1OWS | pdb_00001ows

Crystal structure of a C49 Phospholipase A2 from Indian cobra reveals carbohydrate binding in the hydrophobic channel

• PDB DOI: https://doi.org/10.2210/pdb1OWS/pdb

• Classification: HYDROLASE
• Organism(s): Naja naja
• Mutation(s): No 


• Deposited: 2003-03-30 Released: 2003-05-20 
• Deposition Author(s): Jabeen, T., Jasti, J., Singh, N., Singh, R.K., Sharma, S., Kaur, P., Singh, T.P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.256 (Depositor) 
• R-Value Work: 
  0.225 (Depositor) 
• R-Value Observed: 
  0.225 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of a C49 Phospholipase A2 from Indian cobra reveals carbohydrate binding in the hydrophobic channel

Jabeen, T., Jasti, J., Singh, N., Singh, R.K., Sharma, S., Kaur, P., Singh, T.P.

To be published.

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)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 2 generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 3 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 26.09 kDa 
• Atom Count: 2,039 
• Modeled Residue Count: 236 
• Deposited Residue Count: 236 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phospholipase A2	A	118	Naja naja	Mutation(s): 0  EC: 3.1.1.4
UniProt
Find proteins for P15445 (Naja naja) Explore P15445  Go to UniProtKB:  P15445

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Phospholipase A2	B	118	Naja naja	Mutation(s): 0  EC: 3.1.1.4
UniProt
Find proteins for P15445 (Naja naja) Explore P15445  Go to UniProtKB:  P15445

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	C [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
ZN	D [auth A], E [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.256 (Depositor) 
• R-Value Work:  0.225 (Depositor) 
• R-Value Observed: 0.225 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.656	α = 90
b = 77.656	β = 90
c = 68.424	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-05-20 
Deposition Author(s): Jabeen, T., Jasti, J., Singh, N., Singh, R.K., Sharma, S., Kaur, P., Singh, T.P.

Revision History  

• Version 1.0: 2003-05-20
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.3: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.4: 2023-10-25
  Changes: Data collection, Database references, Refinement description, Structure summary
• Version 1.5: 2024-10-30
  Changes: Structure summary