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Iron in PDB 4a5g: Raphanus Sativus Anionic Peroxidase.

Enzymatic activity of Raphanus Sativus Anionic Peroxidase.

All present enzymatic activity of Raphanus Sativus Anionic Peroxidase.:
1.11.1.7;

Protein crystallography data

The structure of Raphanus Sativus Anionic Peroxidase., PDB code: 4a5g was solved by N.Jimenez-Arroyo, B.Valderrama, P.Gil-Rodriguez, S.P.Rojas-Trejo, E.Rudino-Pinera, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.287 / 2.05
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 59.148, 41.192, 137.796, 90.00, 96.91, 90.00
R / Rfree (%) 16.29 / 18.52

Other elements in 4a5g:

The structure of Raphanus Sativus Anionic Peroxidase. also contains other interesting chemical elements:

Calcium (Ca) 4 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Raphanus Sativus Anionic Peroxidase. (pdb code 4a5g). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the Raphanus Sativus Anionic Peroxidase., PDB code: 4a5g:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in 4a5g

Go back to Iron Binding Sites List in 4a5g
Iron binding site 1 out of 2 in the Raphanus Sativus Anionic Peroxidase.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Raphanus Sativus Anionic Peroxidase. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1307

b:27.6
occ:1.00
FE A:HEM1307 0.0 27.6 1.0
NA A:HEM1307 2.0 15.7 1.0
ND A:HEM1307 2.1 15.4 1.0
NC A:HEM1307 2.1 22.4 1.0
NB A:HEM1307 2.1 18.8 1.0
NE2 A:HIS171 2.2 18.2 1.0
C1D A:HEM1307 3.0 18.1 1.0
C4D A:HEM1307 3.0 18.7 1.0
C1A A:HEM1307 3.0 21.9 1.0
C4A A:HEM1307 3.1 17.7 1.0
C4C A:HEM1307 3.1 21.1 1.0
C1B A:HEM1307 3.1 19.9 1.0
C4B A:HEM1307 3.1 17.0 1.0
CE1 A:HIS171 3.1 18.4 1.0
C1C A:HEM1307 3.1 22.1 1.0
CD2 A:HIS171 3.2 20.3 1.0
CHD A:HEM1307 3.4 17.3 1.0
CHA A:HEM1307 3.4 18.1 1.0
CHB A:HEM1307 3.4 17.3 1.0
CHC A:HEM1307 3.5 15.4 1.0
O A:HOH2057 4.0 27.6 1.0
C3D A:HEM1307 4.2 19.2 1.0
C2D A:HEM1307 4.2 15.6 1.0
ND1 A:HIS171 4.3 16.8 1.0
C2A A:HEM1307 4.3 23.6 1.0
C3A A:HEM1307 4.3 21.1 1.0
C2B A:HEM1307 4.3 16.2 1.0
C3B A:HEM1307 4.3 20.7 1.0
C3C A:HEM1307 4.3 17.9 1.0
CG A:HIS171 4.3 18.5 1.0
C2C A:HEM1307 4.3 18.7 1.0
NE A:ARG40 4.4 19.2 1.0
CE2 A:PHE43 4.4 21.7 1.0
CD2 A:PHE43 4.7 22.0 1.0
CG A:ARG40 4.8 20.1 1.0
CD A:ARG40 4.9 19.2 1.0

Iron binding site 2 out of 2 in 4a5g

Go back to Iron Binding Sites List in 4a5g
Iron binding site 2 out of 2 in the Raphanus Sativus Anionic Peroxidase.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Raphanus Sativus Anionic Peroxidase. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1306

b:28.9
occ:1.00
FE B:HEM1306 0.0 28.9 1.0
NC B:HEM1306 2.1 22.2 1.0
ND B:HEM1306 2.1 17.9 1.0
NA B:HEM1306 2.1 19.1 1.0
NB B:HEM1306 2.1 21.7 1.0
NE2 B:HIS171 2.3 22.2 1.0
C1D B:HEM1306 3.0 15.9 1.0
C4C B:HEM1306 3.0 19.2 1.0
C1B B:HEM1306 3.1 21.0 1.0
C4D B:HEM1306 3.1 18.0 1.0
C4A B:HEM1306 3.1 23.5 1.0
C1C B:HEM1306 3.1 21.2 1.0
C1A B:HEM1306 3.1 19.8 1.0
C4B B:HEM1306 3.1 23.4 1.0
CD2 B:HIS171 3.2 22.3 1.0
CE1 B:HIS171 3.2 20.8 1.0
CHD B:HEM1306 3.3 15.4 1.0
CHB B:HEM1306 3.5 20.8 1.0
CHA B:HEM1306 3.5 18.5 1.0
CHC B:HEM1306 3.5 23.1 1.0
O B:HOH2063 3.9 28.1 1.0
C2D B:HEM1306 4.2 17.0 1.0
C3C B:HEM1306 4.3 16.6 1.0
NE B:ARG40 4.3 21.0 1.0
C3D B:HEM1306 4.3 20.1 1.0
C2B B:HEM1306 4.3 24.3 1.0
C2C B:HEM1306 4.3 22.4 1.0
C3B B:HEM1306 4.3 24.8 1.0
C3A B:HEM1306 4.3 23.2 1.0
C2A B:HEM1306 4.3 22.1 1.0
CE2 B:PHE43 4.3 21.6 1.0
ND1 B:HIS171 4.4 20.2 1.0
CG B:HIS171 4.4 18.9 1.0
CG B:ARG40 4.7 22.6 1.0
CD2 B:PHE43 4.7 23.3 1.0
CD B:ARG40 4.8 20.3 1.0

Reference:

P.Gil-Rodriguez, N.Jimenez-Arroyo, S.P.Rojas-Trejo, E.Rudino-Pinera, B.Valderrama. Crystallographic Structure of the Raphanus Sativus Anionic Peroxidase To Be Published.
Page generated: Sun Dec 13 15:27:41 2020

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