8DGR | pdb_00008dgr

Crystal Structure of scFv(F8) Antibody Fragment

• PDB DOI: https://doi.org/10.2210/pdb8DGR/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Artichoke mottled crinkle virus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-06-24 Released: 2023-07-05 
• Deposition Author(s): Mrozek, A., Park, H.W.
• Funding Organization(s): Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.56 Å
• R-Value Free: 
  0.195 (Depositor), 0.194 (DCC) 
• R-Value Work: 
  0.175 (Depositor), 0.175 (DCC) 

Starting Model: experimental

Literature

scFv(F8) Antibody

Mrozek, A., Park, H.W.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 29.63 kDa 
• Atom Count: 2,005 
• Modeled Residue Count: 237 
• Deposited Residue Count: 273 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
scFv F8	A	273	Artichoke mottled crinkle virus	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.56 Å
• R-Value Free:  0.195 (Depositor), 0.194 (DCC) 
• R-Value Work:  0.175 (Depositor), 0.175 (DCC) 

Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 119.644	α = 90
b = 119.644	β = 90
c = 74.856	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2023-07-05 
Deposition Author(s): Mrozek, A., Park, H.W.

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Funding Organization	Location	Grant Number
Other private	United States	--

Revision History  

• Version 1.0: 2023-07-05
  Type: Initial release
  
• Version 1.1: 2023-10-25
  Changes: Data collection, Refinement description
• Version 1.2: 2024-10-30
  Changes: Structure summary