Iron in PDB 6nt1: Catalase 3 From N.Crassa in Ferrous State (2.89 Mgy)

All present enzymatic activity of Catalase 3 From N.Crassa in Ferrous State (2.89 Mgy):
1.11.1.6;

The structure of Catalase 3 From N.Crassa in Ferrous State (2.89 Mgy), PDB code: 6nt1 was solved by A.Zarate-Romero, E.Rudino-Pinera, V.Stojanoff, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.66 / 2.20
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	131.100, 154.500, 160.900, 90.00, 90.00, 90.00
R / Rfree (%)	15 / 19.8

The binding sites of Iron atom in the Catalase 3 From N.Crassa in Ferrous State (2.89 Mgy) (pdb code 6nt1). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Catalase 3 From N.Crassa in Ferrous State (2.89 Mgy), PDB code: 6nt1:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Catalase 3 From N.Crassa in Ferrous State (2.89 Mgy)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Catalase 3 From N.Crassa in Ferrous State (2.89 Mgy) within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe801 b:8.8 occ:1.00 FE A:HEM801 0.0 8.8 1.0 NA A:HEM801 2.0 6.6 1.0 NB A:HEM801 2.0 10.6 1.0 NC A:HEM801 2.1 9.5 1.0 ND A:HEM801 2.1 7.2 1.0 OH A:TYR389 2.1 12.3 1.0 C4A A:HEM801 3.0 8.6 1.0 C1B A:HEM801 3.0 8.8 1.0 C1A A:HEM801 3.0 7.5 1.0 C4B A:HEM801 3.0 10.1 1.0 C1C A:HEM801 3.1 11.1 1.0 C4C A:HEM801 3.1 9.8 1.0 C4D A:HEM801 3.1 7.7 1.0 C1D A:HEM801 3.1 10.4 1.0 CZ A:TYR389 3.1 9.3 1.0 O A:HOH1147 3.2 16.0 1.0 CHB A:HEM801 3.4 10.9 1.0 CHC A:HEM801 3.4 10.2 1.0 CHA A:HEM801 3.4 6.1 1.0 CHD A:HEM801 3.5 11.3 1.0 CE1 A:TYR389 3.8 8.0 1.0 CE2 A:TYR389 3.9 7.0 1.0 NH2 A:ARG385 4.2 6.8 1.0 NE A:ARG385 4.2 11.8 1.0 C3A A:HEM801 4.2 7.6 1.0 C2B A:HEM801 4.2 8.3 1.0 C3B A:HEM801 4.2 9.8 1.0 C2A A:HEM801 4.2 8.3 1.0 C3C A:HEM801 4.3 11.6 1.0 C2C A:HEM801 4.3 11.7 1.0 C2D A:HEM801 4.3 7.1 1.0 C3D A:HEM801 4.3 5.0 1.0 O A:HOH1013 4.4 17.6 1.0 CZ A:PHE188 4.5 12.9 1.0 CG2 A:VAL101 4.5 7.6 1.0 NE2 A:HIS102 4.6 7.8 1.0 CZ A:ARG385 4.6 10.9 1.0 CD2 A:HIS102 4.7 7.2 1.0 CE1 A:PHE188 5.0 8.9 1.0

Iron binding site 2 out of 4 in the Catalase 3 From N.Crassa in Ferrous State (2.89 Mgy)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Catalase 3 From N.Crassa in Ferrous State (2.89 Mgy) within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe801 b:10.2 occ:1.00 FE B:HEM801 0.0 10.2 1.0 NA B:HEM801 2.0 9.8 1.0 NB B:HEM801 2.1 10.8 1.0 ND B:HEM801 2.1 8.0 1.0 NC B:HEM801 2.1 7.1 1.0 OH B:TYR389 2.2 8.1 1.0 C4A B:HEM801 3.0 9.7 1.0 C1A B:HEM801 3.0 8.7 1.0 C1B B:HEM801 3.0 11.2 1.0 C4C B:HEM801 3.1 8.0 1.0 C1D B:HEM801 3.1 6.6 1.0 C4D B:HEM801 3.1 10.6 1.0 C4B B:HEM801 3.1 9.7 1.0 C1C B:HEM801 3.1 8.0 1.0 CZ B:TYR389 3.1 9.7 1.0 O B:HOH1235 3.2 17.8 1.0 CHB B:HEM801 3.4 7.7 1.0 CHA B:HEM801 3.4 7.5 1.0 CHD B:HEM801 3.4 5.5 1.0 CHC B:HEM801 3.5 10.4 1.0 CE1 B:TYR389 3.9 8.8 1.0 CE2 B:TYR389 4.0 6.7 1.0 NE B:ARG385 4.1 10.1 1.0 C3A B:HEM801 4.2 8.8 1.0 C2A B:HEM801 4.2 10.2 1.0 C2B B:HEM801 4.3 9.8 1.0 C2D B:HEM801 4.3 7.8 1.0 C3B B:HEM801 4.3 7.8 1.0 NH2 B:ARG385 4.3 8.2 1.0 C3C B:HEM801 4.3 7.4 1.0 C3D B:HEM801 4.3 6.4 1.0 C2C B:HEM801 4.3 11.2 1.0 O B:HOH1180 4.4 21.6 1.0 CZ B:PHE188 4.5 6.1 1.0 CG2 B:VAL101 4.5 4.6 1.0 NE2 B:HIS102 4.6 8.7 1.0 CZ B:ARG385 4.6 9.7 1.0 CD2 B:HIS102 4.7 8.0 1.0

Iron binding site 3 out of 4 in the Catalase 3 From N.Crassa in Ferrous State (2.89 Mgy)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Catalase 3 From N.Crassa in Ferrous State (2.89 Mgy) within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe801 b:8.3 occ:1.00 FE C:HEM801 0.0 8.3 1.0 NC C:HEM801 2.0 9.4 1.0 NA C:HEM801 2.0 7.9 1.0 ND C:HEM801 2.1 5.9 1.0 OH C:TYR389 2.1 7.5 1.0 NB C:HEM801 2.1 10.7 1.0 O C:HOH1240 2.9 16.0 1.0 C4C C:HEM801 3.0 10.0 1.0 C1C C:HEM801 3.0 10.6 1.0 C4A C:HEM801 3.0 8.5 1.0 C1A C:HEM801 3.1 5.3 1.0 C1D C:HEM801 3.1 8.3 1.0 CZ C:TYR389 3.1 7.5 1.0 C4D C:HEM801 3.1 6.2 1.0 C1B C:HEM801 3.1 7.1 1.0 C4B C:HEM801 3.1 8.7 1.0 CHD C:HEM801 3.4 7.0 1.0 CHB C:HEM801 3.4 6.0 1.0 CHA C:HEM801 3.4 7.1 1.0 CHC C:HEM801 3.4 7.9 1.0 CE1 C:TYR389 3.8 6.1 1.0 CE2 C:TYR389 3.9 7.8 1.0 NE C:ARG385 4.2 10.0 1.0 C3C C:HEM801 4.2 7.0 1.0 C2C C:HEM801 4.2 8.0 1.0 C2A C:HEM801 4.3 4.4 1.0 C3A C:HEM801 4.3 5.9 1.0 NH2 C:ARG385 4.3 6.7 1.0 C2D C:HEM801 4.3 8.5 1.0 C3D C:HEM801 4.3 6.6 1.0 C2B C:HEM801 4.3 10.6 1.0 C3B C:HEM801 4.3 9.2 1.0 O C:HOH1132 4.4 14.9 1.0 CG2 C:VAL101 4.5 5.2 1.0 CZ C:PHE188 4.5 8.6 1.0 CZ C:ARG385 4.7 9.9 1.0 CD2 C:HIS102 4.7 6.9 1.0 NE2 C:HIS102 4.8 8.4 1.0 CE1 C:PHE188 5.0 6.6 1.0

Iron binding site 4 out of 4 in the Catalase 3 From N.Crassa in Ferrous State (2.89 Mgy)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Catalase 3 From N.Crassa in Ferrous State (2.89 Mgy) within 5.0Å range: probe atom residue distance (Å) B Occ D:Fe801 b:9.9 occ:1.00 FE D:HEM801 0.0 9.9 1.0 NC D:HEM801 2.0 8.6 1.0 NB D:HEM801 2.0 10.1 1.0 NA D:HEM801 2.1 8.3 1.0 ND D:HEM801 2.1 6.5 1.0 OH D:TYR389 2.2 7.4 1.0 O D:HOH1192 2.8 16.6 1.0 C4B D:HEM801 3.0 9.6 1.0 C1C D:HEM801 3.0 11.3 1.0 C1B D:HEM801 3.1 8.5 1.0 C4C D:HEM801 3.1 8.0 1.0 C1A D:HEM801 3.1 6.9 1.0 C4D D:HEM801 3.1 5.5 1.0 C4A D:HEM801 3.1 9.6 1.0 C1D D:HEM801 3.1 7.5 1.0 CZ D:TYR389 3.2 7.9 1.0 CHC D:HEM801 3.4 7.3 1.0 CHA D:HEM801 3.4 7.5 1.0 CHB D:HEM801 3.4 10.2 1.0 CHD D:HEM801 3.5 6.9 1.0 CE1 D:TYR389 3.9 9.1 1.0 CE2 D:TYR389 4.0 7.4 1.0 NE D:ARG385 4.1 8.6 1.0 NH2 D:ARG385 4.2 8.2 1.0 C3B D:HEM801 4.2 10.2 1.0 C2B D:HEM801 4.2 9.7 1.0 C2C D:HEM801 4.3 11.4 1.0 C3C D:HEM801 4.3 7.0 1.0 C2A D:HEM801 4.3 6.2 1.0 O D:HOH986 4.3 12.6 1.0 C3A D:HEM801 4.3 6.6 1.0 C3D D:HEM801 4.3 7.0 1.0 C2D D:HEM801 4.3 10.2 1.0 CG2 D:VAL101 4.5 7.4 1.0 CZ D:PHE188 4.5 7.5 1.0 CZ D:ARG385 4.6 9.3 1.0 NE2 D:HIS102 4.7 10.8 1.0 CD2 D:HIS102 4.7 9.1 1.0

A.Zarate-Romero, V.Stojanoff, A.E.Cohen, W.Hansberg, E.Rudino-Pinera. X-Ray Driven Reduction of Cpd I of Catalase-3 From N. Crassa Reveals Differential Sensitivity of Active Sites and Formation of Ferrous State. Arch.Biochem.Biophys. V. 666 107 2019.
ISSN: ESSN 1096-0384
PubMed: 30940570
DOI: 10.1016/J.ABB.2019.03.020