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Sodium in PDB 7dlh: Crystallization of Cationic Peroxidase From Proso Millet and Identification of Its Phosphatase Active Sites

Protein crystallography data

The structure of Crystallization of Cationic Peroxidase From Proso Millet and Identification of Its Phosphatase Active Sites, PDB code: 7dlh was solved by X.D.Cui, T.F.Wang, K.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.64 / 1.79
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 56.298, 112.665, 111.585, 90, 90, 90
R / Rfree (%) 17.1 / 20.5

Other elements in 7dlh:

The structure of Crystallization of Cationic Peroxidase From Proso Millet and Identification of Its Phosphatase Active Sites also contains other interesting chemical elements:

Calcium (Ca) 1 atom
Chlorine (Cl) 3 atoms
Iron (Fe) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystallization of Cationic Peroxidase From Proso Millet and Identification of Its Phosphatase Active Sites (pdb code 7dlh). 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 Crystallization of Cationic Peroxidase From Proso Millet and Identification of Its Phosphatase Active Sites, PDB code: 7dlh:

Sodium binding site 1 out of 1 in 7dlh

Go back to Sodium Binding Sites List in 7dlh
Sodium binding site 1 out of 1 in the Crystallization of Cationic Peroxidase From Proso Millet and Identification of Its Phosphatase Active Sites


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystallization of Cationic Peroxidase From Proso Millet and Identification of Its Phosphatase Active Sites within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na404

b:9.9
occ:1.00
O A:VAL59 2.4 12.3 1.0
OD1 A:ASP56 2.4 8.1 1.0
OG A:SER65 2.6 10.1 1.0
OD1 A:ASP63 2.6 10.3 1.0
O A:ASP56 2.6 9.4 1.0
O A:GLY61 2.6 30.0 1.0
CG A:ASP56 3.2 9.1 1.0
C A:ASP56 3.4 10.8 1.0
C A:VAL59 3.5 14.8 1.0
CG A:ASP63 3.5 13.1 1.0
CB A:SER65 3.6 8.9 1.0
N A:SER65 3.7 8.9 1.0
C A:GLY61 3.7 30.0 1.0
N A:GLY61 3.8 30.0 1.0
OD2 A:ASP56 3.8 10.7 1.0
CA A:ASP56 3.9 10.0 1.0
N A:ASP63 4.0 9.2 1.0
OD2 A:ASP63 4.1 13.1 1.0
CB A:ASP56 4.2 6.8 1.0
CA A:SER65 4.2 9.4 1.0
CB A:GLN60 4.3 19.5 1.0
N A:ALA64 4.3 8.6 1.0
N A:VAL66 4.4 10.4 1.0
C A:GLN60 4.4 22.4 1.0
CA A:GLY61 4.4 30.0 1.0
N A:GLN60 4.4 12.6 1.0
CA A:VAL59 4.5 10.7 1.0
CA A:GLN60 4.5 17.9 1.0
N A:CYS57 4.5 8.3 1.0
OE1 A:GLN60 4.5 27.0 1.0
CA A:ASP63 4.6 9.3 1.0
C A:ASP63 4.6 9.6 1.0
CB A:VAL59 4.6 11.4 1.0
CG1 A:VAL66 4.6 14.2 1.0
CB A:ASP63 4.6 10.9 1.0
N A:VAL59 4.6 10.4 1.0
N A:CYS62 4.7 6.3 1.0
C A:ALA64 4.7 10.9 1.0
C A:SER65 4.8 11.4 1.0
CA A:CYS62 4.9 9.4 1.0
CA A:CYS57 4.9 12.6 1.0
CG1 A:VAL59 4.9 18.3 1.0
CA A:ALA64 5.0 8.5 1.0
C A:CYS62 5.0 8.4 1.0

Reference:

X.D.Cui, T.F.Wang. Crystallization of Cationic Peroxidase From Proso Millet and Identification of Its Phosphatase Active Sites To Be Published.
Page generated: Fri Dec 17 11:18:04 2021

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