1CJY

HUMAN CYTOSOLIC PHOSPHOLIPASE A2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.229 
  • R-Value Observed: 0.229 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Crystal structure of human cytosolic phospholipase A2 reveals a novel topology and catalytic mechanism.

Dessen, A.Tang, J.Schmidt, H.Stahl, M.Clark, J.D.Seehra, J.Somers, W.S.

(1999) Cell 97: 349-360

  • DOI: https://doi.org/10.1016/s0092-8674(00)80744-8
  • Primary Citation of Related Structures:  
    1CJY

  • PubMed Abstract: 

    Cytosolic phospholipase A2 initiates the biosynthesis of prostaglandins, leukotrienes, and platelet-activating factor (PAF), mediators of the pathophysiology of asthma and arthritis. Here, we report the X-ray crystal structure of human cPLA2 at 2.5 A. cPLA2 consists of an N-terminal calcium-dependent lipid-binding/C2 domain and a catalytic unit whose topology is distinct from that of other lipases. An unusual Ser-Asp dyad located in a deep cleft at the center of a predominantly hydrophobic funnel selectively cleaves arachidonyl phospholipids. The structure reveals a flexible lid that must move to allow substrate access to the active site, thus explaining the interfacial activation of this important lipase.


  • Organizational Affiliation

    Biochemistry, Wyeth Research, Cambridge, Massachusetts 02140, USA. adessen@genetics.com


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
PROTEIN (CYTOSOLIC PHOSPHOLIPASE A2)
A, B
749Homo sapiensMutation(s): 0 
EC: 3.1.1.4
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P47712 (Homo sapiens)
Explore P47712 
Go to UniProtKB:  P47712
PHAROS:  P47712
GTEx:  ENSG00000116711 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP47712
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Binding Affinity Annotations 
IDSourceBinding Affinity
CA BindingDB:  1CJY ΔH: -2.60e+1 (kJ/mol) from 1 assay(s)
ΔG: -3.32e+1 (kJ/mol) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.229 
  • R-Value Observed: 0.229 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 153.59α = 90
b = 95.49β = 90
c = 139.13γ = 90
Software Package:
Software NamePurpose
SHARPphasing
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2000-04-20
    Type: Initial release
  • Version 1.1: 2008-04-26
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2023-12-27
    Changes: Data collection, Database references, Derived calculations