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Zinc in PDB 8q6m: Human SOD1 Low Dose Data Collecton

Enzymatic activity of Human SOD1 Low Dose Data Collecton

All present enzymatic activity of Human SOD1 Low Dose Data Collecton:
1.15.1.1;

Protein crystallography data

The structure of Human SOD1 Low Dose Data Collecton, PDB code: 8q6m was solved by S.V.Antonyuk, A.Hossain, J.N.Agar, S.S.Hasnain, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.34 / 1.77
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 39.26, 68.01, 52.58, 90, 106.28, 90
R / Rfree (%) 20.9 / 25.1

Other elements in 8q6m:

The structure of Human SOD1 Low Dose Data Collecton also contains other interesting chemical elements:

Copper (Cu) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Human SOD1 Low Dose Data Collecton (pdb code 8q6m). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Human SOD1 Low Dose Data Collecton, PDB code: 8q6m:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 8q6m

Go back to Zinc Binding Sites List in 8q6m
Zinc binding site 1 out of 2 in the Human SOD1 Low Dose Data Collecton


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Human SOD1 Low Dose Data Collecton within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn202

b:14.7
occ:1.00
HD1 A:HIS80 1.2 15.4 0.0
HD1 A:HIS63 1.3 17.5 0.0
HD1 A:HIS71 1.4 16.8 0.0
ND1 A:HIS80 2.0 15.9 1.0
OD1 A:ASP83 2.0 13.1 1.0
ND1 A:HIS63 2.1 17.1 1.0
ND1 A:HIS71 2.3 16.0 1.0
CG A:ASP83 2.7 14.2 1.0
OD2 A:ASP83 2.7 13.0 1.0
CE1 A:HIS80 2.8 14.5 1.0
HE1 A:HIS80 3.0 15.0 1.0
HB2 A:HIS80 3.1 15.2 1.0
CE1 A:HIS63 3.1 18.7 1.0
CG A:HIS63 3.1 17.4 1.0
CG A:HIS80 3.1 15.7 1.0
CE1 A:HIS71 3.2 14.6 1.0
HB2 A:HIS71 3.2 16.9 1.0
HB3 A:HIS63 3.2 16.1 1.0
HE1 A:HIS63 3.3 18.0 1.0
HA A:HIS71 3.3 17.1 1.0
CG A:HIS71 3.3 16.3 1.0
HE1 A:HIS71 3.3 15.2 1.0
HB2 A:HIS63 3.3 16.1 1.0
CB A:HIS63 3.4 15.9 1.0
CB A:HIS71 3.6 17.1 1.0
CB A:HIS80 3.6 15.2 1.0
CA A:HIS71 3.9 17.1 1.0
NE2 A:HIS80 4.0 15.4 1.0
H A:HIS80 4.0 15.3 1.0
O A:LYS136 4.0 24.1 1.0
CD2 A:HIS80 4.1 14.6 1.0
HB3 A:HIS80 4.1 15.2 1.0
CB A:ASP83 4.2 14.0 1.0
H A:GLY72 4.2 16.8 1.0
NE2 A:HIS63 4.2 17.3 1.0
CD2 A:HIS63 4.2 17.5 1.0
NE2 A:HIS71 4.3 15.4 1.0
HA A:ASP83 4.4 14.6 1.0
CD2 A:HIS71 4.4 15.4 1.0
HB3 A:HIS71 4.5 17.0 1.0
HB3 A:ASP83 4.6 14.2 1.0
HA A:THR137 4.6 19.3 1.0
HB2 A:ASP83 4.7 14.2 1.0
HE2 A:HIS80 4.7 14.8 0.0
CA A:ASP83 4.7 14.6 1.0
N A:HIS80 4.7 15.8 1.0
CA A:HIS80 4.8 14.9 1.0
N A:GLY72 4.8 17.0 1.0
N A:ASP83 4.9 14.4 1.0
O A:HOH398 4.9 28.5 1.0
C A:HIS71 4.9 16.9 1.0
N A:HIS71 5.0 17.5 1.0
CA A:HIS63 5.0 15.4 1.0
HE2 A:HIS63 5.0 17.9 0.0

Zinc binding site 2 out of 2 in 8q6m

Go back to Zinc Binding Sites List in 8q6m
Zinc binding site 2 out of 2 in the Human SOD1 Low Dose Data Collecton


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Human SOD1 Low Dose Data Collecton within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn201

b:14.9
occ:1.00
HD1 B:HIS63 1.2 17.1 0.0
HD1 B:HIS80 1.3 14.7 0.0
HD1 B:HIS71 1.3 15.5 0.0
OD1 B:ASP83 2.0 15.3 1.0
ND1 B:HIS80 2.1 15.5 1.0
ND1 B:HIS63 2.1 17.4 1.0
ND1 B:HIS71 2.2 14.6 1.0
CE1 B:HIS80 2.8 16.6 1.0
HE1 B:HIS80 2.8 16.0 1.0
CG B:ASP83 2.9 16.1 1.0
CE1 B:HIS71 3.0 16.1 1.0
HE1 B:HIS71 3.1 15.6 1.0
OD2 B:ASP83 3.1 18.1 1.0
CE1 B:HIS63 3.1 18.6 1.0
CG B:HIS63 3.1 15.6 1.0
CG B:HIS80 3.2 16.9 1.0
HB3 B:HIS63 3.2 14.4 1.0
HB2 B:HIS80 3.2 15.5 1.0
HB2 B:HIS63 3.3 14.4 1.0
HA B:HIS71 3.3 18.3 1.0
HE1 B:HIS63 3.3 17.9 1.0
CG B:HIS71 3.3 16.7 1.0
CB B:HIS63 3.4 14.3 1.0
HB2 B:HIS71 3.4 17.3 1.0
CB B:HIS71 3.7 17.1 1.0
CB B:HIS80 3.7 14.9 1.0
O B:LYS136 3.9 26.1 1.0
NE2 B:HIS80 4.0 15.4 1.0
CA B:HIS71 4.0 18.2 1.0
H B:HIS80 4.1 17.1 1.0
H B:GLY72 4.2 17.1 1.0
CD2 B:HIS80 4.2 15.2 1.0
NE2 B:HIS71 4.2 15.6 1.0
NE2 B:HIS63 4.2 17.4 1.0
CD2 B:HIS63 4.2 16.1 1.0
CB B:ASP83 4.3 16.4 1.0
HB3 B:HIS80 4.3 15.5 1.0
HA B:ASP83 4.3 15.8 1.0
CD2 B:HIS71 4.4 15.0 1.0
HA B:THR137 4.6 20.3 1.0
HB3 B:HIS71 4.7 17.3 1.0
HB3 B:ASP83 4.7 16.2 1.0
HE2 B:HIS80 4.7 14.4 0.0
CA B:ASP83 4.7 15.9 1.0
HB2 B:ASP83 4.9 16.2 1.0
N B:GLY72 4.9 16.6 1.0
N B:HIS80 4.9 17.4 1.0
HD2 B:HIS46 4.9 19.4 1.0
CA B:HIS80 4.9 15.6 1.0
O B:HOH393 4.9 21.2 1.0
CA B:HIS63 4.9 13.7 1.0
C B:LYS136 4.9 24.1 1.0
HE2 B:HIS71 5.0 16.3 0.0
N B:HIS71 5.0 19.5 1.0
C B:HIS71 5.0 18.6 1.0
N B:ASP83 5.0 15.0 1.0

Reference:

A.Hossain, R.Sarin, D.P.Donnellya, B.C.Miller, J.P.Salisbury, J.Amin, J.B.Conway, S.S.Watson, X.Xu, N.Alam, H.Shahbazian, D.Sivasankar, A.C.Ponmudiyana, T.Gawde, W.Yang, S.Kannapadi, L.D.Plant, J.R.Auclair, L.Makowski, D.Ringe, D.J.Greenblatti, Y.Chen, R.Manetsch, S.S.Antonyuk, S.S.Hasnain, J.N.Agar. Protein Crosslinking As A Therapeutic Strategy For SOD1-Related Als To Be Published.
Page generated: Thu Dec 28 13:37:16 2023

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