3HSW | pdb_00003hsw

Crystal Structure of Porcine Pancreatic Phospholipase A2 in Complex with 2-methoxycyclohexa-2-5-diene-1,4-dione

• PDB DOI: https://doi.org/10.2210/pdb3HSW/pdb

• Classification: HYDROLASE
• Organism(s): Sus scrofa
• Mutation(s): No 


• Deposited: 2009-06-11 Released: 2009-06-30 
• Deposition Author(s): Dileep, K.V., Tintu, I., Karthe, P., Mandal, P.K., Haridas, M., Sadasivan, C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.229 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.180 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.182 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of porcine pancreatic phospholipase A2 in complex with 2-methoxycyclohexa-2-5-diene-1,4-dione

Dileep, K.V., Tintu, I., Mandal, P.K., Karthe, P., Haridas, M., Sadasivan, C.

(2012) Front Life Sci 

• DOI: https://doi.org/10.1080/21553769.2012.689262

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 14.23 kDa 
• Atom Count: 1,015 
• Modeled Residue Count: 124 
• Deposited Residue Count: 124 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phospholipase A2, major isoenzyme	A	124	Sus scrofa	Mutation(s): 0  EC: 3.1.1.4
UniProt
Find proteins for P00592 (Sus scrofa) Explore P00592  Go to UniProtKB:  P00592

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MCW	B [auth A]	2-methoxycyclohexa-2,5-diene-1,4-dione C7 H6 O3 ZJKWJHONFFKJHG-UHFFFAOYSA-N
CA	C [auth A], D [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.229 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.180 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.182 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.36	α = 90
b = 68.36	β = 90
c = 70.12	γ = 120

Software Package:

Software Name	Purpose
MAR345dtb	data collection
Auto	model building
REFMAC	refinement
iMOSFLM	data reduction
SCALA	data scaling
Auto	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-06-30 
Deposition Author(s): Dileep, K.V., Tintu, I., Karthe, P., Mandal, P.K., Haridas, M., Sadasivan, C.

Revision History  

• Version 1.0: 2009-06-30
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2012-08-29
  Changes: Database references
• Version 1.3: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.4: 2024-11-20
  Changes: Structure summary