Atomistry » Copper » PDB 3qjq-3t6v » 3s0p
Atomistry »
  Copper »
    PDB 3qjq-3t6v »
      3s0p »

Copper in PDB 3s0p: Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase

Enzymatic activity of Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase

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

Protein crystallography data

The structure of Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase, PDB code: 3s0p was solved by A.Galaleldeen, A.B.Taylor, P.J.Hart, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.72 / 3.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 66.866, 105.329, 69.660, 90.00, 96.43, 90.00
R / Rfree (%) 20.4 / 24.9

Copper Binding Sites:

The binding sites of Copper atom in the Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase (pdb code 3s0p). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 8 binding sites of Copper where determined in the Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase, PDB code: 3s0p:
Jump to Copper binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Copper binding site 1 out of 8 in 3s0p

Go back to Copper Binding Sites List in 3s0p
Copper binding site 1 out of 8 in the Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu155

b:37.8
occ:1.00
NE2 A:HIS48 2.2 33.6 1.0
ND1 A:HIS46 2.3 39.3 1.0
CE1 A:HIS120 2.4 30.8 1.0
NE2 A:HIS120 2.8 32.4 1.0
CE1 A:HIS48 3.0 31.0 1.0
CG A:HIS46 3.0 30.4 1.0
CB A:HIS46 3.0 26.5 1.0
CD2 A:HIS48 3.3 33.4 1.0
ND1 A:HIS120 3.4 33.0 1.0
CE1 A:HIS46 3.5 43.6 1.0
CE1 A:HIS63 3.6 62.9 1.0
NE2 A:HIS63 3.7 60.9 1.0
CD2 A:HIS120 4.0 32.2 1.0
ND1 A:HIS48 4.1 26.3 1.0
CD2 A:HIS46 4.3 35.2 1.0
CG A:HIS120 4.3 32.7 1.0
CG A:HIS48 4.3 25.4 1.0
CB A:VAL118 4.4 20.9 1.0
CG1 A:VAL118 4.4 15.8 1.0
ND1 A:HIS63 4.4 62.3 1.0
CA A:HIS46 4.4 26.7 1.0
NE2 A:HIS46 4.4 46.9 1.0
CD2 A:HIS63 4.5 54.4 1.0
N A:HIS46 4.8 22.9 1.0
CG A:HIS63 4.9 47.1 1.0
O A:VAL118 4.9 24.5 1.0

Copper binding site 2 out of 8 in 3s0p

Go back to Copper Binding Sites List in 3s0p
Copper binding site 2 out of 8 in the Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cu155

b:43.8
occ:1.00
NE2 B:HIS48 2.1 37.2 1.0
CE1 B:HIS120 2.3 26.2 1.0
ND1 B:HIS46 2.4 40.6 1.0
NE2 B:HIS120 2.8 39.0 1.0
CE1 B:HIS48 3.0 37.6 1.0
CG B:HIS46 3.0 33.2 1.0
CB B:HIS46 3.1 32.8 1.0
CD2 B:HIS48 3.3 32.4 1.0
ND1 B:HIS120 3.4 31.4 1.0
CE1 B:HIS46 3.5 45.3 1.0
CE1 B:HIS63 3.7 52.5 1.0
NE2 B:HIS63 3.7 57.2 1.0
CD2 B:HIS120 4.0 30.4 1.0
ND1 B:HIS48 4.1 31.6 1.0
CG B:HIS120 4.3 29.6 1.0
CD2 B:HIS46 4.3 33.9 1.0
CG B:HIS48 4.3 27.3 1.0
CB B:VAL118 4.3 19.5 1.0
CG1 B:VAL118 4.4 16.2 1.0
CA B:HIS46 4.4 27.7 1.0
ND1 B:HIS63 4.5 50.9 1.0
NE2 B:HIS46 4.5 43.1 1.0
CD2 B:HIS63 4.5 65.0 1.0
O B:VAL118 4.7 26.8 1.0
N B:HIS46 4.8 27.4 1.0
CG B:HIS63 4.9 47.6 1.0

Copper binding site 3 out of 8 in 3s0p

Go back to Copper Binding Sites List in 3s0p
Copper binding site 3 out of 8 in the Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 3 of Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Cu155

