2WB6 | pdb_00002wb6

Crystal structure of AFV1-102, a protein from the Acidianus Filamentous Virus 1

• PDB DOI: https://doi.org/10.2210/pdb2WB6/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Captovirus AFV1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-02-22 Released: 2009-03-03 
• Deposition Author(s): Keller, J., Leulliot, N., Collinet, B., Campanacci, V., Cambillau, C., Pranghisvilli, D., van Tilbeurgh, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 
  0.274 (Depositor), 0.281 (DCC) 
• R-Value Work: 
  0.213 (Depositor) 
• R-Value Observed: 
  0.216 (Depositor) 

Literature

Crystal Structure of Afv1-102, a Protein from the Acidianus Filamentous Virus 1.

Keller, J., Leulliot, N., Collinet, B., Campanacci, V., Cambillau, C., Pranghisvilli, D., Van Tilbeurgh, H.

(2009) Protein Sci 18: 845

• PubMed: 19319936 
• DOI: https://doi.org/10.1002/pro.79
• Primary Citation Related Structures: 
  2WB6


• PubMed Abstract: 
  

  Viruses infecting hyperthermophilic archaea have intriguing morphologies and genomic properties. The vast majority of their genes do not have homologs other than in other hyperthermophilic viruses, and the biology of these viruses is poorly understood. As part of a structural genomics project on the proteins of these viruses, we present here the structure of a 102 amino acid protein from acidianus filamentous virus 1 (AFV1-102). The structure shows that it is made of two identical motifs that have poor sequence similarity. Although no function can be proposed from structural analysis, tight binding of the gateway tag peptide in a groove between the two motifs suggests AFV1-102 is involved in protein protein interactions.

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Organizational Affiliation: 
• Institut de Biochimie et de Biophysique Moléculaire et Cellulaire, Université Paris-Sud, IFR115, UMR8619-CNRS, 91405 Orsay, France.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content 

• Total Structure Weight: 15.12 kDa 
• Atom Count: 998 
• Modeled Residue Count: 114 
• Deposited Residue Count: 130 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AFV1-102	A	130	Captovirus AFV1	Mutation(s): 0
UniProt
Find proteins for Q70LC3 (Acidianus filamentous virus 1 (isolate United States/Yellowstone)) Explore Q70LC3  Go to UniProtKB:  Q70LC3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	B [auth A], C [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free:  0.274 (Depositor), 0.281 (DCC) 
• R-Value Work:  0.213 (Depositor) 
• R-Value Observed: 0.216 (Depositor) 

Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.89	α = 90
b = 62.89	β = 90
c = 110.837	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-03-03 
Deposition Author(s): Keller, J., Leulliot, N., Collinet, B., Campanacci, V., Cambillau, C., Pranghisvilli, D., van Tilbeurgh, H.

Revision History  

• Version 1.0: 2009-03-03
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Other, Structure summary