5FIN | pdb_00005fin

DARPins as a new tool for experimental phasing in protein crystallography

• PDB DOI: https://doi.org/10.2210/pdb5FIN/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): synthetic construct
• Expression System: Escherichia coli K-12
• Mutation(s): No 


• Deposited: 2015-09-30 Released: 2016-11-16 
• Deposition Author(s): Batyuk, A., Honegger, A., Andres, F., Briand, C., Gruetter, M., Plueckthun, A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.34 Å
• R-Value Free: 
  0.270 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.229 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.231 (Depositor) 

Literature

Darpins as a New Tool for Experimental Phasing in Protein Crystallography

Batyuk, A., Honegger, A., Andres, F., Briand, C., Gruetter, M., Plueckthun, A.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 18.78 kDa 
• Atom Count: 1,227 
• Modelled Residue Count: 159 
• Deposited Residue Count: 172 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NI3C DARPIN MUTANT5 HG-SITE N1	A	172	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HG	B [auth A]	MERCURY (II) ION Hg BQPIGGFYSBELGY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.34 Å
• R-Value Free:  0.270 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.229 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.231 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 36.54	α = 90
b = 50.87	β = 90
c = 93	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-11-16 
Deposition Author(s): Batyuk, A., Honegger, A., Andres, F., Briand, C., Gruetter, M., Plueckthun, A.

Revision History  

• Version 1.0: 2016-11-16
  Type: Initial release
  
• Version 1.1: 2017-07-05
  Changes: Data collection
• Version 1.2: 2024-05-08
  Changes: Data collection, Database references, Derived calculations, Other