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Iron in PDB 2vnx: Crystal Structure of Soybean Ascorbate Peroxidase Mutant W41A After Exposure to A High Dose of X-Rays

Enzymatic activity of Crystal Structure of Soybean Ascorbate Peroxidase Mutant W41A After Exposure to A High Dose of X-Rays

All present enzymatic activity of Crystal Structure of Soybean Ascorbate Peroxidase Mutant W41A After Exposure to A High Dose of X-Rays:
1.11.11.1;

Protein crystallography data

The structure of Crystal Structure of Soybean Ascorbate Peroxidase Mutant W41A After Exposure to A High Dose of X-Rays, PDB code: 2vnx was solved by C.L.Metcalfe, S.K.Badyal, E.L.Raven, P.C.E.Moody, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.80 / 1.50
Space group P 42 21 2
Cell size a, b, c (Å), α, β, γ (°) 82.002, 82.002, 75.570, 90.00, 90.00, 90.00
R / Rfree (%) 17.5 / 20.9

Other elements in 2vnx:

The structure of Crystal Structure of Soybean Ascorbate Peroxidase Mutant W41A After Exposure to A High Dose of X-Rays also contains other interesting chemical elements:

Sodium (Na) 1 atom

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of Soybean Ascorbate Peroxidase Mutant W41A After Exposure to A High Dose of X-Rays (pdb code 2vnx). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total only one binding site of Iron was determined in the Crystal Structure of Soybean Ascorbate Peroxidase Mutant W41A After Exposure to A High Dose of X-Rays, PDB code: 2vnx:

Iron binding site 1 out of 1 in 2vnx

Go back to Iron Binding Sites List in 2vnx
Iron binding site 1 out of 1 in the Crystal Structure of Soybean Ascorbate Peroxidase Mutant W41A After Exposure to A High Dose of X-Rays


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of Soybean Ascorbate Peroxidase Mutant W41A After Exposure to A High Dose of X-Rays within 5.0Å range:
probe atom residue distance (Å) B Occ
X:Fe251

b:11.1
occ:1.00
 FE X:HEM251 0.0 11.1 1.0
NC X:HEM251 2.0 9.8 1.0
NA X:HEM251 2.0 9.7 1.0
NB X:HEM251 2.0 9.6 1.0
ND X:HEM251 2.1 8.8 1.0
NE2 X:HIS163 2.1 11.2 1.0
NE2 X:HIS42 2.2 8.1 0.7
CE1 X:HIS42 3.0 9.9 0.7
C4C X:HEM251 3.0 9.7 1.0
C1C X:HEM251 3.0 9.4 1.0
C4B X:HEM251 3.0 10.3 1.0
CD2 X:HIS163 3.0 9.8 1.0
C1D X:HEM251 3.0 9.7 1.0
C4D X:HEM251 3.1 8.7 1.0
C1B X:HEM251 3.1 11.7 1.0
C1A X:HEM251 3.1 9.9 1.0
C4A X:HEM251 3.1 10.9 1.0
CE1 X:HIS163 3.1 11.5 1.0
CD2 X:HIS42 3.4 10.0 0.7
CHD X:HEM251 3.4 9.3 1.0
CHC X:HEM251 3.4 10.5 1.0
CHB X:HEM251 3.4 11.2 1.0
CHA X:HEM251 3.5 9.8 1.0
ND1 X:HIS163 4.2 11.8 1.0
ND1 X:HIS42 4.2 10.4 0.7
CG X:HIS163 4.2 9.8 1.0
C3C X:HEM251 4.2 9.5 1.0
C2C X:HEM251 4.2 9.0 1.0
C3B X:HEM251 4.3 11.0 1.0
C2B X:HEM251 4.3 11.8 1.0
C2D X:HEM251 4.3 8.9 1.0
C3D X:HEM251 4.3 8.1 1.0
C2A X:HEM251 4.3 11.2 1.0
C3A X:HEM251 4.3 11.2 1.0
CG X:HIS42 4.4 10.8 0.7
NE2 X:HIS42 4.8 12.1 0.3
O X:HOH2069 4.8 30.9 1.0

Reference:

S.K.Badyal, C.L.Metcalfe, J.Basran, I.Efimov, P.C.E.Moody, E.L.Raven. Iron Oxidation State Modulates Active Site Structure in A Heme Peroxidase. Biochemistry V. 47 4403 2008.
ISSN: ISSN 0006-2960
PubMed: 18351739
DOI: 10.1021/BI702337N
Page generated: Thu Jul 17 04:28:00 2025

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