1F0I

THE FIRST CRYSTAL STRUCTURE OF A PHOSPHOLIPASE D


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free: 0.185 
  • R-Value Work: 0.130 
  • R-Value Observed: 0.130 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

The first crystal structure of a phospholipase D.

Leiros, I.Secundo, F.Zambonelli, C.Servi, S.Hough, E.

(2000) Structure 8: 655-667

  • DOI: 10.1016/s0969-2126(00)00150-7
  • Primary Citation of Related Structures:  
    1F0I

  • PubMed Abstract: 
  • The phospholipase D (PLD) superfamily includes enzymes that are involved in phospholipid metabolism, nucleases, toxins and virus envelope proteins of unknown function. PLD hydrolyzes the terminal phosphodiester bond of phospholipids to phosphatidic acid and a hydrophilic constituent ...

    The phospholipase D (PLD) superfamily includes enzymes that are involved in phospholipid metabolism, nucleases, toxins and virus envelope proteins of unknown function. PLD hydrolyzes the terminal phosphodiester bond of phospholipids to phosphatidic acid and a hydrophilic constituent. Phosphatidic acid is a compound that is heavily involved in signal transduction. PLD also catalyses a transphosphatidylation reaction in the presence of phosphatidylcholine and a short-chained primary or secondary alcohol.


    Organizational Affiliation

    Department of Chemistry, Faculty of Science, University of Tromso, Norway.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PHOSPHOLIPASE DA504Streptomyces sp. PMFMutation(s): 0 
EC: 3.1.4.4
UniProt
Find proteins for P84147 (Streptomyces sp. (strain PMF))
Explore P84147 
Go to UniProtKB:  P84147
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download Ideal Coordinates CCD File 
B [auth A], C [auth A]PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free: 0.185 
  • R-Value Work: 0.130 
  • R-Value Observed: 0.130 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 57.28α = 90
b = 57.42β = 93.17
c = 68.7γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALAdata scaling
MLPHAREphasing
SHELXL-97refinement
CCP4data scaling

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2001-05-16
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Source and taxonomy, Version format compliance