1RER

Crystal structure of the homotrimer of fusion glycoprotein E1 from Semliki Forest Virus.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.265 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Conformational change and protein-protein interactions of the fusion protein of Semliki Forest virus.

Gibbons, D.L.Vaney, M.C.Roussel, A.Vigouroux, A.Reilly, B.Lepault, J.Kielian, M.Rey, F.A.

(2004) Nature 427: 320-325

  • DOI: 10.1038/nature02239
  • Also Cited By: 4B3V, 4ADJ, 4ADI, 4ADG, 3N44, 3N43, 3N42, 3N41, 3N40, 2V33, 2ALA

  • PubMed Abstract: 
  • Fusion of biological membranes is mediated by specific lipid-interacting proteins that induce the formation and expansion of an initial fusion pore. Here we report the crystal structure of the ectodomain of the Semliki Forest virus fusion glycoprotei ...

    Fusion of biological membranes is mediated by specific lipid-interacting proteins that induce the formation and expansion of an initial fusion pore. Here we report the crystal structure of the ectodomain of the Semliki Forest virus fusion glycoprotein E1 in its low-pH-induced trimeric form. E1 adopts a folded-back conformation that, in the final post-fusion form of the full-length protein, would bring the fusion peptide loop and the transmembrane anchor to the same end of a stable protein rod. The observed conformation of the fusion peptide loop is compatible with interactions only with the outer leaflet of the lipid bilayer. Crystal contacts between fusion peptide loops of adjacent E1 trimers, together with electron microscopy observations, suggest that in an early step of membrane fusion, an intermediate assembly of five trimers creates two opposing nipple-like deformations in the viral and target membranes, leading to formation of the fusion pore.


    Related Citations: 
    • Visualization of the target-membrane-inserted fusion protein of Semliki Forest virus by combined electron microscopy and crystallography.
      Gibbons, D.L.,Erk, I.,Reilly, B.,Navaza, J.,Kielian, M.,Rey, F.A.,Lepault, J.
      (2003) Cell 114: 573
    • Molecular dissection of the Semliki Forest virus homotrimer reveals two functionally distinct regions of the fusion protein.
      Gibbons, D.L.,Lepault, J.
      (2002) J.VIROL. 76: 1194
    • THE FUSION GLYCOPROTEIN SHELL OF SEMLIKI FOREST VIRUS: AN ICOSAHEDRAL ASSEMBLY PRIMED FOR FUSOGENIC ACTIVATION AT ENDOSOMAL PH
      LESCAR, J.,ROUSSEL, A.,WIEN, M.W.,NAVAZA, J.,FULLER, S.D.,WENGLER, G.,REY, F.A.
      (2001) Cell 105: 137


    Organizational Affiliation

    Virologie Mol├ęculaire & Structurale, UMR 2472/1157 CNRS-INRA, 1 Avenue de la Terrasse, 91198 Gif-sur-Yvette Cedex, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Structural polyprotein
A, B, C
391Semliki forest virusMutation(s): 0 
Find proteins for P03315 (Semliki forest virus)
Go to UniProtKB:  P03315
Small Molecules
Ligands 9 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

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B
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
MAN
Query on MAN

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B
ALPHA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-PQMKYFCFSA-N
 Ligand Interaction
BR
Query on BR

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A, B, C
BROMIDE ION
Br
CPELXLSAUQHCOX-UHFFFAOYSA-M
 Ligand Interaction
HO
Query on HO

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A, B, C
HOLMIUM ATOM
Ho
KJZYNXUDTRRSPN-UHFFFAOYSA-N
 Ligand Interaction
FUC
Query on FUC

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B
ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-N
 Ligand Interaction
BMA
Query on BMA

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A, B
BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
 Ligand Interaction
NDG
Query on NDG

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B
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
 Ligand Interaction
NAG
Query on NAG

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A, B, C
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
FUL
Query on FUL

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A
BETA-L-FUCOSE
6-DEOXY-BETA-L-GALACTOSE
C6 H12 O5
SHZGCJCMOBCMKK-KGJVWPDLSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.265 
  • Space Group: P 31 2 1
Unit Cell:
Length (Å)Angle (°)
a = 198.197α = 90.00
b = 198.197β = 90.00
c = 116.250γ = 120.00
Software Package:
Software NamePurpose
SOLVEphasing
DENZOdata reduction
DMphasing
SHARPphasing
SCALEPACKdata scaling
CNSrefinement
DMmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2004-01-27
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Non-polymer description, Version format compliance
  • Version 1.3: 2018-01-31
    Type: Experimental preparation