Iron in PDB 1fhf: The Structure of Soybean Peroxidase

All present enzymatic activity of The Structure of Soybean Peroxidase:
1.11.1.7;

The structure of The Structure of Soybean Peroxidase, PDB code: 1fhf was solved by A.Henriksen, O.Mirza, C.Indiana, K.Welinder, K.Teilum, M.Gajhede, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	11.00 / 2.80
Space group	P 31
Cell size a, b, c (Å), α, β, γ (°)	106.454, 106.454, 104.996, 90.00, 90.00, 120.00
R / Rfree (%)	27.1 / 28.9

The structure of The Structure of Soybean Peroxidase also contains other interesting chemical elements:

Calcium

(Ca)

6 atoms

The binding sites of Iron atom in the The Structure of Soybean Peroxidase (pdb code 1fhf). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 3 binding sites of Iron where determined in the The Structure of Soybean Peroxidase, PDB code: 1fhf:
Jump to Iron binding site number: 1; 2; 3;

Iron binding site 1 out of 3 in the The Structure of Soybean Peroxidase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of The Structure of Soybean Peroxidase within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe350 b:12.6 occ:1.00 FE A:HEM350 0.0 12.6 1.0 NB A:HEM350 2.0 11.0 1.0 NC A:HEM350 2.0 10.8 1.0 ND A:HEM350 2.0 9.7 1.0 NA A:HEM350 2.0 11.5 1.0 NE2 A:HIS169 2.2 10.8 1.0 C1C A:HEM350 3.0 10.8 1.0 C1B A:HEM350 3.1 12.0 1.0 C4C A:HEM350 3.1 11.2 1.0 C4B A:HEM350 3.1 11.2 1.0 C4A A:HEM350 3.1 12.8 1.0 C1D A:HEM350 3.1 9.4 1.0 C4D A:HEM350 3.1 8.5 1.0 C1A A:HEM350 3.1 11.3 1.0 CD2 A:HIS169 3.2 10.5 1.0 CE1 A:HIS169 3.3 12.6 1.0 CHC A:HEM350 3.4 9.9 1.0 CHB A:HEM350 3.4 13.7 1.0 CHD A:HEM350 3.5 10.3 1.0 CHA A:HEM350 3.5 8.4 1.0 O A:HOH1001 4.0 18.4 1.0 C2C A:HEM350 4.3 11.4 1.0 C2D A:HEM350 4.3 8.5 1.0 C3D A:HEM350 4.3 8.6 1.0 C3C A:HEM350 4.3 11.9 1.0 C2B A:HEM350 4.3 11.6 1.0 C3B A:HEM350 4.3 11.5 1.0 C3A A:HEM350 4.3 12.7 1.0 C2A A:HEM350 4.4 12.5 1.0 NE A:ARG38 4.4 10.8 1.0 CG A:HIS169 4.4 10.2 1.0 ND1 A:HIS169 4.5 12.2 1.0 CG A:ARG38 4.6 8.5 1.0 CD A:ARG38 4.8 10.1 1.0 CE1 A:PHE41 4.9 14.2 1.0

Iron binding site 2 out of 3 in the The Structure of Soybean Peroxidase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of The Structure of Soybean Peroxidase within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe350 b:12.6 occ:1.00 FE B:HEM350 0.0 12.6 1.0 NB B:HEM350 2.0 11.0 1.0 NC B:HEM350 2.0 10.8 1.0 ND B:HEM350 2.0 9.7 1.0 NA B:HEM350 2.0 11.5 1.0 NE2 B:HIS169 2.2 10.8 1.0 C1C B:HEM350 3.0 10.8 1.0 C1B B:HEM350 3.1 12.0 1.0 C4B B:HEM350 3.1 11.2 1.0 C4C B:HEM350 3.1 11.2 1.0 C4A B:HEM350 3.1 12.8 1.0 C1D B:HEM350 3.1 9.4 1.0 C4D B:HEM350 3.1 8.5 1.0 C1A B:HEM350 3.1 11.3 1.0 CD2 B:HIS169 3.2 10.5 1.0 CE1 B:HIS169 3.3 12.6 1.0 CHC B:HEM350 3.4 9.9 1.0 CHB B:HEM350 3.4 13.7 1.0 CHD B:HEM350 3.5 10.3 1.0 CHA B:HEM350 3.5 8.4 1.0 O B:HOH3001 4.0 18.4 1.0 C2C B:HEM350 4.3 11.4 1.0 C2D B:HEM350 4.3 8.5 1.0 C3D B:HEM350 4.3 8.6 1.0 C3C B:HEM350 4.3 11.9 1.0 C2B B:HEM350 4.3 11.6 1.0 C3B B:HEM350 4.3 11.5 1.0 C3A B:HEM350 4.3 12.7 1.0 C2A B:HEM350 4.4 12.5 1.0 NE B:ARG38 4.4 10.8 1.0 CG B:HIS169 4.4 10.2 1.0 ND1 B:HIS169 4.5 12.2 1.0 CG B:ARG38 4.6 8.5 1.0 CD B:ARG38 4.8 10.1 1.0 CE1 B:PHE41 4.9 14.2 1.0

Iron binding site 3 out of 3 in the The Structure of Soybean Peroxidase


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of The Structure of Soybean Peroxidase within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe350 b:12.6 occ:1.00 FE C:HEM350 0.0 12.6 1.0 NB C:HEM350 2.0 11.0 1.0 NC C:HEM350 2.0 10.8 1.0 ND C:HEM350 2.0 9.7 1.0 NA C:HEM350 2.0 11.5 1.0 NE2 C:HIS169 2.2 10.8 1.0 C1C C:HEM350 3.0 10.8 1.0 C1B C:HEM350 3.1 12.0 1.0 C4B C:HEM350 3.1 11.2 1.0 C4C C:HEM350 3.1 11.2 1.0 C4A C:HEM350 3.1 12.8 1.0 C1D C:HEM350 3.1 9.4 1.0 C4D C:HEM350 3.1 8.5 1.0 C1A C:HEM350 3.1 11.3 1.0 CD2 C:HIS169 3.2 10.5 1.0 CE1 C:HIS169 3.3 12.6 1.0 CHC C:HEM350 3.4 9.9 1.0 CHB C:HEM350 3.4 13.7 1.0 CHD C:HEM350 3.5 10.3 1.0 CHA C:HEM350 3.5 8.4 1.0 O C:HOH5001 4.0 18.4 1.0 C2C C:HEM350 4.3 11.4 1.0 C2D C:HEM350 4.3 8.5 1.0 C3D C:HEM350 4.3 8.6 1.0 C3C C:HEM350 4.3 11.9 1.0 C2B C:HEM350 4.3 11.6 1.0 C3B C:HEM350 4.3 11.5 1.0 C3A C:HEM350 4.3 12.7 1.0 C2A C:HEM350 4.4 12.5 1.0 NE C:ARG38 4.4 10.8 1.0 CG C:HIS169 4.4 10.2 1.0 ND1 C:HIS169 4.5 12.2 1.0 CG C:ARG38 4.6 8.5 1.0 CD C:ARG38 4.8 10.1 1.0 CE1 C:PHE41 4.9 14.2 1.0

A.Henriksen, O.Mirza, C.Indiani, K.Teilum, G.Smulevich, K.G.Welinder, M.Gajhede. Structure of Soybean Seed Coat Peroxidase: A Plant Peroxidase with Unusual Stability and Haem-Apoprotein Interactions. Protein Sci. V. 10 108 2001.
ISSN: ISSN 0961-8368
PubMed: 11266599
DOI: 10.1110/PS.37301