2I],
ZE [auth 28]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
A [auth 1A]
AA [auth 10]
AB [auth 2Q]
AC [auth 3G]
C [auth 1C]
A [auth 1A],
AA [auth 10],
AB [auth 2Q],
AC [auth 3G],
C [auth 1C],
CA [auth 12],
CB [auth 2S],
CC [auth 3I],
E [auth 1E],
EA [auth 14],
EB [auth 2U],
EC [auth 3K],
G [auth 1G],
GA [auth 16],
GB [auth 2W],
I [auth 1I],
IA [auth 18],
IB [auth 2Y],
K [auth 1K],
KA [auth 2A],
KB [auth 20],
M [auth 1M],
MA [auth 2C],
MB [auth 22],
O [auth 1O],
OA [auth 2E],
OB [auth 24],
Q [auth 1Q],
QA [auth 2G],
QB [auth 26],
S [auth 1S],
SA [auth 2I],
SB [auth 28],
U [auth 1U],
UA [auth 2K],
UB [auth 3A],
W [auth 1W],
WA [auth 2M],
WB [auth 3C],
Y [auth 1Y],
YA [auth 2O],
YB [auth 3E]
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 35.0 Å
  • Aggregation State: CELL 
  • Reconstruction Method: TOMOGRAPHY 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONIMOD
RECONSTRUCTIONPEET

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-03-16
    Type: Initial release
  • Version 1.1: 2017-08-02
    Changes: Data collection
  • Version 1.2: 2018-06-20
    Changes: Advisory, Data collection
  • Version 1.3: 2018-11-21
    Changes: Advisory, Data collection, Derived calculations
  • Version 1.4: 2019-07-03
    Changes: Advisory, Data collection, Derived calculations, Source and taxonomy
  • Version 1.5: 2019-12-18
    Changes: Other