Atomistry » Manganese » PDB 5uqt-5vpx » 5vf9
Atomistry »
  Manganese »
    PDB 5uqt-5vpx »
      5vf9 »

Manganese in PDB 5vf9: Native Human Manganese Superoxide Dismutase

Enzymatic activity of Native Human Manganese Superoxide Dismutase

All present enzymatic activity of Native Human Manganese Superoxide Dismutase:
1.15.1.1;

Protein crystallography data

The structure of Native Human Manganese Superoxide Dismutase, PDB code: 5vf9 was solved by J.Azadmanesh, S.R.Trickel, G.E.O.Borgstahl, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 67.50 / 1.82
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 78.240, 78.240, 238.470, 90.00, 90.00, 120.00
R / Rfree (%) 19.2 / 22.1

Other elements in 5vf9:

The structure of Native Human Manganese Superoxide Dismutase also contains other interesting chemical elements:

Potassium (K) 1 atom

Manganese Binding Sites:

The binding sites of Manganese atom in the Native Human Manganese Superoxide Dismutase (pdb code 5vf9). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Native Human Manganese Superoxide Dismutase, PDB code: 5vf9:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 5vf9

Go back to Manganese Binding Sites List in 5vf9
Manganese binding site 1 out of 2 in the Native Human Manganese Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Native Human Manganese Superoxide Dismutase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn201

b:16.0
occ:1.00
OD2 A:ASP159 2.0 14.8 1.0
O A:HOH301 2.2 15.3 1.0
NE2 A:HIS74 2.2 14.7 1.0
NE2 A:HIS163 2.3 15.7 1.0
NE2 A:HIS26 2.3 15.1 1.0
CG A:ASP159 3.1 14.7 1.0
CD2 A:HIS163 3.1 14.8 1.0
CE1 A:HIS74 3.2 15.4 1.0
CD2 A:HIS26 3.2 14.6 1.0
CE1 A:HIS26 3.2 14.5 1.0
CD2 A:HIS74 3.3 15.0 1.0
CE1 A:HIS163 3.3 14.9 1.0
OD1 A:ASP159 3.5 14.5 1.0
CZ2 A:TRP123 4.3 13.9 1.0
ND1 A:HIS74 4.3 15.5 1.0
CG A:HIS163 4.3 15.4 1.0
ND1 A:HIS26 4.3 14.7 1.0
CG A:HIS26 4.3 14.9 1.0
CB A:ASP159 4.4 14.0 1.0
ND1 A:HIS163 4.4 15.3 1.0
CG A:HIS74 4.4 15.2 1.0
NE2 A:GLN143 4.5 18.4 1.0
CB A:TRP161 4.5 14.4 1.0
CG A:TRP161 4.7 14.5 1.0
CH2 A:TRP123 4.9 13.6 1.0
CD1 A:TRP161 4.9 14.2 1.0
CB A:ALA164 5.0 15.7 1.0

Manganese binding site 2 out of 2 in 5vf9

Go back to Manganese Binding Sites List in 5vf9
Manganese binding site 2 out of 2 in the Native Human Manganese Superoxide Dismutase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Native Human Manganese Superoxide Dismutase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn201

b:17.6
occ:1.00
OD2 B:ASP159 2.0 16.3 1.0
O B:HOH301 2.2 15.9 1.0
NE2 B:HIS26 2.2 15.4 1.0
NE2 B:HIS163 2.2 17.3 1.0
NE2 B:HIS74 2.3 17.1 1.0
CG B:ASP159 3.1 15.7 1.0
CD2 B:HIS163 3.1 16.5 1.0
CD2 B:HIS26 3.2 14.5 1.0
CD2 B:HIS74 3.2 16.1 1.0
CE1 B:HIS26 3.2 14.9 1.0
CE1 B:HIS74 3.2 15.8 1.0
CE1 B:HIS163 3.3 16.8 1.0
OD1 B:ASP159 3.5 14.9 1.0
ND1 B:HIS26 4.3 14.9 1.0
CG B:HIS26 4.3 14.6 1.0
CG B:HIS163 4.3 16.4 1.0
CZ2 B:TRP123 4.3 14.0 1.0
ND1 B:HIS74 4.3 15.0 1.0
ND1 B:HIS163 4.3 16.5 1.0
CG B:HIS74 4.4 15.3 1.0
CB B:ASP159 4.4 15.2 1.0
CB B:TRP161 4.4 14.7 1.0
NE2 B:GLN143 4.5 17.4 1.0
CG B:TRP161 4.6 14.9 1.0
CD1 B:TRP161 4.9 15.6 1.0
CH2 B:TRP123 4.9 14.5 1.0
CB B:ALA164 5.0 16.1 1.0

Reference:

J.Azadmanesh, S.R.Trickel, G.E.O.Borgstahl. Substrate-Analog Binding and Electrostatic Surfaces of Human Manganese Superoxide Dismutase. J. Struct. Biol. V. 199 68 2017.
ISSN: ESSN 1095-8657
PubMed: 28461152
DOI: 10.1016/J.JSB.2017.04.011
Page generated: Tue Dec 15 04:47:47 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy