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Zinc in PDB 3km1: Zinc-Reconstituted Tomato Chloroplast Superoxide Dismutase

Enzymatic activity of Zinc-Reconstituted Tomato Chloroplast Superoxide Dismutase

All present enzymatic activity of Zinc-Reconstituted Tomato Chloroplast Superoxide Dismutase:
1.15.1.1;

Protein crystallography data

The structure of Zinc-Reconstituted Tomato Chloroplast Superoxide Dismutase, PDB code: 3km1 was solved by A.Galaleldeen, A.B.Taylor, S.T.Thomas, P.J.Hart, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.94 / 2.00
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 65.574, 104.832, 35.818, 90.00, 90.00, 90.00
R / Rfree (%) 20.6 / 26.4

Zinc Binding Sites:

The binding sites of Zinc atom in the Zinc-Reconstituted Tomato Chloroplast Superoxide Dismutase (pdb code 3km1). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Zinc-Reconstituted Tomato Chloroplast Superoxide Dismutase, PDB code: 3km1:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3km1

Go back to Zinc Binding Sites List in 3km1
Zinc binding site 1 out of 2 in the Zinc-Reconstituted Tomato Chloroplast Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Zinc-Reconstituted Tomato Chloroplast Superoxide Dismutase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn155

b:29.8
occ:1.00
NE2 A:HIS48 2.2 26.2 1.0
NE2 A:HIS120 2.2 21.6 1.0
ND1 A:HIS46 2.2 27.2 1.0
O2 A:GOL156 2.6 33.7 1.0
CD2 A:HIS120 3.0 24.6 1.0
CE1 A:HIS48 3.0 26.0 1.0
CG A:HIS46 3.2 25.8 1.0
CE1 A:HIS46 3.2 27.2 1.0
CD2 A:HIS48 3.2 22.6 1.0
CE1 A:HIS120 3.2 30.1 1.0
CB A:HIS46 3.4 25.3 1.0
O A:HOH165 3.5 38.9 1.0
C2 A:GOL156 4.0 46.6 1.0
ND1 A:HIS48 4.2 26.0 1.0
CG A:HIS120 4.2 24.9 1.0
ND1 A:HIS120 4.3 30.0 1.0
NE2 A:HIS46 4.3 27.5 1.0
CD2 A:HIS46 4.3 25.6 1.0
CG A:HIS48 4.3 25.0 1.0
CB A:HIS63 4.5 35.5 1.0
O1 A:GOL156 4.6 36.5 1.0
O3 A:GOL156 4.8 49.0 1.0
CG1 A:VAL118 4.8 22.1 1.0
C1 A:GOL156 4.9 48.8 1.0
CB A:VAL118 4.9 21.7 1.0
CA A:HIS46 4.9 23.2 1.0
C3 A:GOL156 5.0 46.5 1.0
O A:HOH169 5.0 48.1 1.0

Zinc binding site 2 out of 2 in 3km1

Go back to Zinc Binding Sites List in 3km1
Zinc binding site 2 out of 2 in the Zinc-Reconstituted Tomato Chloroplast Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Zinc-Reconstituted Tomato Chloroplast Superoxide Dismutase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn155

b:34.0
occ:1.00
NE2 B:HIS48 2.2 26.2 1.0
NE2 B:HIS120 2.2 25.2 1.0
ND1 B:HIS46 2.2 28.2 1.0
O2 B:GOL156 2.5 35.3 1.0
CD2 B:HIS120 2.9 26.1 1.0
CE1 B:HIS48 3.0 27.8 1.0
CG B:HIS46 3.2 26.4 1.0
CE1 B:HIS46 3.2 31.1 1.0
CE1 B:HIS120 3.3 33.8 1.0
CD2 B:HIS48 3.3 23.5 1.0
CB B:HIS46 3.4 26.5 1.0
C2 B:GOL156 3.9 51.1 1.0
CG B:HIS120 4.1 26.6 1.0
ND1 B:HIS48 4.2 24.1 1.0
ND1 B:HIS120 4.3 33.7 1.0
NE2 B:HIS46 4.3 31.5 1.0
CD2 B:HIS46 4.3 30.6 1.0
CG B:HIS48 4.3 26.1 1.0
C3 B:GOL156 4.6 45.9 1.0
O1 B:GOL156 4.7 49.5 1.0
O B:HOH162 4.8 43.0 1.0
C1 B:GOL156 4.8 50.2 1.0
CB B:HIS63 4.8 33.0 1.0
CA B:HIS46 4.9 26.0 1.0
CG1 B:VAL118 4.9 24.9 1.0
CB B:VAL118 4.9 22.4 1.0

Reference:

A.Galaleldeen, A.B.Taylor, S.T.Thomas, P.J.Jart. Biophysical Properties of Tomato Chloroplast Sod To Be Published.
Page generated: Wed Dec 16 04:30:22 2020

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