b:50.8
occ:1.00
NE2 C:HIS48 2.2 38.5 1.0
ND1 C:HIS46 2.3 37.3 1.0
CE1 C:HIS120 2.4 29.5 1.0
NE2 C:HIS120 2.9 33.3 1.0
CG C:HIS46 3.0 32.3 1.0
CE1 C:HIS48 3.0 30.8 1.0
CB C:HIS46 3.0 26.5 1.0
CD2 C:HIS48 3.3 34.9 1.0
CE1 C:HIS46 3.4 42.2 1.0
ND1 C:HIS120 3.5 32.3 1.0
NE2 C:HIS63 3.5 60.3 1.0
CE1 C:HIS63 3.6 57.6 1.0
CD2 C:HIS120 4.1 31.5 1.0
ND1 C:HIS48 4.1 29.5 1.0
CD2 C:HIS46 4.2 36.0 1.0
ND1 C:HIS63 4.3 64.0 1.0
CD2 C:HIS63 4.3 64.3 1.0
CG C:HIS48 4.3 26.4 1.0
CG C:HIS120 4.4 30.1 1.0
NE2 C:HIS46 4.4 42.4 1.0
CA C:HIS46 4.4 26.8 1.0
CB C:VAL118 4.5 21.1 1.0
CG1 C:VAL118 4.6 15.6 1.0
CG C:HIS63 4.7 56.2 1.0
N C:HIS46 4.9 26.9 1.0
O C:VAL118 5.0 33.3 1.0

Copper binding site 4 out of 8 in 3s0p

Go back to Copper Binding Sites List in 3s0p
Copper binding site 4 out of 8 in the Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 4 of Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Cu155

b:50.7
occ:1.00
NE2 D:HIS48 2.2 30.1 1.0
ND1 D:HIS46 2.3 36.1 1.0
CE1 D:HIS120 2.4 26.9 1.0
NE2 D:HIS120 2.8 35.8 1.0
CE1 D:HIS48 3.0 30.2 1.0
CG D:HIS46 3.0 31.6 1.0
CB D:HIS46 3.1 31.0 1.0
CD2 D:HIS48 3.3 30.2 1.0
CE1 D:HIS46 3.4 41.6 1.0
ND1 D:HIS120 3.4 28.1 1.0
NE2 D:HIS63 3.6 52.3 1.0
CE1 D:HIS63 3.7 52.6 1.0
CD2 D:HIS120 4.0 36.0 1.0
ND1 D:HIS48 4.1 27.8 1.0
CD2 D:HIS46 4.2 35.6 1.0
CG D:HIS120 4.3 29.4 1.0
CG D:HIS48 4.3 28.8 1.0
CD2 D:HIS63 4.4 69.5 1.0
NE2 D:HIS46 4.4 46.6 1.0
CG1 D:VAL118 4.5 15.4 1.0
ND1 D:HIS63 4.5 56.4 1.0
CB D:VAL118 4.5 19.9 1.0
CA D:HIS46 4.5 30.5 1.0
N D:HIS46 4.8 25.8 1.0
CG D:HIS63 4.9 54.0 1.0
O D:VAL118 5.0 34.5 1.0

Copper binding site 5 out of 8 in 3s0p

Go back to Copper Binding Sites List in 3s0p
Copper binding site 5 out of 8 in the Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 5 of Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Cu155

b:48.0
occ:1.00
NE2 E:HIS48 2.2 34.3 1.0
CE1 E:HIS120 2.4 25.1 1.0
ND1 E:HIS46 2.4 38.2 1.0
NE2 E:HIS120 2.7 31.4 1.0
CE1 E:HIS48 2.8 37.5 1.0
CG E:HIS46 3.2 30.3 1.0
CB E:HIS46 3.3 25.9 1.0
NE2 E:HIS63 3.4 57.1 1.0
CD2 E:HIS48 3.4 32.4 1.0
CE1 E:HIS46 3.5 43.3 1.0
ND1 E:HIS120 3.5 28.4 1.0
CE1 E:HIS63 3.5 51.0 1.0
CD2 E:HIS120 3.9 28.5 1.0
ND1 E:HIS48 4.1 23.3 1.0
CD2 E:HIS63 4.2 62.4 1.0
CG E:HIS120 4.3 30.6 1.0
ND1 E:HIS63 4.4 55.4 1.0
CD2 E:HIS46 4.4 34.1 1.0
CG E:HIS48 4.4 25.6 1.0
NE2 E:HIS46 4.5 49.3 1.0
CG1 E:VAL118 4.6 14.9 1.0
CB E:VAL118 4.6 18.1 1.0
CA E:HIS46 4.7 26.5 1.0
CG E:HIS63 4.8 47.0 1.0

