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Cadmium in PDB 1m8r: Crystal Structures of Cadmium-Binding Acidic Phospholipase A2 From the Venom of Agkistrodon Halys Pallas at 1.9 Resolution (Crystal Grown at pH 7.4)

Enzymatic activity of Crystal Structures of Cadmium-Binding Acidic Phospholipase A2 From the Venom of Agkistrodon Halys Pallas at 1.9 Resolution (Crystal Grown at pH 7.4)

All present enzymatic activity of Crystal Structures of Cadmium-Binding Acidic Phospholipase A2 From the Venom of Agkistrodon Halys Pallas at 1.9 Resolution (Crystal Grown at pH 7.4):
3.1.1.4;

Protein crystallography data

The structure of Crystal Structures of Cadmium-Binding Acidic Phospholipase A2 From the Venom of Agkistrodon Halys Pallas at 1.9 Resolution (Crystal Grown at pH 7.4), PDB code: 1m8r was solved by S.Xu, L.Gu, Y.Zhou, Z.Lin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 1.90
Space group P 61
Cell size a, b, c (Å), α, β, γ (°) 83.270, 83.270, 32.800, 90.00, 90.00, 120.00
R / Rfree (%) 19.3 / 21

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Crystal Structures of Cadmium-Binding Acidic Phospholipase A2 From the Venom of Agkistrodon Halys Pallas at 1.9 Resolution (Crystal Grown at pH 7.4) (pdb code 1m8r). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total only one binding site of Cadmium was determined in the Crystal Structures of Cadmium-Binding Acidic Phospholipase A2 From the Venom of Agkistrodon Halys Pallas at 1.9 Resolution (Crystal Grown at pH 7.4), PDB code: 1m8r:

Cadmium binding site 1 out of 1 in 1m8r

Go back to Cadmium Binding Sites List in 1m8r
Cadmium binding site 1 out of 1 in the Crystal Structures of Cadmium-Binding Acidic Phospholipase A2 From the Venom of Agkistrodon Halys Pallas at 1.9 Resolution (Crystal Grown at pH 7.4)


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Crystal Structures of Cadmium-Binding Acidic Phospholipase A2 From the Venom of Agkistrodon Halys Pallas at 1.9 Resolution (Crystal Grown at pH 7.4) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd1001

b:40.7
occ:0.50
 O A:GLY30 2.2 16.3 1.0
O A:TYR28 2.3 14.8 1.0
OD2 A:ASP49 2.3 21.3 1.0
O A:GLY32 2.3 16.7 1.0
CG A:ASP49 3.0 20.4 1.0
OD1 A:ASP49 3.0 22.2 1.0
C A:GLY32 3.4 16.3 1.0
C A:TYR28 3.4 13.5 1.0
C A:GLY30 3.4 18.1 1.0
N A:GLY32 3.5 15.8 1.0
N A:GLY30 3.9 15.8 1.0
C A:TRP31 3.9 17.1 1.0
CA A:GLY32 3.9 17.5 1.0
CA A:TYR28 4.0 13.1 1.0
O A:HOH1048 4.0 37.3 1.0
O A:HOH1057 4.3 35.4 1.0
CA A:TRP31 4.3 17.1 1.0
CB A:TYR28 4.3 14.1 1.0
N A:TRP31 4.3 17.8 1.0
CA A:GLY30 4.4 16.4 1.0
N A:GLY33 4.4 16.9 1.0
CB A:ASP49 4.5 16.9 1.0
O A:TRP31 4.5 16.0 1.0
N A:CYS29 4.5 12.3 1.0
O A:HOH1018 4.6 31.1 1.0
C A:CYS29 4.6 15.1 1.0
CA A:CYS29 4.7 13.8 1.0
CD1 A:TYR28 4.7 14.5 1.0
CA A:GLY33 4.8 17.9 1.0
O A:CYS45 4.9 13.5 1.0

Reference:

S.Xu, L.Gu, T.Jiang, Y.Zhou, Z.Lin. Structures of Cadmium-Binding Acidic Phospholipase A(2) From the Venom of Agkistrodon Halys Pallas at 1.9A Resolutio Biochem.Biophys.Res.Commun. V. 300 271 2003.
ISSN: ISSN 0006-291X
PubMed: 12504079
DOI: 10.1016/S0006-291X(02)02833-4
Page generated: Fri Jul 19 13:51:24 2024

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