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Sodium in PDB 1y38: Crystal Structure of the Complex Formed Between Phospholipase A2 Dimer and Glycerophosphate at 2.4 A Resolution

Enzymatic activity of Crystal Structure of the Complex Formed Between Phospholipase A2 Dimer and Glycerophosphate at 2.4 A Resolution

All present enzymatic activity of Crystal Structure of the Complex Formed Between Phospholipase A2 Dimer and Glycerophosphate at 2.4 A Resolution:
3.1.1.4;

Protein crystallography data

The structure of Crystal Structure of the Complex Formed Between Phospholipase A2 Dimer and Glycerophosphate at 2.4 A Resolution, PDB code: 1y38 was solved by N.Singh, T.Jabeen, S.Sharma, T.P.Singh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.86 / 2.44
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 45.866, 69.071, 75.646, 90.00, 90.00, 90.00
R / Rfree (%) 19.4 / 22.4

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of the Complex Formed Between Phospholipase A2 Dimer and Glycerophosphate at 2.4 A Resolution (pdb code 1y38). 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 Crystal Structure of the Complex Formed Between Phospholipase A2 Dimer and Glycerophosphate at 2.4 A Resolution, PDB code: 1y38:

Sodium binding site 1 out of 1 in 1y38

Go back to Sodium Binding Sites List in 1y38
Sodium binding site 1 out of 1 in the Crystal Structure of the Complex Formed Between Phospholipase A2 Dimer and Glycerophosphate at 2.4 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of the Complex Formed Between Phospholipase A2 Dimer and Glycerophosphate at 2.4 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na301

b:2.0
occ:1.00
 OE2 A:GLU92 2.3 21.4 1.0
O A:ARG72 2.3 16.5 1.0
OD1 A:ASP71 2.4 20.4 1.0
C A:ARG72 3.4 17.0 1.0
CD A:GLU92 3.4 21.8 1.0
CG A:ASP71 3.5 20.0 1.0
N A:ARG72 3.6 18.1 1.0
CA A:ARG72 4.0 17.2 1.0
CG A:GLU92 4.0 20.7 1.0
OD2 A:ASP71 4.0 19.6 1.0
O A:HOH422 4.1 6.8 1.0
CB A:ARG72 4.3 17.3 1.0
C A:ASP71 4.4 18.6 1.0
OE1 A:GLU92 4.4 24.2 1.0
N A:TYR73 4.5 16.9 1.0
CB A:ASP71 4.7 19.5 1.0
CA A:ASP71 4.7 19.3 1.0
CA A:TYR73 4.9 17.0 1.0

Reference:

N.Singh, T.Jabeen, S.Sharma, T.P.Singh. Crystal Structure of the Complex Formed Between Phospholipase A2 Dimer and Glycerophosphate at 2.4 A Resolution To Be Published.
Page generated: Mon Oct 7 00:36:33 2024

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