Iron in PDB 2vzm: Crystal Structure of the Narbomycin-Bound Pikc D50N Mutant

The structure of Crystal Structure of the Narbomycin-Bound Pikc D50N Mutant, PDB code: 2vzm was solved by S.Li, D.H.Sherman, L.M.Podust, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	89.09 / 1.85
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	60.358, 109.489, 153.096, 90.00, 90.00, 90.00
R / Rfree (%)	16.5 / 21.1

The binding sites of Iron atom in the Crystal Structure of the Narbomycin-Bound Pikc D50N Mutant (pdb code 2vzm). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the Crystal Structure of the Narbomycin-Bound Pikc D50N Mutant, PDB code: 2vzm:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in the Crystal Structure of the Narbomycin-Bound Pikc D50N Mutant


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 the Narbomycin-Bound Pikc D50N Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1407 b:13.8 occ:1.00 FE A:HEM1407 0.0 13.8 1.0 NB A:HEM1407 2.1 11.6 1.0 NA A:HEM1407 2.1 11.6 1.0 ND A:HEM1407 2.1 13.4 1.0 NC A:HEM1407 2.1 12.9 1.0 SG A:CYS354 2.3 14.1 1.0 C4B A:HEM1407 3.1 10.8 1.0 C1B A:HEM1407 3.1 11.4 1.0 C4A A:HEM1407 3.1 10.8 1.0 C1C A:HEM1407 3.1 11.7 1.0 C4D A:HEM1407 3.1 11.5 1.0 C4C A:HEM1407 3.1 12.8 1.0 C1D A:HEM1407 3.1 13.1 1.0 C1A A:HEM1407 3.1 9.9 1.0 CB A:CYS354 3.4 10.5 1.0 CHC A:HEM1407 3.4 11.9 1.0 CHB A:HEM1407 3.4 12.1 1.0 CHD A:HEM1407 3.5 13.7 1.0 CHA A:HEM1407 3.5 11.2 1.0 CA A:CYS354 4.0 11.6 1.0 O A:ALA243 4.2 22.7 1.0 C2B A:HEM1407 4.3 11.9 1.0 C3B A:HEM1407 4.3 12.8 1.0 C3A A:HEM1407 4.3 9.0 1.0 C3D A:HEM1407 4.3 11.2 1.0 C2A A:HEM1407 4.3 9.7 1.0 C2C A:HEM1407 4.3 13.4 1.0 C3C A:HEM1407 4.3 16.2 1.0 C2D A:HEM1407 4.4 13.5 1.0 C1 A:NRB1408 4.4 20.5 0.5 C1 A:NRB1408 4.4 34.0 0.5 N A:GLY356 4.6 12.1 1.0 C A:ALA243 4.7 22.6 1.0 C A:CYS354 4.7 12.3 1.0 CB A:ALA243 4.7 22.4 1.0 N A:ILE355 4.8 11.0 1.0 CA A:GLY356 4.9 13.1 1.0

Iron binding site 2 out of 2 in the Crystal Structure of the Narbomycin-Bound Pikc D50N Mutant


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 the Narbomycin-Bound Pikc D50N Mutant within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe1407 b:13.9 occ:1.00 FE B:HEM1407 0.0 13.9 1.0 NB B:HEM1407 2.1 11.8 1.0 ND B:HEM1407 2.1 14.1 1.0 NA B:HEM1407 2.1 12.1 1.0 NC B:HEM1407 2.1 14.1 1.0 SG B:CYS354 2.3 13.2 1.0 C1C B:HEM1407 3.1 12.2 1.0 C4B B:HEM1407 3.1 12.1 1.0 C4A B:HEM1407 3.1 11.8 1.0 C1D B:HEM1407 3.1 14.2 1.0 C1B B:HEM1407 3.1 12.8 1.0 C4D B:HEM1407 3.1 12.3 1.0 C4C B:HEM1407 3.1 14.9 1.0 C1A B:HEM1407 3.1 11.4 1.0 CB B:CYS354 3.3 11.4 1.0 CHC B:HEM1407 3.4 11.7 1.0 CHB B:HEM1407 3.5 12.0 1.0 CHD B:HEM1407 3.5 13.7 1.0 CHA B:HEM1407 3.5 11.7 1.0 CA B:CYS354 4.0 10.6 1.0 C2B B:HEM1407 4.3 12.2 1.0 C3B B:HEM1407 4.3 13.5 1.0 C2C B:HEM1407 4.3 15.2 1.0 C2D B:HEM1407 4.3 12.2 1.0 C3C B:HEM1407 4.3 16.2 1.0 C3D B:HEM1407 4.3 11.1 1.0 C3A B:HEM1407 4.3 11.8 1.0 C2A B:HEM1407 4.4 11.6 1.0 O B:ALA243 4.4 23.9 1.0 C1 B:NRB1408 4.6 31.7 1.0 N B:GLY356 4.6 12.0 1.0 C B:CYS354 4.7 11.2 1.0 CB B:ALA243 4.8 22.0 1.0 N B:ILE355 4.8 11.4 1.0 C B:ALA243 4.8 22.7 1.0 CA B:GLY356 5.0 12.8 1.0

S.Li, H.Ouellet, D.H.Sherman, L.M.Podust. Analysis of Transient and Catalytic Desosamine Binding Pockets in Cytochrome P450 Pikc From Streptomyces Venezuelae. J.Biol.Chem. V. 284 5723 2009.
ISSN: ISSN 0021-9258
PubMed: 19124459
DOI: 10.1074/JBC.M807592200