5DVH

Structure of the Kunitz-type cysteine protease inhibitor PCPI-3 from potato

• PDB DOI: https://doi.org/10.2210/pdb5DVH/pdb

• Classification: protease inhibitor
• Organism(s): Solanum tuberosum
• Mutation(s): No 


• Deposited: 2015-09-21 Released: 2016-10-12 
• Deposition Author(s): Brynda, J., Mishra, M., Mares, M.
• Funding Organization(s): Czech Science Foundation, Ministry of Education, Youth and Sports of the Czech Republic, Czech Academy of Sciences

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.223 
• R-Value Work: 0.197 
• R-Value Observed: 0.199 

Literature

Structure of the Kunitz-type cysteine protease inhibitor PCPI-3 from potato

Brynda, J., Mishra, M., Mares, M.

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: 21.42 kDa 
• Atom Count: 1,621 
• Modelled Residue Count: 185 
• Deposited Residue Count: 193 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PCPI-3	A	193	Solanum tuberosum	Mutation(s): 0
UniProt
Find proteins for A0A1I9GEQ4 (Solanum tuberosum) Explore A0A1I9GEQ4  Go to UniProtKB:  A0A1I9GEQ4

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.223 
• R-Value Work: 0.197 
• R-Value Observed: 0.199 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.637	α = 90
b = 76.637	β = 90
c = 107.306	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2016-10-12 
Deposition Author(s): Brynda, J., Mishra, M., Mares, M.

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Funding Organization	Location	Grant Number
Czech Science Foundation	Czech Republic	15-18929S
Ministry of Education, Youth and Sports of the Czech Republic	Czech Republic	InterBioMed LO1302
Czech Academy of Sciences	Czech Republic	RVO61388963

Revision History  

• Version 1.0: 2016-10-12
  Type: Initial release
  
• Version 1.1: 2017-09-06
  Changes: Author supporting evidence