3BP2

ROLE OF THE N-TERMINUS IN THE INTERACTION OF PANCREATIC PHOSPHOLIPASE A2 WITH AGGREGATED SUBSTRATES. PROPERTIES AND CRYSTAL STRUCTURE OF TRANSAMINATED PHOSPHOLIPASE A2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Work: 0.174 

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This is version 1.4 of the entry. See complete history


Literature

Role of the N-terminus in the interaction of pancreatic phospholipase A2 with aggregated substrates. Properties and crystal structure of transaminated phospholipase A2

Dijkstra, B.W.Kalk, K.H.Drenth, J.de Haas, G.H.Egmond, M.R.Slotboom, A.J.

(1984) Biochemistry 23: 2759-2766

  • DOI: 10.1021/bi00307a035
  • Primary Citation of Related Structures:  
    3BP2

  • PubMed Abstract: 
  • A free N-terminal alpha-NH3+ group is absolutely required for full catalytic activity of phospholipase A2 on aggregated substrates. To elucidate how this alpha-NH3+ group triggers catalytic activity, we specifically transaminated this group in various pancreatic phospholipases A2 ...

    A free N-terminal alpha-NH3+ group is absolutely required for full catalytic activity of phospholipase A2 on aggregated substrates. To elucidate how this alpha-NH3+ group triggers catalytic activity, we specifically transaminated this group in various pancreatic phospholipases A2. Porcine, porcine iso-, equine, human, ovine, and bovine phospholipases A2 all loose catalytic activity on micellar substrates due to the inability of the transaminated proteins to bind to neutral micellar substrate analogues, as was found for the zymogens. Loss of activity is pseudo first order, the rate constants being different for the enzymes studied. The transaminated phospholipases A2 have an intact active site, as catalytic activities on monomeric substrates are comparable to those of the respective zymogens. The X-ray structure of transaminated bovine phospholipase A2 at 2.1-A resolution shows that the N-terminal region and the sequence 63-72 in this protein are more flexible than in the native enzyme. Also, in this respect, the transaminated enzyme very much resembles the zymogen structure. In good agreement with this, it was found by photochemically induced dynamic nuclear polarization 1H NMR that aromatic resonances of Trp-3 and Tyr-69 are affected by transamination. In addition, fluorescence spectroscopy of the unique Trp-3 in transaminated bovine phospholipase A2 revealed a red shift of the emission maximum indicative of a more polar environment of Trp-3 in the transaminated phospholipase A2 as compared to the enzyme.(ABSTRACT TRUNCATED AT 250 WORDS)


    Related Citations: 
    • Structure of Porcine Pancreatic Phospholipase A2 at 2.6 Angstroms Resolution and Comparison with Bovine Phospholipase A2
      Dijkstra, B.W., Renetseder, R., Kalk, K.H., Hol, W.G.J., Drenth, J.
      (1983) J Mol Biol 168: 163
    • The Structure of Bovine Pancreatic Prophospholipase A2 at 3.0 Angstroms Resolution
      Dijkstra, B.W., Vannes, G.J.H., Kalk, K.H., Brandenburg, N.P., Hol, W.G.J., Drenth, J.
      (1982) Acta Crystallogr B 38: 793
    • Active Site and Catalytic Mechanism of Phospholipase A2
      Dijkstra, B.W., Drenth, J., Kalk, K.H.
      (1981) Nature 289: 604
    • Structure of Bovine Pancreatic Phospholipase A2 at 1.7 Angstroms Resolution
      Dijkstra, B.W., Kalk, K.H., Hol, W.G.J., Drenth, J.
      (1981) J Mol Biol 147: 97
    • Three-Dimensional Structure and Disulfide Bond Connections in Bovine Pancreatic Phospholipase A2
      Dijkstra, B.W., Drenth, J., Kalk, K.H., Vandermaelen, P.J.
      (1978) J Mol Biol 124: 53

    Organizational Affiliation

    University of Chinese Academy of Sciences, Beijing 100049, China.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PHOSPHOLIPASE A2A123Bos taurusMutation(s): 0 
Gene Names: PLA2G1B
EC: 3.1.1.4
UniProt
Find proteins for P00593 (Bos taurus)
Explore P00593 
Go to UniProtKB:  P00593
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download Ideal Coordinates CCD File 
B [auth A]CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Work: 0.174 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 46.68α = 90
b = 64.85β = 90
c = 37.91γ = 90
Software Package:
Software NamePurpose
PROLSQrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1983-09-15
    Type: Initial release
  • Version 1.1: 2008-03-25
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-11-29
    Changes: Advisory, Derived calculations, Other
  • Version 1.4: 2019-11-20
    Changes: Derived calculations