Calcium in PDB 1ijl: Crystal Structure of Acidic Phospholipase A2 From Deinagkistrodon Acutus

All present enzymatic activity of Crystal Structure of Acidic Phospholipase A2 From Deinagkistrodon Acutus:
3.1.1.4;

The structure of Crystal Structure of Acidic Phospholipase A2 From Deinagkistrodon Acutus, PDB code: 1ijl was solved by L.Gu, H.Zhang, S.Song, Y.Zhou, Z.Lin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	8.00 / 2.60
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	48.710, 38.000, 69.900, 90.00, 99.35, 90.00
R / Rfree (%)	18.4 / 22.5

The structure of Crystal Structure of Acidic Phospholipase A2 From Deinagkistrodon Acutus also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Calcium atom in the Crystal Structure of Acidic Phospholipase A2 From Deinagkistrodon Acutus (pdb code 1ijl). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of Acidic Phospholipase A2 From Deinagkistrodon Acutus, PDB code: 1ijl:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of Acidic Phospholipase A2 From Deinagkistrodon Acutus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Acidic Phospholipase A2 From Deinagkistrodon Acutus within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca203 b:48.9 occ:1.00 O A:GLY31 2.1 36.5 1.0 O A:TYR27 2.4 21.3 1.0 O A:GLY29 2.5 30.5 1.0 OD2 A:ASP48 2.8 42.0 1.0 OD1 A:ASP48 3.0 41.8 1.0 CG A:ASP48 3.2 39.3 1.0 C A:GLY31 3.3 35.4 1.0 C A:TYR27 3.5 20.4 1.0 C A:GLY29 3.7 31.4 1.0 N A:GLY31 3.7 37.6 1.0 N A:GLY29 4.0 25.5 1.0 CA A:GLY31 4.0 36.0 1.0 CA A:TYR27 4.1 21.2 1.0 C A:TRP30 4.2 38.3 1.0 N A:GLY32 4.4 32.5 1.0 CA A:GLY29 4.5 28.9 1.0 CA A:TRP30 4.5 39.8 1.0 CB A:TYR27 4.5 19.8 1.0 CA A:GLY32 4.6 31.8 1.0 N A:TRP30 4.6 37.3 1.0 N A:CYS28 4.6 20.7 1.0 CB A:ASP48 4.7 34.1 1.0 C A:CYS28 4.8 23.9 1.0 CA A:CYS28 4.8 21.6 1.0 CD1 A:TYR27 4.9 17.9 1.0 O A:TRP30 4.9 38.1 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of Acidic Phospholipase A2 From Deinagkistrodon Acutus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Acidic Phospholipase A2 From Deinagkistrodon Acutus within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca202 b:38.4 occ:1.00 O B:GLY31 2.2 31.2 1.0 O B:TYR27 2.4 21.1 1.0 OD2 B:ASP48 2.5 48.1 1.0 OD1 B:ASP48 2.7 46.3 1.0 O B:GLY29 2.8 22.8 1.0 CG B:ASP48 2.9 45.0 1.0 C B:TYR27 3.4 20.3 1.0 C B:GLY31 3.4 29.4 1.0 CA B:TYR27 3.9 20.1 1.0 C B:GLY29 3.9 23.2 1.0 O B:HOH245 3.9 39.2 1.0 N B:GLY29 4.0 20.8 1.0 N B:GLY31 4.2 28.1 1.0 O B:HOH212 4.2 36.6 1.0 CA B:GLY32 4.3 28.9 1.0 N B:GLY32 4.3 28.7 1.0 CB B:ASP48 4.4 39.7 1.0 CB B:TYR27 4.4 19.9 1.0 CA B:GLY31 4.4 28.3 1.0 N B:CYS28 4.4 19.6 1.0 CD1 B:TYR27 4.6 24.9 1.0 C B:TRP30 4.6 27.6 1.0 CA B:GLY29 4.6 21.6 1.0 O B:CYS44 4.8 19.5 1.0 CA B:CYS28 4.8 19.9 1.0 C B:CYS28 4.8 20.2 1.0 O B:HOH246 4.9 30.9 1.0 O B:HOH210 4.9 37.6 1.0 N B:TRP30 4.9 25.2 1.0 CG B:TYR27 5.0 22.1 1.0

L.Gu, H.Zhang, S.Song, Y.Zhou, Z.Lin. Structure of An Acidic Phospholipase A2 From the Venom of Deinagkistrodon Acutus. Acta Crystallogr.,Sect.D V. 58 104 2002.
ISSN: ISSN 0907-4449
PubMed: 11752784
DOI: 10.1107/S0907444901018170