3FG5

Crystal structure determination of a ternary complex of phospholipase A2 with a pentapeptide FLSYK and Ajmaline at 2.5 A resolution

• PDB DOI: https://doi.org/10.2210/pdb3FG5/pdb

• Classification: HYDROLASE
• Organism(s): Daboia russelii pulchella
• Mutation(s): No 


• Deposited: 2008-12-05 Released: 2008-12-23 
• Deposition Author(s): Kumar, M., Kumar, S., Vikram, G., Singh, N., Sinha, M., Bhushan, A., Kaur, P., Srinivasan, A., Sharma, S., Singh, T.P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.227 
• R-Value Work: 0.188 
• R-Value Observed: 0.188 

Literature

Crystal structure determination of a ternary complex of phospholipase A2 with a pentapeptide FLSYK and Ajmaline at 2.5 A resolution

Kumar, M., Kumar, S., Vikram, G., Singh, N., Sinha, M., Bhushan, A., Kaur, P., Srinivasan, A., Sharma, S., Singh, T.P.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Macromolecule Content

• Total Structure Weight: 14.59 kDa 
• Atom Count: 1,073 
• Modelled Residue Count: 126 
• Deposited Residue Count: 126 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Group II Phospholipase A2	A	121	Daboia russelii pulchella	Mutation(s): 0  EC: 3.1.1.4

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
pentapeptide FLSYK	B [auth C]	5	N/A	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
AJM	C [auth A]	AJMALINE C18 H22 N2 O2 CFEPCEVMXPTZPJ-OGDRVKPDSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.227 
• R-Value Work: 0.188 
• R-Value Observed: 0.188 
• Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.949	α = 90
b = 52.949	β = 90
c = 48.445	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
MOLREP	phasing
CNS	refinement
AUTOMAR	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-12-23 
Deposition Author(s): Kumar, M., Kumar, S., Vikram, G., Singh, N., Sinha, M., Bhushan, A., Kaur, P., Srinivasan, A., Sharma, S., Singh, T.P.

Revision History  

• Version 1.0: 2008-12-23
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description