1EV1

ECHOVIRUS 1

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.55 Å
  • R-Value Work: 0.263 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history. 

Literature

Structure determination of echovirus 1.

Filman, D.J., Wien, M.W., Cunningham, J.A., Bergelson, J.M., Hogle, J.M.

(1998) Acta Crystallogr.,Sect.D 54: 1261-1272


  • PubMed Abstract: 

    • The atomic structure of echovirus 1 (a member of the enterovirus genus of the picornavirus family) has been determined using cryo-crystallography and refined to 3.55 A resolution. Echovirus 1 crystallizes in space group P22121 with a = 352.45, b = 47 ...

    The atomic structure of echovirus 1 (a member of the enterovirus genus of the picornavirus family) has been determined using cryo-crystallography and refined to 3.55 A resolution. Echovirus 1 crystallizes in space group P22121 with a = 352.45, b = 472.15 and c = 483.20 A. The crystals contain one full virus particle in the asymmetric unit allowing for 60-fold noncrystallographic symmetry averaging. The diffraction pattern shows strong pseudo-B-centering with reflections with h + l = 2n + 1 being systematically weak or absent below about 6 A resolution. The size of the unit cell and presence of pseudo-B-centering placed strong constraints on the allowed packing of the icosahedral particle in the crystal lattice. These constraints greatly facilitated the determination of the orientation and position of the virus by reducing the dimensionality of the search, but interactions between the crystallographic and noncrystallographic symmetries rendered the choice of space group ambiguous until very late in the structure determination. This structure determination provides a striking example of the power of packing analysis in molecular replacement and illustrates how subtle interactions between crystallographic and noncrystallographic symmetries can be resolved.

    Related Citations: 
    • A Pseudo-Cell Based Approach to Efficient Crystallographic Refinement of Viruses
      Jacobson, D.H.,Hogle, J.M.,Filman, D.J.
      (1996) Acta Crystallogr.,Sect.D 52: 693

    Organizational Affiliation: 

    Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ECHOVIRUS 1
1
281Echovirus 1 (strain Human/Egypt/Farouk/1951)Mutation(s): 0 
Find proteins for O91734 (Echovirus 1 (strain Human/Egypt/Farouk/1951))
Go to UniProtKB:  O91734
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
ECHOVIRUS 1
2
254Echovirus 1 (strain Human/Egypt/Farouk/1951)Mutation(s): 0 
Find proteins for O91734 (Echovirus 1 (strain Human/Egypt/Farouk/1951))
Go to UniProtKB:  O91734
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
ECHOVIRUS 1
3
239Echovirus 1 (strain Human/Egypt/Farouk/1951)Mutation(s): 0 
Find proteins for O91734 (Echovirus 1 (strain Human/Egypt/Farouk/1951))
Go to UniProtKB:  O91734
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
ECHOVIRUS 1
4
68Echovirus 1 (strain Human/Egypt/Farouk/1951)Mutation(s): 0 
Find proteins for O91734 (Echovirus 1 (strain Human/Egypt/Farouk/1951))
Go to UniProtKB:  O91734
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MYR
Query on MYR
Download SDF File 
Download CCD File 
4
MYRISTIC ACID
C14 H28 O2
TUNFSRHWOTWDNC-UHFFFAOYSA-N
 Ligand Interaction
PLM
Query on PLM
Download SDF File 
Download CCD File 
1
PALMITIC ACID
C16 H32 O2
IPCSVZSSVZVIGE-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.55 Å
  • R-Value Work: 0.263 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 472.150α = 90.00
b = 483.200β = 90.00
c = 352.450γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
X-PLORmodel building
DENZOdata reduction
SCALEPACKdata scaling
X-PLORphasing

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1999-01-27
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance