1YXL

Crystal structure of a novel phospholipase A2 from Naja naja sagittifera at 1.5 A resolution

Structural Biology Knowledgebase: 1YXL SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.48 Å
  • R-Value Free: 0.230
  • R-Value Work: 0.188

Literature

Macromolecules
Sequence Display for 1YXL

Classification: Hydrolase

Total Structure Weight: 13378.74

Macromolecule Entities
Molecule Chains Length Organism Details
Phospholipase A2 isoform 3 A 119 Naja sagittifera EC#: 3.1.1.4 IUBMB
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACY
Query on ACY

A ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.48 Å
  • R-Value Free: 0.230
  • R-Value Work: 0.188
  • Space Group: P 41

Unit Cell:

Length (Å) Angle (°)
a = 42.02 α = 90.00
b = 42.02 β = 90.00
c = 64.45 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-02-22
  • Released Date: 2005-03-08
  • Deposition author(s): Singh, R.K., Jabeen, T., Sharma, S., Kaur, P., Singh, T.P.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4