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Iron in PDB 2vz7: Crystal Structure of the Yc-17-Bound Pikc D50N Mutant

Protein crystallography data

The structure of Crystal Structure of the Yc-17-Bound Pikc D50N Mutant, PDB code: 2vz7 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) 49.67 / 3.20
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 59.862, 109.323, 153.040, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 26

Iron Binding Sites:

The binding sites of Iron atom in the Crystal Structure of the Yc-17-Bound Pikc D50N Mutant (pdb code 2vz7). 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 Yc-17-Bound Pikc D50N Mutant, PDB code: 2vz7:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in 2vz7

Go back to Iron Binding Sites List in 2vz7
Iron binding site 1 out of 2 in the Crystal Structure of the Yc-17-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 Yc-17-Bound Pikc D50N Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1407

b:29.1
occ:1.00
FE A:HEM1407 0.0 29.1 1.0
NC A:HEM1407 2.0 28.9 1.0
NB A:HEM1407 2.0 29.8 1.0
NA A:HEM1407 2.0 30.3 1.0
ND A:HEM1407 2.0 30.6 1.0
SG A:CYS354 2.8 38.9 1.0
C1C A:HEM1407 3.0 29.2 1.0
C4B A:HEM1407 3.0 29.4 1.0
C4C A:HEM1407 3.0 28.1 1.0
C1D A:HEM1407 3.0 30.2 1.0
C1A A:HEM1407 3.0 30.4 1.0
C1B A:HEM1407 3.0 30.9 1.0
C4A A:HEM1407 3.1 30.5 1.0
C4D A:HEM1407 3.1 30.1 1.0
CHC A:HEM1407 3.4 29.9 1.0
CHD A:HEM1407 3.4 28.4 1.0
CHA A:HEM1407 3.4 30.8 1.0
CHB A:HEM1407 3.5 30.8 1.0
CB A:CYS354 3.6 35.5 1.0
O A:ALA243 4.0 45.7 1.0
CA A:CYS354 4.1 34.0 1.0
C2D A:HEM1407 4.3 31.4 1.0
C3B A:HEM1407 4.3 29.4 1.0
C3A A:HEM1407 4.3 30.0 1.0
C3C A:HEM1407 4.3 28.2 1.0
C2A A:HEM1407 4.3 29.4 1.0
C2B A:HEM1407 4.3 29.7 1.0
C2C A:HEM1407 4.3 28.7 1.0
C3D A:HEM1407 4.3 30.8 1.0
C1 A:PXI1408 4.6 47.1 1.0
N A:ILE355 4.7 29.3 1.0
N A:GLY356 4.7 29.0 1.0
C A:ALA243 4.8 44.5 1.0
C A:CYS354 4.8 31.6 1.0
CB A:ALA243 4.9 40.7 1.0

Iron binding site 2 out of 2 in 2vz7

Go back to Iron Binding Sites List in 2vz7
Iron binding site 2 out of 2 in the Crystal Structure of the Yc-17-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 Yc-17-Bound Pikc D50N Mutant within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1407

b:29.5
occ:1.00
FE B:HEM1407 0.0 29.5 1.0
ND B:HEM1407 1.9 30.2 1.0
NA B:HEM1407 1.9 29.7 1.0
NC B:HEM1407 2.0 30.8 1.0
NB B:HEM1407 2.0 30.1 1.0
SG B:CYS354 2.9 32.9 1.0
C4D B:HEM1407 3.0 31.4 1.0
C1A B:HEM1407 3.0 29.9 1.0
C1D B:HEM1407 3.0 30.2 1.0
C4A B:HEM1407 3.0 30.2 1.0
C4C B:HEM1407 3.1 30.6 1.0
C1C B:HEM1407 3.1 31.4 1.0
C1B B:HEM1407 3.1 30.1 1.0
C4B B:HEM1407 3.1 30.1 1.0
CHA B:HEM1407 3.4 30.8 1.0
CHD B:HEM1407 3.4 29.5 1.0
CHB B:HEM1407 3.4 29.6 1.0
CHC B:HEM1407 3.5 31.5 1.0
CB B:CYS354 3.6 33.2 1.0
CA B:CYS354 4.2 33.4 1.0
C3D B:HEM1407 4.2 32.1 1.0
C2D B:HEM1407 4.2 31.4 1.0
C2A B:HEM1407 4.2 28.8 1.0
C3A B:HEM1407 4.2 29.8 1.0
C3C B:HEM1407 4.3 32.0 1.0
C2C B:HEM1407 4.3 31.2 1.0
C2B B:HEM1407 4.3 30.1 1.0
C3B B:HEM1407 4.3 29.7 1.0
C1 B:PXI1408 4.4 36.3 1.0
N B:ILE355 4.9 31.6 1.0
CB B:ALA243 4.9 40.7 1.0
OG1 B:THR247 5.0 44.5 1.0
C B:CYS354 5.0 33.4 1.0

Reference:

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
Page generated: Sun Dec 13 14:54:36 2020

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