1OGQ

The crystal structure of PGIP (polygalacturonase inhibiting protein), a leucine rich repeat protein involved in plant defense

• PDB DOI: https://doi.org/10.2210/pdb1OGQ/pdb

• Classification: INHIBITOR
• Organism(s): Phaseolus vulgaris
• Expression System: Nicotiana benthamiana
• Mutation(s): No 


• Deposited: 2003-05-08 Released: 2003-07-24 
• Deposition Author(s): Di Matteo, A., Federici, L., Mattei, B., Salvi, G., Johnson, K.A., Savino, C., De Lorenzo, G., Tsernoglou, D., Cervone, F.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.240 
• R-Value Work: 0.190 

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 34.97 kDa 
• Atom Count: 2,772 
• Modelled Residue Count: 313 
• Deposited Residue Count: 313 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
POLYGALACTURONASE INHIBITING PROTEIN	A	313	Phaseolus vulgaris	Mutation(s): 0
UniProt
Find proteins for P58822 (Phaseolus vulgaris) Explore P58822  Go to UniProtKB:  P58822

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	B [auth A], C [auth A], D [auth A], E [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
ACT	F [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.240 
• R-Value Work: 0.190 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 134.84	α = 90
b = 65.45	β = 90
c = 34.64	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-07-24 
Deposition Author(s): Di Matteo, A., Federici, L., Mattei, B., Salvi, G., Johnson, K.A., Savino, C., De Lorenzo, G., Tsernoglou, D., Cervone, F.

Revision History  

• Version 1.0: 2003-07-24
  Type: Initial release
  
• Version 1.1: 2012-01-25
  Changes: Derived calculations, Non-polymer description, Other, Version format compliance
• Version 1.2: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Other, Structure summary