Copper binding site 6 out of 8 in 3s0p

Go back to Copper Binding Sites List in 3s0p
Copper binding site 6 out of 8 in the Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 6 of Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Cu155

b:50.3
occ:1.00
NE2 F:HIS48 2.2 34.0 1.0
CE1 F:HIS120 2.2 24.6 1.0
ND1 F:HIS46 2.3 34.8 1.0
NE2 F:HIS120 2.7 29.8 1.0
CG F:HIS46 3.0 32.0 1.0
CB F:HIS46 3.0 32.7 1.0
CE1 F:HIS48 3.0 33.4 1.0
CD2 F:HIS48 3.3 36.4 1.0
ND1 F:HIS120 3.3 33.5 1.0
CE1 F:HIS46 3.4 38.4 1.0
NE2 F:HIS63 3.7 61.0 1.0
CE1 F:HIS63 3.7 52.6 1.0
CD2 F:HIS120 3.9 32.5 1.0
CG F:HIS120 4.2 30.8 1.0
ND1 F:HIS48 4.2 28.9 1.0
CD2 F:HIS46 4.2 34.6 1.0
CG1 F:VAL118 4.3 15.4 1.0
CG F:HIS48 4.4 26.7 1.0
NE2 F:HIS46 4.4 42.9 1.0
CB F:VAL118 4.4 21.0 1.0
CA F:HIS46 4.4 26.8 1.0
ND1 F:HIS63 4.5 55.1 1.0
CD2 F:HIS63 4.5 62.6 1.0
N F:HIS46 4.8 25.1 1.0
O F:VAL118 4.8 29.9 1.0
CG F:HIS63 5.0 52.7 1.0
C F:HIS46 5.0 25.5 1.0

Copper binding site 7 out of 8 in 3s0p

Go back to Copper Binding Sites List in 3s0p
Copper binding site 7 out of 8 in the Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 7 of Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Cu155

b:51.8
occ:1.00
CE1 G:HIS120 2.0 29.7 1.0
NE2 G:HIS48 2.3 37.7 1.0
ND1 G:HIS46 2.3 37.7 1.0
NE2 G:HIS120 2.7 37.8 1.0
CG G:HIS46 3.1 29.4 1.0
ND1 G:HIS120 3.1 34.3 1.0
CE1 G:HIS48 3.1 35.4 1.0
CB G:HIS46 3.2 33.3 1.0
CD2 G:HIS48 3.4 33.9 1.0
CE1 G:HIS46 3.4 43.0 1.0
NE2 G:HIS63 3.8 57.5 1.0
CE1 G:HIS63 3.8 57.9 1.0
CD2 G:HIS120 3.9 27.7 1.0
CG G:HIS120 4.1 27.6 1.0
ND1 G:HIS48 4.3 30.9 1.0
CD2 G:HIS46 4.3 31.6 1.0
CB G:VAL118 4.3 19.4 1.0
CG1 G:VAL118 4.3 15.0 1.0
NE2 G:HIS46 4.4 50.2 1.0
CG G:HIS48 4.5 26.4 1.0
CA G:HIS46 4.5 30.8 1.0
ND1 G:HIS63 4.7 65.0 1.0
CD2 G:HIS63 4.7 63.4 1.0
N G:HIS46 4.7 28.4 1.0
O G:VAL118 4.8 30.8 1.0

Copper binding site 8 out of 8 in 3s0p

Go back to Copper Binding Sites List in 3s0p
Copper binding site 8 out of 8 in the Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 8 of Copper-Reconstituted Tomato Chloroplast Superoxide Dismutase within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Cu155

b:43.9
occ:1.00
NE2 H:HIS48 2.2 29.0 1.0
CE1 H:HIS120 2.3 28.4 1.0
ND1 H:HIS46 2.3 37.3 1.0
NE2 H:HIS120 2.7 36.5 1.0
CE1 H:HIS48 2.9 32.4 1.0
CG H:HIS46 3.1 29.9 1.0
CB H:HIS46 3.1 29.1 1.0
CD2 H:HIS48 3.4 35.6 1.0
ND1 H:HIS120 3.4 27.6 1.0
CE1 H:HIS46 3.5 38.4 1.0
NE2 H:HIS63 3.5 56.6 1.0
CE1 H:HIS63 3.6 56.6 1.0
CD2 H:HIS120 3.9 33.2 1.0
ND1 H:HIS48 4.1 26.9 1.0
CG H:HIS120 4.3 31.1 1.0
CD2 H:HIS46 4.3 32.0 1.0
CD2 H:HIS63 4.3 68.6 1.0
CG H:HIS48 4.4 26.4 1.0
ND1 H:HIS63 4.4 63.4 1.0
NE2 H:HIS46 4.4 39.4 1.0
CG1 H:VAL118 4.5 14.7 1.0
CB H:VAL118 4.5 16.7 1.0
CA H:HIS46 4.6 28.8 1.0
CG H:HIS63 4.8 56.5 1.0

Reference:

A.Galaleldeen, A.B.Taylor, P.J.Hart. Biophysical Properties of Tomato Chloroplast Sod To Be Published.
Page generated: Wed Jul 31 01:39:24 2024

Last articles

Ca in 5XYR
Ca in 5XYA
Ca in 5XVZ
Ca in 5XWJ
Ca in 5XWL
Ca in 5XWK
Ca in 5XWI
Ca in 5XWA
Ca in 5XW9
Ca in 5XW8
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy