Atomistry » Zinc » PDB 3gjn-3gtp » 3gqf
Atomistry »
  Zinc »
    PDB 3gjn-3gtp »
      3gqf »

Zinc in PDB 3gqf: Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q

Enzymatic activity of Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q

All present enzymatic activity of Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q:
1.15.1.1;

Protein crystallography data

The structure of Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q, PDB code: 3gqf was solved by D.D.Winkler, J.P.Schuermann, P.J.Hart, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.07 / 2.20
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 112.576, 194.331, 143.179, 90.00, 90.00, 90.00
R / Rfree (%) 20.5 / 24.2

Other elements in 3gqf:

The structure of Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q also contains other interesting chemical elements:

Calcium (Ca) 5 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q (pdb code 3gqf). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q, PDB code: 3gqf:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in 3gqf

Go back to Zinc Binding Sites List in 3gqf
Zinc binding site 1 out of 6 in the Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn155

b:28.7
occ:1.00
OD1 A:ASP83 1.9 25.4 1.0
ND1 A:HIS80 2.1 26.9 1.0
ND1 A:HIS63 2.1 26.0 1.0
ND1 A:HIS71 2.1 26.8 1.0
CG A:ASP83 2.8 25.4 1.0
CE1 A:HIS80 2.9 25.9 1.0
OD2 A:ASP83 3.0 26.8 1.0
CE1 A:HIS71 3.0 28.4 1.0
CE1 A:HIS63 3.1 25.6 1.0
CG A:HIS63 3.1 25.9 1.0
CG A:HIS80 3.2 26.9 1.0
CG A:HIS71 3.2 29.4 1.0
CB A:HIS63 3.5 27.4 1.0
CB A:HIS71 3.6 30.6 1.0
CB A:HIS80 3.6 28.0 1.0
CA A:HIS71 3.9 31.2 1.0
O A:LYS136 4.0 31.2 1.0
NE2 A:HIS80 4.1 26.2 1.0
NE2 A:HIS71 4.2 28.3 1.0
CB A:ASP83 4.2 24.5 1.0
CD2 A:HIS80 4.2 27.0 1.0
NE2 A:HIS63 4.2 24.2 1.0
CD2 A:HIS63 4.3 24.8 1.0
CD2 A:HIS71 4.3 28.4 1.0
CA A:ASP83 4.7 24.9 1.0
N A:HIS80 4.7 29.4 1.0
N A:GLY72 4.8 31.0 1.0
CA A:HIS80 4.8 28.0 1.0
C A:HIS71 4.9 31.1 1.0
N A:HIS71 4.9 32.1 1.0
N A:ASP83 4.9 25.1 1.0
C A:LYS136 5.0 31.3 1.0
CA A:HIS63 5.0 27.8 1.0

Zinc binding site 2 out of 6 in 3gqf

Go back to Zinc Binding Sites List in 3gqf
Zinc binding site 2 out of 6 in the Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn155

b:25.5
occ:1.00
OD1 B:ASP83 1.9 20.6 1.0
ND1 B:HIS80 2.0 21.8 1.0
ND1 B:HIS63 2.1 20.7 1.0
ND1 B:HIS71 2.2 25.1 1.0
CG B:ASP83 2.7 22.3 1.0
CE1 B:HIS80 2.9 22.2 1.0
OD2 B:ASP83 2.9 21.0 1.0
CE1 B:HIS63 3.0 21.0 1.0
CG B:HIS63 3.1 22.9 1.0
CG B:HIS80 3.1 23.7 1.0
CE1 B:HIS71 3.2 24.6 1.0
CG B:HIS71 3.3 26.9 1.0
CB B:HIS63 3.4 24.4 1.0
CB B:HIS71 3.6 29.0 1.0
CB B:HIS80 3.6 25.0 1.0
CA B:HIS71 3.9 29.7 1.0
NE2 B:HIS80 4.0 21.7 1.0
NE2 B:HIS63 4.1 20.2 1.0
CD2 B:HIS80 4.2 21.3 1.0
CB B:ASP83 4.2 22.3 1.0
CD2 B:HIS63 4.2 21.2 1.0
O B:LYS136 4.3 30.5 1.0
NE2 B:HIS71 4.3 23.4 1.0
CD2 B:HIS71 4.4 23.5 1.0
CA B:ASP83 4.7 22.7 1.0
N B:HIS80 4.7 26.9 1.0
CA B:THR137 4.8 28.7 1.0
CA B:HIS80 4.8 25.6 1.0
N B:GLY72 4.8 29.5 1.0
N B:HIS71 4.9 30.7 1.0
C B:HIS71 4.9 29.9 1.0
CA B:HIS63 5.0 25.1 1.0
N B:ASP83 5.0 22.9 1.0

Zinc binding site 3 out of 6 in 3gqf

Go back to Zinc Binding Sites List in 3gqf
Zinc binding site 3 out of 6 in the Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn155

b:32.5
occ:1.00
OD1 C:ASP83 1.9 24.8 1.0
ND1 C:HIS63 2.1 27.7 1.0
ND1 C:HIS80 2.1 27.7 1.0
ND1 C:HIS71 2.3 31.9 1.0
CG C:ASP83 2.8 26.9 1.0
OD2 C:ASP83 2.9 28.6 1.0
CE1 C:HIS80 2.9 26.0 1.0
CE1 C:HIS63 3.0 28.0 1.0
CG C:HIS63 3.1 28.5 1.0
CG C:HIS80 3.2 28.3 1.0
CE1 C:HIS71 3.3 31.4 1.0
CG C:HIS71 3.4 32.5 1.0
CB C:HIS63 3.4 28.8 1.0
CB C:HIS71 3.6 33.0 1.0
CB C:HIS80 3.7 29.8 1.0
CA C:HIS71 3.9 33.0 1.0
NE2 C:HIS80 4.1 26.9 1.0
O C:LYS136 4.1 33.7 1.0
NE2 C:HIS63 4.2 26.8 1.0
CD2 C:HIS63 4.2 27.6 1.0
CB C:ASP83 4.2 26.1 1.0
CD2 C:HIS80 4.2 27.2 1.0
NE2 C:HIS71 4.4 31.2 1.0
CD2 C:HIS71 4.5 31.5 1.0
CA C:ASP83 4.7 26.0 1.0
N C:HIS80 4.7 31.1 1.0
N C:GLY72 4.8 32.4 1.0
CA C:HIS80 4.8 29.4 1.0
N C:HIS71 4.9 34.1 1.0
C C:HIS71 4.9 32.9 1.0
CA C:HIS63 4.9 29.1 1.0
N C:ASP83 5.0 26.5 1.0

Zinc binding site 4 out of 6 in 3gqf

Go back to Zinc Binding Sites List in 3gqf
Zinc binding site 4 out of 6 in the Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn155

b:29.6
occ:1.00
OD1 D:ASP83 1.8 26.2 1.0
ND1 D:HIS80 2.0 27.5 1.0
ND1 D:HIS63 2.1 27.9 1.0
ND1 D:HIS71 2.2 30.0 1.0
CG D:ASP83 2.7 27.5 1.0
CE1 D:HIS80 2.8 27.0 1.0
OD2 D:ASP83 2.9 28.5 1.0
CE1 D:HIS63 3.0 29.3 1.0
CG D:HIS63 3.1 27.5 1.0
CE1 D:HIS71 3.1 28.4 1.0
CG D:HIS80 3.2 28.0 1.0
CG D:HIS71 3.3 30.6 1.0
CB D:HIS63 3.4 28.2 1.0
CB D:HIS71 3.6 31.4 1.0
CB D:HIS80 3.7 29.0 1.0
CA D:HIS71 4.0 31.9 1.0
NE2 D:HIS80 4.0 27.2 1.0
CB D:ASP83 4.1 25.4 1.0
NE2 D:HIS63 4.2 28.3 1.0
CD2 D:HIS80 4.2 27.5 1.0
CD2 D:HIS63 4.2 27.8 1.0
NE2 D:HIS71 4.3 29.9 1.0
O D:LYS136 4.3 32.2 1.0
CD2 D:HIS71 4.4 30.7 1.0
CA D:ASP83 4.6 25.4 1.0
N D:HIS80 4.7 30.6 1.0
CA D:THR137 4.8 30.2 1.0
N D:ASP83 4.8 25.5 1.0
CA D:HIS80 4.8 29.1 1.0
N D:GLY72 4.9 31.3 1.0
C D:HIS71 4.9 31.8 1.0
CA D:HIS63 5.0 27.9 1.0
O D:THR137 5.0 29.6 1.0
N D:HIS71 5.0 32.7 1.0

Zinc binding site 5 out of 6 in 3gqf

Go back to Zinc Binding Sites List in 3gqf
Zinc binding site 5 out of 6 in the Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Zn155

b:26.6
occ:1.00
OD1 E:ASP83 2.0 20.1 1.0
ND1 E:HIS63 2.0 21.9 1.0
ND1 E:HIS80 2.1 24.5 1.0
ND1 E:HIS71 2.2 27.1 1.0
CG E:ASP83 2.8 23.1 1.0
CE1 E:HIS80 2.9 24.2 1.0
OD2 E:ASP83 3.0 22.6 1.0
CE1 E:HIS63 3.0 24.2 1.0
CG E:HIS63 3.0 25.4 1.0
CE1 E:HIS71 3.1 26.4 1.0
CG E:HIS80 3.1 25.1 1.0
CG E:HIS71 3.3 28.3 1.0
CB E:HIS63 3.3 25.9 1.0
CB E:HIS80 3.6 25.5 1.0
CB E:HIS71 3.7 29.2 1.0
CA E:HIS71 4.0 30.0 1.0
NE2 E:HIS80 4.1 23.9 1.0
NE2 E:HIS63 4.1 25.1 1.0
CD2 E:HIS63 4.2 23.1 1.0
CD2 E:HIS80 4.2 22.9 1.0
CB E:ASP83 4.2 23.5 1.0
O E:LYS136 4.3 30.4 1.0
NE2 E:HIS71 4.3 26.4 1.0
CD2 E:HIS71 4.4 27.8 1.0
CA E:ASP83 4.7 23.8 1.0
N E:HIS80 4.7 27.0 1.0
CA E:HIS80 4.8 26.5 1.0
CA E:THR137 4.8 29.1 1.0
N E:GLY72 4.8 29.9 1.0
N E:ASP83 4.9 24.1 1.0
CA E:HIS63 4.9 26.8 1.0
C E:HIS71 4.9 30.1 1.0

Zinc binding site 6 out of 6 in 3gqf

Go back to Zinc Binding Sites List in 3gqf
Zinc binding site 6 out of 6 in the Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Zn155

b:23.1
occ:1.00
OD1 F:ASP83 1.9 18.4 1.0
ND1 F:HIS80 2.1 23.0 1.0
ND1 F:HIS63 2.1 21.9 1.0
ND1 F:HIS71 2.2 23.3 1.0
CG F:ASP83 2.7 21.4 1.0
OD2 F:ASP83 2.9 19.1 1.0
CE1 F:HIS80 3.0 21.8 1.0
CE1 F:HIS71 3.1 23.9 1.0
CG F:HIS63 3.1 23.9 1.0
CE1 F:HIS63 3.1 21.9 1.0
CG F:HIS80 3.1 24.1 1.0
CG F:HIS71 3.2 26.7 1.0
CB F:HIS63 3.4 24.9 1.0
CB F:HIS80 3.5 25.4 1.0
CB F:HIS71 3.6 27.9 1.0
CA F:HIS71 3.9 28.8 1.0
O F:LYS136 4.1 30.2 1.0
NE2 F:HIS80 4.1 22.5 1.0
CB F:ASP83 4.2 21.1 1.0
CD2 F:HIS80 4.2 23.3 1.0
NE2 F:HIS63 4.2 21.1 1.0
NE2 F:HIS71 4.2 23.6 1.0
CD2 F:HIS63 4.2 22.2 1.0
CD2 F:HIS71 4.3 25.6 1.0
CA F:ASP83 4.7 22.5 1.0
N F:HIS80 4.7 26.4 1.0
CA F:HIS80 4.7 25.5 1.0
N F:GLY72 4.8 28.6 1.0
N F:ASP83 4.9 22.2 1.0
N F:HIS71 4.9 29.9 1.0
C F:HIS71 4.9 28.7 1.0
CA F:HIS63 4.9 25.3 1.0
C F:LYS136 5.0 30.1 1.0

Reference:

D.D.Winkler, J.P.Schuermann, X.Cao, S.P.Holloway, D.R.Borchelt, M.C.Carroll, J.B.Proescher, V.C.Culotta, P.J.Hart. Structural and Biophysical Properties of the Pathogenic SOD1 Variant H46R/H48Q. Biochemistry V. 48 3436 2009.
ISSN: ISSN 0006-2960
PubMed: 19227972
DOI: 10.1021/BI8021735
Page generated: Thu Oct 24 13:51:31 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy