Iron in PDB 7yzt: Crystal Structure of A Dye-Decolorizing (Dyp) Peroxidase From Acinetobacter Radioresistens

The structure of Crystal Structure of A Dye-Decolorizing (Dyp) Peroxidase From Acinetobacter Radioresistens, PDB code: 7yzt was solved by C.Zhang, G.Catucci, G.Gilardi, S.J.Sadeghi, G.Di Nardo, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.13 / 1.85
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	88.14, 88.14, 231.569, 90, 90, 120
R / Rfree (%)	16.6 / 19.6

The binding sites of Iron atom in the Crystal Structure of A Dye-Decolorizing (Dyp) Peroxidase From Acinetobacter Radioresistens (pdb code 7yzt). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 3 binding sites of Iron where determined in the Crystal Structure of A Dye-Decolorizing (Dyp) Peroxidase From Acinetobacter Radioresistens, PDB code: 7yzt:
Jump to Iron binding site number: 1; 2; 3;

Iron binding site 1 out of 3 in the Crystal Structure of A Dye-Decolorizing (Dyp) Peroxidase From Acinetobacter Radioresistens


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 A Dye-Decolorizing (Dyp) Peroxidase From Acinetobacter Radioresistens within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe401 b:25.3 occ:1.00 FE A:HEM401 0.0 25.3 1.0 NB A:HEM401 2.0 20.4 1.0 NC A:HEM401 2.1 19.1 1.0 NA A:HEM401 2.1 22.7 1.0 ND A:HEM401 2.1 21.7 1.0 NE2 A:HIS217 2.2 19.7 1.0 O A:HOH547 2.6 27.0 1.0 C4B A:HEM401 3.0 23.2 1.0 C1B A:HEM401 3.0 22.8 1.0 C1C A:HEM401 3.1 22.1 1.0 C4D A:HEM401 3.1 21.4 1.0 C1A A:HEM401 3.1 23.1 1.0 C4A A:HEM401 3.1 21.2 1.0 C4C A:HEM401 3.1 21.4 1.0 C1D A:HEM401 3.1 21.5 1.0 CD2 A:HIS217 3.2 18.9 1.0 CE1 A:HIS217 3.2 21.6 1.0 CHC A:HEM401 3.4 21.0 1.0 CHA A:HEM401 3.4 20.5 1.0 CHB A:HEM401 3.4 20.4 1.0 CHD A:HEM401 3.5 20.7 1.0 ND1 A:HIS217 4.3 18.7 1.0 C2B A:HEM401 4.3 19.8 1.0 C3B A:HEM401 4.3 18.5 1.0 C2C A:HEM401 4.3 22.1 1.0 C2A A:HEM401 4.3 21.6 1.0 CG A:HIS217 4.3 18.4 1.0 C3D A:HEM401 4.3 21.8 1.0 C3A A:HEM401 4.3 21.3 1.0 C3C A:HEM401 4.3 22.2 1.0 C2D A:HEM401 4.3 20.4 1.0 NH1 A:ARG235 4.4 21.0 1.0 OD1 A:ASP143 4.6 31.2 1.0 CE2 A:PHE251 4.6 18.4 1.0 CG2 A:THR221 4.8 21.9 1.0 O A:HOH600 4.9 25.4 1.0 CD A:ARG235 5.0 20.4 1.0

Iron binding site 2 out of 3 in the Crystal Structure of A Dye-Decolorizing (Dyp) Peroxidase From Acinetobacter Radioresistens


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of A Dye-Decolorizing (Dyp) Peroxidase From Acinetobacter Radioresistens within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe401 b:23.4 occ:1.00 FE B:HEM401 0.0 23.4 1.0 ND B:HEM401 2.0 22.1 1.0 NB B:HEM401 2.1 22.0 1.0 NA B:HEM401 2.1 20.3 1.0 NC B:HEM401 2.1 22.7 1.0 NE2 B:HIS217 2.3 23.9 1.0 O B:HOH730 2.5 28.7 1.0 C1D B:HEM401 3.0 23.1 1.0 C4D B:HEM401 3.0 20.7 1.0 C1A B:HEM401 3.1 24.1 1.0 C4B B:HEM401 3.1 23.7 1.0 C1B B:HEM401 3.1 22.4 1.0 C4C B:HEM401 3.1 20.8 1.0 C4A B:HEM401 3.1 21.2 1.0 C1C B:HEM401 3.1 23.2 1.0 CD2 B:HIS217 3.2 21.1 1.0 CE1 B:HIS217 3.3 18.1 1.0 CHA B:HEM401 3.4 22.9 1.0 CHD B:HEM401 3.4 22.8 1.0 CHC B:HEM401 3.5 21.0 1.0 CHB B:HEM401 3.5 22.2 1.0 C2D B:HEM401 4.3 20.3 1.0 C3D B:HEM401 4.3 20.1 1.0 C3B B:HEM401 4.3 18.7 1.0 C2A B:HEM401 4.3 23.0 1.0 C2B B:HEM401 4.3 19.3 1.0 C3C B:HEM401 4.3 21.7 1.0 C3A B:HEM401 4.3 22.1 1.0 C2C B:HEM401 4.3 22.2 1.0 CG B:HIS217 4.4 19.8 1.0 ND1 B:HIS217 4.4 17.6 1.0 NH1 B:ARG235 4.4 20.3 1.0 CE1 B:PHE251 4.7 18.3 1.0 OD1 B:ASP143 4.7 25.8 1.0 CG2 B:THR221 4.9 19.7 1.0

Iron binding site 3 out of 3 in the Crystal Structure of A Dye-Decolorizing (Dyp) Peroxidase From Acinetobacter Radioresistens


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of A Dye-Decolorizing (Dyp) Peroxidase From Acinetobacter Radioresistens within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe401 b:24.6 occ:1.00 FE C:HEM401 0.0 24.6 1.0 NB C:HEM401 2.0 23.9 1.0 NC C:HEM401 2.0 24.7 1.0 ND C:HEM401 2.1 22.7 1.0 NA C:HEM401 2.1 21.5 1.0 NE2 C:HIS217 2.2 25.6 1.0 O C:HOH693 2.6 31.7 1.0 C4B C:HEM401 3.0 25.3 1.0 C1B C:HEM401 3.1 26.9 1.0 C1C C:HEM401 3.1 25.2 1.0 C4C C:HEM401 3.1 23.8 1.0 C4D C:HEM401 3.1 22.3 1.0 C1A C:HEM401 3.1 24.2 1.0 C1D C:HEM401 3.1 23.1 1.0 C4A C:HEM401 3.1 26.3 1.0 CD2 C:HIS217 3.1 21.6 1.0 CE1 C:HIS217 3.1 22.1 1.0 CHC C:HEM401 3.4 23.1 1.0 CHA C:HEM401 3.4 21.2 1.0 CHB C:HEM401 3.4 24.6 1.0 CHD C:HEM401 3.5 23.6 1.0 ND1 C:HIS217 4.3 21.2 1.0 C3B C:HEM401 4.3 23.5 1.0 C2B C:HEM401 4.3 22.6 1.0 CG C:HIS217 4.3 20.5 1.0 C3D C:HEM401 4.3 23.6 1.0 C3C C:HEM401 4.3 25.6 1.0 C2D C:HEM401 4.3 22.7 1.0 C2C C:HEM401 4.3 25.6 1.0 C3A C:HEM401 4.3 25.4 1.0 C2A C:HEM401 4.3 24.3 1.0 NH1 C:ARG235 4.4 25.4 1.0 CE1 C:PHE251 4.7 25.3 1.0 CG2 C:THR221 4.8 22.4 1.0 OD1 C:ASP143 4.8 30.4 1.0 O C:HOH552 5.0 29.6 1.0 CD C:ARG235 5.0 21.4 1.0

G.Catucci, C.Zhang, G.Di Nardo, S.J.Sadeghi, G.Gilardi. Crystal Structure of A Decolorizing Peroxidase (Dyp) From Acinetobacter Radioresistens To Be Published.