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Nickel in PDB 1t6u: Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure

Enzymatic activity of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure

All present enzymatic activity of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure:
1.15.1.1;

Protein crystallography data

The structure of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure, PDB code: 1t6u was solved by D.P.Barondeau, C.J.Kassmann, C.K.Bruns, J.A.Tainer, E.D.Getzoff, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.30
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 64.147, 111.680, 106.834, 90.00, 94.51, 90.00
R / Rfree (%) 15.8 / 20.1

Nickel Binding Sites:

The binding sites of Nickel atom in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure (pdb code 1t6u). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 12 binding sites of Nickel where determined in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure, PDB code: 1t6u:
Jump to Nickel binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10; 11; 12;

Nickel binding site 1 out of 12 in 1t6u

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Nickel binding site 1 out of 12 in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ni201

b:9.3
occ:1.00
N A:HIS1 1.9 11.0 0.4
N A:HIS1 1.9 10.6 0.6
N A:CYS2 1.9 10.4 1.0
SG A:CYS2 2.2 13.2 1.0
SG A:CYS6 2.2 11.9 1.0
ND1 A:HIS1 2.3 14.6 0.6
C A:HIS1 2.8 11.1 1.0
CA A:HIS1 2.8 11.4 0.6
CA A:HIS1 2.8 10.4 0.4
CA A:CYS2 2.9 10.5 1.0
CB A:CYS2 3.0 11.3 1.0
CE1 A:HIS1 3.2 16.9 0.6
CG A:HIS1 3.3 13.3 0.6
CB A:CYS6 3.4 11.2 1.0
CB A:HIS1 3.6 10.9 0.6
N A:ASP3 3.7 9.9 1.0
CG A:HIS1 3.8 10.0 0.4
C A:CYS2 3.8 9.3 1.0
O A:HOH2746 3.8 17.2 1.0
CB A:HIS1 3.8 9.2 0.4
N A:CYS6 3.9 13.1 1.0
O A:HIS1 4.0 12.7 1.0
ND1 A:HIS1 4.0 11.7 0.4
O A:HOH2671 4.1 21.9 1.0
CA A:CYS6 4.2 11.9 1.0
O A:VAL8 4.2 11.4 1.0
CD2 A:HIS1 4.3 11.8 0.4
NE2 A:HIS1 4.4 12.6 0.6
CD2 A:HIS1 4.5 13.0 0.6
CE1 A:HIS1 4.6 10.5 0.4
NE2 A:HIS1 4.7 11.7 0.4
O A:CYS2 4.8 11.5 1.0
N A:LEU4 4.9 12.6 1.0
C A:CYS6 4.9 11.8 1.0
N A:GLY7 4.9 13.1 1.0
CB D:SER20 4.9 13.6 1.0
N A:VAL8 5.0 10.9 1.0

Nickel binding site 2 out of 12 in 1t6u

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Nickel binding site 2 out of 12 in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ni202

b:9.7
occ:1.00
N B:CYS2 1.9 12.3 1.0
N B:HIS1 2.0 11.7 0.5
N B:HIS1 2.0 12.9 0.6
SG B:CYS2 2.2 13.1 1.0
SG B:CYS6 2.2 12.7 1.0
ND1 B:HIS1 2.4 13.1 0.6
C B:HIS1 2.8 13.7 1.0
CA B:HIS1 2.8 12.4 0.6
CA B:HIS1 2.9 11.8 0.5
CA B:CYS2 2.9 11.6 1.0
CB B:CYS2 3.0 12.1 1.0
CE1 B:HIS1 3.3 13.7 0.6
CB B:CYS6 3.4 13.2 1.0
CG B:HIS1 3.4 12.5 0.6
O B:HOH2745 3.6 16.1 1.0
CB B:HIS1 3.6 11.2 0.6
N B:ASP3 3.7 11.2 1.0
C B:CYS2 3.7 11.4 1.0
CG B:HIS1 3.8 11.1 0.5
CB B:HIS1 3.9 11.6 0.5
N B:CYS6 3.9 13.8 1.0
O B:HIS1 3.9 11.7 1.0
O B:HOH1541 4.0 26.3 1.0
ND1 B:HIS1 4.0 14.3 0.5
O B:VAL8 4.2 13.6 1.0
CD2 B:HIS1 4.2 13.3 0.5
CA B:CYS6 4.3 12.8 1.0
NE2 B:HIS1 4.5 15.9 0.6
CD2 B:HIS1 4.5 14.6 0.6
CE1 B:HIS1 4.6 15.7 0.5
NE2 B:HIS1 4.7 16.1 0.5
O B:CYS2 4.8 12.6 1.0
N B:LEU4 4.9 10.8 1.0
C B:CYS6 4.9 11.9 1.0
N B:GLY7 4.9 12.3 1.0
N B:VAL8 5.0 11.1 1.0

Nickel binding site 3 out of 12 in 1t6u

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Nickel binding site 3 out of 12 in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 3 of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ni203

b:8.6
occ:1.00
N C:HIS1 1.8 9.0 0.5
N C:CYS2 1.9 10.2 1.0
N C:HIS1 2.0 11.1 0.5
SG C:CYS2 2.2 12.7 1.0
SG C:CYS6 2.2 11.8 1.0
ND1 C:HIS1 2.3 14.5 0.5
C C:HIS1 2.8 10.7 1.0
CA C:HIS1 2.8 10.5 0.5
CA C:HIS1 2.8 11.1 0.5
CA C:CYS2 2.9 9.9 1.0
CB C:CYS2 2.9 12.3 1.0
CE1 C:HIS1 3.2 15.3 0.5
CG C:HIS1 3.3 10.9 0.5
CB C:CYS6 3.4 10.2 1.0
CB C:HIS1 3.6 11.6 0.5
CG C:HIS1 3.7 10.4 0.5
N C:ASP3 3.7 11.3 1.0
C C:CYS2 3.7 9.9 1.0
CB C:HIS1 3.8 11.3 0.5
O C:HOH2778 3.8 9.1 1.0
CD2 C:HIS1 3.9 11.6 0.5
O C:HIS1 3.9 11.9 1.0
N C:CYS6 4.0 11.5 1.0
O C:HOH1589 4.1 16.8 1.0
O C:VAL8 4.2 11.8 1.0
CA C:CYS6 4.3 11.0 1.0
ND1 C:HIS1 4.3 15.2 0.5
NE2 C:HIS1 4.3 14.9 0.5
CD2 C:HIS1 4.4 13.0 0.5
NE2 C:HIS1 4.6 13.7 0.5
CE1 C:HIS1 4.7 15.8 0.5
O C:CYS2 4.8 11.9 1.0
N C:GLY7 4.9 12.3 1.0
N C:LEU4 4.9 10.4 1.0
C C:CYS6 4.9 12.7 1.0
CB E:SER20 4.9 12.5 1.0
N C:VAL8 5.0 11.2 1.0

Nickel binding site 4 out of 12 in 1t6u

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Nickel binding site 4 out of 12 in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 4 of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ni204

b:7.5
occ:1.00
N D:CYS2 1.9 7.9 1.0
N D:HIS1 1.9 8.2 0.5
N D:HIS1 2.0 8.2 0.5
SG D:CYS2 2.1 12.2 1.0
SG D:CYS6 2.2 9.9 1.0
ND1 D:HIS1 2.4 11.0 0.5
C D:HIS1 2.8 9.6 1.0
CA D:HIS1 2.8 7.7 0.5
CA D:HIS1 2.8 6.9 0.5
CA D:CYS2 2.9 8.5 1.0
CB D:CYS2 2.9 9.9 1.0
CE1 D:HIS1 3.3 13.2 0.5
CB D:CYS6 3.4 10.9 1.0
CG D:HIS1 3.4 10.2 0.5
CB D:HIS1 3.6 9.9 0.5
O D:HOH2929 3.7 11.5 1.0
N D:ASP3 3.7 8.9 1.0
C D:CYS2 3.7 8.4 1.0
CG D:HIS1 3.8 9.2 0.5
CB D:HIS1 3.9 9.2 0.5
CD2 D:HIS1 3.9 12.4 0.5
N D:CYS6 3.9 10.5 1.0
O D:HIS1 4.0 9.9 1.0
O D:HOH1001 4.2 17.2 1.0
CA D:CYS6 4.2 11.1 1.0
O D:VAL8 4.2 10.6 1.0
ND1 D:HIS1 4.3 13.2 0.5
NE2 D:HIS1 4.5 13.7 0.5
CD2 D:HIS1 4.5 12.1 0.5
NE2 D:HIS1 4.5 13.6 0.5
CE1 D:HIS1 4.8 14.3 0.5
O D:CYS2 4.8 9.7 1.0
CB A:SER20 4.8 12.7 1.0
N D:LEU4 4.9 8.8 1.0
C D:CYS6 4.9 11.1 1.0
N D:GLY7 4.9 10.9 1.0
N D:VAL8 5.0 9.8 1.0

Nickel binding site 5 out of 12 in 1t6u

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Nickel binding site 5 out of 12 in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 5 of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Ni205

b:7.4
occ:1.00
N E:HIS1 1.9 9.9 0.5
N E:CYS2 1.9 8.4 1.0
N E:HIS1 2.0 8.4 0.5
SG E:CYS2 2.2 11.4 1.0
SG E:CYS6 2.2 9.7 1.0
ND1 E:HIS1 2.4 10.9 0.5
C E:HIS1 2.8 9.3 1.0
CA E:HIS1 2.8 8.7 0.5
CA E:HIS1 2.8 9.4 0.5
CA E:CYS2 3.0 8.5 1.0
CB E:CYS2 3.0 9.7 1.0
CE1 E:HIS1 3.3 12.0 0.5
CB E:CYS6 3.4 10.1 1.0
CG E:HIS1 3.4 9.4 0.5
CB E:HIS1 3.6 8.8 0.5
N E:ASP3 3.7 8.3 1.0
CG E:HIS1 3.7 9.9 0.5
C E:CYS2 3.8 8.9 1.0
O E:HOH2930 3.8 12.7 1.0
CB E:HIS1 3.8 9.2 0.5
N E:CYS6 4.0 9.8 1.0
O E:HIS1 4.0 9.8 1.0
ND1 E:HIS1 4.0 12.2 0.5
O E:HOH1709 4.1 20.0 1.0
CD2 E:HIS1 4.2 10.9 0.5
CA E:CYS6 4.2 10.9 1.0
O E:VAL8 4.3 11.3 1.0
NE2 E:HIS1 4.5 11.5 0.5
CE1 E:HIS1 4.5 10.6 0.5
CD2 E:HIS1 4.6 10.5 0.5
NE2 E:HIS1 4.6 11.6 0.5
O E:CYS2 4.8 10.5 1.0
N E:GLY7 4.8 10.8 1.0
C E:CYS6 4.9 11.1 1.0
N E:LEU4 4.9 9.4 1.0
N E:VAL8 5.0 9.5 1.0
CB C:SER20 5.0 12.8 1.0

Nickel binding site 6 out of 12 in 1t6u

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Nickel binding site 6 out of 12 in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 6 of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Ni206

b:9.9
occ:1.00
N F:HIS1 1.9 11.8 0.6
N F:CYS2 1.9 11.7 1.0
N F:HIS1 2.1 11.8 0.4
SG F:CYS2 2.1 14.4 1.0
SG F:CYS6 2.2 13.9 1.0
ND1 F:HIS1 2.3 18.1 0.4
C F:HIS1 2.8 11.7 1.0
CA F:HIS1 2.9 11.3 0.6
CA F:HIS1 2.9 11.5 0.4
CA F:CYS2 2.9 11.8 1.0
CB F:CYS2 2.9 13.2 1.0
CE1 F:HIS1 3.2 16.4 0.4
CG F:HIS1 3.3 12.1 0.4
CB F:CYS6 3.4 12.1 1.0
CB F:HIS1 3.6 11.6 0.4
O F:HOH2822 3.7 23.9 1.0
C F:CYS2 3.7 9.8 1.0
N F:ASP3 3.7 9.8 1.0
CG F:HIS1 3.8 11.9 0.6
CB F:HIS1 3.8 11.6 0.6
N F:CYS6 4.0 14.2 1.0
O F:HIS1 4.0 11.9 1.0
O F:HOH2823 4.0 26.6 1.0
ND1 F:HIS1 4.0 14.9 0.6
O F:VAL8 4.2 14.5 1.0
CA F:CYS6 4.2 13.4 1.0
CD2 F:HIS1 4.3 13.9 0.6
NE2 F:HIS1 4.4 13.1 0.4
CD2 F:HIS1 4.4 13.0 0.4
CE1 F:HIS1 4.6 13.3 0.6
O F:CYS2 4.8 12.3 1.0
NE2 F:HIS1 4.8 15.5 0.6
N F:LEU4 4.9 11.2 1.0
C F:CYS6 4.9 15.5 1.0
N F:GLY7 5.0 18.0 1.0
CB B:SER20 5.0 16.3 1.0

Nickel binding site 7 out of 12 in 1t6u

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Nickel binding site 7 out of 12 in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 7 of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Ni207

b:7.4
occ:1.00
N G:HIS1 1.9 6.5 0.4
N G:CYS2 1.9 9.4 1.0
N G:HIS1 2.0 10.2 0.6
SG G:CYS2 2.2 11.0 1.0
SG G:CYS6 2.2 11.2 1.0
ND1 G:HIS1 2.3 13.1 0.6
C G:HIS1 2.8 9.7 1.0
CA G:HIS1 2.8 8.3 0.4
CA G:HIS1 2.8 9.3 0.6
CA G:CYS2 2.9 8.3 1.0
CB G:CYS2 3.0 11.0 1.0
CE1 G:HIS1 3.2 11.9 0.6
CG G:HIS1 3.3 11.4 0.6
CB G:CYS6 3.4 11.0 1.0
CB G:HIS1 3.6 10.0 0.6
O G:HOH2843 3.6 15.7 1.0
N G:ASP3 3.7 9.2 1.0
C G:CYS2 3.7 8.4 1.0
CG G:HIS1 3.8 9.6 0.4
CB G:HIS1 3.8 9.7 0.4
O G:HIS1 4.0 10.9 1.0
N G:CYS6 4.0 12.3 1.0
O G:HOH2259 4.1 23.8 1.0
ND1 G:HIS1 4.1 13.4 0.4
CD2 G:HIS1 4.2 13.1 0.4
O G:VAL8 4.2 10.9 1.0
CA G:CYS6 4.3 10.4 1.0
NE2 G:HIS1 4.3 14.5 0.6
CD2 G:HIS1 4.4 12.6 0.6
CE1 G:HIS1 4.7 11.1 0.4
NE2 G:HIS1 4.7 11.9 0.4
O G:CYS2 4.8 10.0 1.0
N G:LEU4 4.9 9.2 1.0
N G:GLY7 4.9 10.2 1.0
C G:CYS6 4.9 9.7 1.0
N G:VAL8 5.0 10.0 1.0
CB J:SER20 5.0 12.9 1.0
CA G:ASP3 5.0 8.8 1.0

Nickel binding site 8 out of 12 in 1t6u

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Nickel binding site 8 out of 12 in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 8 of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Ni208

b:8.5
occ:1.00
N H:HIS1 1.8 12.0 0.5
N H:CYS2 1.9 10.3 1.0
N H:HIS1 2.0 11.7 0.5
SG H:CYS6 2.1 11.1 1.0
SG H:CYS2 2.2 12.2 1.0
ND1 H:HIS1 2.4 12.9 0.5
CA H:HIS1 2.8 10.5 0.5
C H:HIS1 2.8 11.1 1.0
CA H:HIS1 2.9 11.1 0.5
CA H:CYS2 2.9 10.5 1.0
CB H:CYS2 3.0 10.8 1.0
CB H:CYS6 3.3 12.0 1.0
CE1 H:HIS1 3.3 13.5 0.5
CG H:HIS1 3.4 12.7 0.5
CB H:HIS1 3.6 11.8 0.5
O H:HOH2867 3.7 16.2 1.0
CG H:HIS1 3.7 12.8 0.5
N H:ASP3 3.7 8.7 1.0
C H:CYS2 3.7 9.0 1.0
CB H:HIS1 3.8 13.1 0.5
CD2 H:HIS1 3.8 14.1 0.5
N H:CYS6 4.0 13.5 1.0
O H:HIS1 4.0 11.3 1.0
O H:VAL8 4.2 12.0 1.0
O H:HOH2428 4.2 34.6 1.0
ND1 H:HIS1 4.2 16.3 0.5
CA H:CYS6 4.2 12.2 1.0
NE2 H:HIS1 4.4 14.5 0.5
NE2 H:HIS1 4.5 15.0 0.5
CD2 H:HIS1 4.5 14.8 0.5
CE1 H:HIS1 4.7 15.7 0.5
O H:CYS2 4.8 10.3 1.0
N H:LEU4 4.9 10.2 1.0
N H:GLY7 4.9 12.6 1.0
C H:CYS6 4.9 11.1 1.0

Nickel binding site 9 out of 12 in 1t6u

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Nickel binding site 9 out of 12 in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 9 of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
I:Ni209

b:7.5
occ:1.00
N I:HIS1 1.9 9.0 0.5
N I:HIS1 1.9 10.2 0.5
N I:CYS2 1.9 8.1 1.0
SG I:CYS2 2.2 11.4 1.0
SG I:CYS6 2.2 10.3 1.0
ND1 I:HIS1 2.3 12.7 0.5
C I:HIS1 2.8 8.7 1.0
CA I:HIS1 2.8 10.3 0.5
CA I:HIS1 2.9 10.1 0.5
CA I:CYS2 2.9 9.6 1.0
CB I:CYS2 2.9 9.4 1.0
CE1 I:HIS1 3.2 13.6 0.5
CG I:HIS1 3.3 10.4 0.5
CB I:CYS6 3.4 10.7 1.0
CB I:HIS1 3.6 9.0 0.5
N I:ASP3 3.7 8.9 1.0
C I:CYS2 3.7 8.2 1.0
O I:HOH2894 3.8 14.4 1.0
CG I:HIS1 3.8 9.6 0.5
CB I:HIS1 3.9 9.8 0.5
O I:HIS1 3.9 10.3 1.0
N I:CYS6 4.0 10.4 1.0
O I:HOH2308 4.1 20.8 1.0
ND1 I:HIS1 4.2 12.3 0.5
CD2 I:HIS1 4.2 10.6 0.5
CA I:CYS6 4.2 10.4 1.0
O I:VAL8 4.3 10.2 1.0
NE2 I:HIS1 4.4 12.5 0.5
CD2 I:HIS1 4.4 11.7 0.5
CE1 I:HIS1 4.7 11.4 0.5
NE2 I:HIS1 4.7 12.1 0.5
O I:CYS2 4.8 11.3 1.0
N I:GLY7 4.9 10.7 1.0
C I:CYS6 4.9 10.8 1.0
N I:LEU4 4.9 9.0 1.0
CB K:SER20 4.9 13.7 1.0
N I:VAL8 5.0 10.1 1.0
CA I:ASP3 5.0 8.8 1.0

Nickel binding site 10 out of 12 in 1t6u

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Nickel binding site 10 out of 12 in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 10 of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Ni210

b:9.4
occ:1.00
N J:CYS2 1.9 9.6 1.0
N J:HIS1 1.9 9.8 0.5
SG J:CYS2 2.2 13.3 1.0
SG J:CYS6 2.2 12.1 1.0
N J:HIS1 2.2 13.0 0.5
ND1 J:HIS1 2.4 15.2 0.5
C J:HIS1 2.8 10.5 1.0
CA J:HIS1 2.9 11.1 0.5
CA J:CYS2 2.9 10.5 1.0
CA J:HIS1 3.0 11.4 0.5
CB J:CYS2 3.0 11.4 1.0
CE1 J:HIS1 3.2 12.9 0.5
CB J:CYS6 3.3 12.5 1.0
CG J:HIS1 3.4 12.3 0.5
O J:HOH2932 3.6 19.0 1.0
C J:CYS2 3.7 10.4 1.0
CB J:HIS1 3.7 12.5 0.5
N J:ASP3 3.7 10.5 1.0
CG J:HIS1 3.8 12.2 0.5
CB J:HIS1 3.8 12.4 0.5
N J:CYS6 4.0 13.1 1.0
O J:HIS1 4.0 11.1 1.0
O J:HOH1385 4.1 22.2 1.0
ND1 J:HIS1 4.1 14.8 0.5
O J:VAL8 4.2 12.0 1.0
CA J:CYS6 4.2 13.0 1.0
CD2 J:HIS1 4.2 14.3 0.5
NE2 J:HIS1 4.4 12.4 0.5
CD2 J:HIS1 4.5 13.3 0.5
CE1 J:HIS1 4.7 13.3 0.5
NE2 J:HIS1 4.7 13.6 0.5
O J:CYS2 4.8 12.9 1.0
N J:GLY7 4.9 14.4 1.0
N J:LEU4 4.9 10.7 1.0
C J:CYS6 4.9 12.7 1.0
CB G:SER20 4.9 14.8 1.0
N J:VAL8 5.0 13.2 1.0

Nickel binding site 11 out of 12 in 1t6u

Go back to Nickel Binding Sites List in 1t6u
Nickel binding site 11 out of 12 in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 11 of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
K:Ni211

b:10.1
occ:1.00
N K:HIS1 1.7 12.0 0.5
N K:CYS2 1.8 11.6 1.0
N K:HIS1 2.1 9.3 0.5
SG K:CYS2 2.2 14.6 1.0
SG K:CYS6 2.2 12.8 1.0
ND1 K:HIS1 2.3 14.6 0.5
C K:HIS1 2.7 12.2 1.0
CA K:HIS1 2.7 12.1 0.5
CA K:HIS1 2.9 11.7 0.5
CA K:CYS2 2.9 11.7 1.0
CB K:CYS2 3.0 12.8 1.0
CE1 K:HIS1 3.2 15.8 0.5
CG K:HIS1 3.3 13.1 0.5
CB K:CYS6 3.4 13.4 1.0
CB K:HIS1 3.6 12.3 0.5
CG K:HIS1 3.7 11.2 0.5
O K:HOH2933 3.7 12.1 1.0
N K:ASP3 3.7 12.7 1.0
C K:CYS2 3.7 13.0 1.0
CB K:HIS1 3.8 10.8 0.5
O K:HIS1 3.9 11.6 1.0
CD2 K:HIS1 3.9 13.9 0.5
N K:CYS6 3.9 15.2 1.0
O K:HOH2252 4.2 18.3 1.0
CA K:CYS6 4.2 12.7 1.0
O K:VAL8 4.2 12.3 1.0
OG I:SER20 4.3 33.8 1.0
ND1 K:HIS1 4.3 15.5 0.5
NE2 K:HIS1 4.4 14.8 0.5
CD2 K:HIS1 4.5 13.5 0.5
NE2 K:HIS1 4.5 15.6 0.5
CE1 K:HIS1 4.8 15.7 0.5
O K:CYS2 4.8 12.3 1.0
N K:GLY7 4.9 13.1 1.0
C K:CYS6 4.9 11.8 1.0
N K:LEU4 4.9 10.9 1.0
N K:VAL8 5.0 12.0 1.0

Nickel binding site 12 out of 12 in 1t6u

Go back to Nickel Binding Sites List in 1t6u
Nickel binding site 12 out of 12 in the Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 12 of Nickel Superoxide Dismutase (Nisod) Native 1.30 A Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Ni212

b:8.1
occ:1.00
N L:HIS1 1.9 10.7 0.5
N L:CYS2 1.9 9.1 1.0
N L:HIS1 1.9 11.0 0.5
SG L:CYS2 2.2 12.4 1.0
SG L:CYS6 2.2 11.6 1.0
ND1 L:HIS1 2.4 13.1 0.5
C L:HIS1 2.8 10.8 1.0
CA L:HIS1 2.8 11.0 0.5
CA L:HIS1 2.8 10.0 0.5
CA L:CYS2 2.9 9.8 1.0
CB L:CYS2 3.0 12.0 1.0
CE1 L:HIS1 3.3 15.2 0.5
CB L:CYS6 3.4 9.9 1.0
CG L:HIS1 3.4 11.5 0.5
CB L:HIS1 3.6 10.2 0.5
CG L:HIS1 3.7 11.5 0.5
C L:CYS2 3.7 10.7 1.0
O L:HOH2931 3.7 14.7 1.0
N L:ASP3 3.8 10.1 1.0
CB L:HIS1 3.8 10.3 0.5
N L:CYS6 3.9 11.3 1.0
O L:HIS1 4.0 10.7 1.0
ND1 L:HIS1 4.0 14.5 0.5
CD2 L:HIS1 4.2 12.6 0.5
CA L:CYS6 4.2 11.6 1.0
O L:HOH2592 4.2 19.1 1.0
O L:VAL8 4.2 10.9 1.0
NE2 L:HIS1 4.5 13.6 0.5
CD2 L:HIS1 4.5 12.4 0.5
CE1 L:HIS1 4.5 12.5 0.5
NE2 L:HIS1 4.6 13.3 0.5
O L:CYS2 4.8 11.7 1.0
C L:CYS6 4.9 10.3 1.0
N L:GLY7 4.9 12.0 1.0
N L:LEU4 4.9 11.1 1.0
N L:VAL8 5.0 11.7 1.0

Reference:

D.P.Barondeau, C.J.Kassmann, C.K.Bruns, J.A.Tainer, E.D.Getzoff. Nickel Superoxide Dismutase Structure and Mechanism. Biochemistry V. 43 8038 2004.
ISSN: ISSN 0006-2960
PubMed: 15209499
DOI: 10.1021/BI0496081
Page generated: Fri Sep 25 08:02:05 2020
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