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Sodium in PDB 1a3d: Phospholipase A2 (PLA2) From Naja Naja Venom

Enzymatic activity of Phospholipase A2 (PLA2) From Naja Naja Venom

All present enzymatic activity of Phospholipase A2 (PLA2) From Naja Naja Venom:
3.1.1.4;

Protein crystallography data

The structure of Phospholipase A2 (PLA2) From Naja Naja Venom, PDB code: 1a3d was solved by B.W.Segelke, D.Nguyen, R.Chee, H.N.Xuong, E.A.Dennis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 6.00 / 1.80
Space group P 21 3
Cell size a, b, c (Å), α, β, γ (°) 69.240, 69.240, 69.240, 90.00, 90.00, 90.00
R / Rfree (%) 17.5 / 23

Sodium Binding Sites:

The binding sites of Sodium atom in the Phospholipase A2 (PLA2) From Naja Naja Venom (pdb code 1a3d). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Phospholipase A2 (PLA2) From Naja Naja Venom, PDB code: 1a3d:

Sodium binding site 1 out of 1 in 1a3d

Go back to Sodium Binding Sites List in 1a3d
Sodium binding site 1 out of 1 in the Phospholipase A2 (PLA2) From Naja Naja Venom


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Phospholipase A2 (PLA2) From Naja Naja Venom within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na200

b:2.4
occ:0.25
OD2 A:ASP39 2.4 21.4 1.0
OD1 A:ASP39 2.9 18.3 1.0
CG A:ASP39 3.0 19.5 1.0
O A:HOH292 3.1 41.2 1.0
O A:HOH276 3.7 25.7 0.3
O A:HOH249 4.4 22.4 1.0
CB A:ASP39 4.5 14.8 1.0
O A:HOH250 5.0 38.8 1.0

Reference:

B.W.Segelke, D.Nguyen, R.Chee, N.H.Xuong, E.A.Dennis. Structures of Two Novel Crystal Forms of Naja Naja Naja Phospholipase A2 Lacking CA2+ Reveal Trimeric Packing. J.Mol.Biol. V. 279 223 1998.
ISSN: ISSN 0022-2836
PubMed: 9636712
DOI: 10.1006/JMBI.1998.1759
Page generated: Tue Dec 15 05:21:37 2020

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