Atomistry » Iron » PDB 2g6o-2grx » 2gc4
Atomistry »
  Iron »
    PDB 2g6o-2grx »
      2gc4 »

Iron in PDB 2gc4: Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution.

Enzymatic activity of Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution.

All present enzymatic activity of Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution.:
1.4.99.3;

Protein crystallography data

The structure of Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution., PDB code: 2gc4 was solved by Z.Chen, R.Durley, V.L.Davidson, F.S.Mathews, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.95 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 81.368, 188.979, 128.836, 90.00, 99.74, 90.00
R / Rfree (%) 17.3 / 19.7

Other elements in 2gc4:

The structure of Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution. also contains other interesting chemical elements:

Copper (Cu) 4 atoms
Sodium (Na) 4 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution. (pdb code 2gc4). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution., PDB code: 2gc4:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 2gc4

Go back to Iron Binding Sites List in 2gc4
Iron binding site 1 out of 4 in the Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Fe200

b:25.8
occ:1.00
FE H:HEM200 0.0 25.8 1.0
ND H:HEM200 2.0 32.8 1.0
NC H:HEM200 2.0 31.2 1.0
NB H:HEM200 2.0 28.0 1.0
NE2 H:HIS61 2.0 24.0 1.0
NA H:HEM200 2.1 28.1 1.0
SD H:MET101 2.3 30.7 1.0
C1C H:HEM200 3.0 31.2 1.0
C4D H:HEM200 3.1 31.4 1.0
C1B H:HEM200 3.1 28.7 1.0
C4B H:HEM200 3.1 28.5 1.0
C4C H:HEM200 3.1 31.9 1.0
C1A H:HEM200 3.1 29.7 1.0
CE1 H:HIS61 3.1 25.5 1.0
C1D H:HEM200 3.1 33.4 1.0
C4A H:HEM200 3.1 28.6 1.0
CD2 H:HIS61 3.1 25.1 1.0
CHB H:HEM200 3.4 26.9 1.0
CHC H:HEM200 3.4 28.9 1.0
CHA H:HEM200 3.4 29.3 1.0
CHD H:HEM200 3.4 31.0 1.0
CE H:MET101 3.5 29.3 1.0
CG H:MET101 3.5 32.2 1.0
CB H:MET101 4.1 36.7 1.0
CG H:HIS61 4.1 25.9 1.0
ND1 H:HIS61 4.3 25.4 1.0
C3B H:HEM200 4.3 27.9 1.0
C3C H:HEM200 4.3 31.7 1.0
C2C H:HEM200 4.3 32.6 1.0
C2B H:HEM200 4.3 27.7 1.0
C3D H:HEM200 4.3 34.3 1.0
C3A H:HEM200 4.3 28.1 1.0
C2D H:HEM200 4.3 34.4 1.0
C2A H:HEM200 4.3 29.3 1.0
CA H:MET101 4.8 40.1 1.0

Iron binding site 2 out of 4 in 2gc4

Go back to Iron Binding Sites List in 2gc4
Iron binding site 2 out of 4 in the Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
L:Fe200

b:24.4
occ:1.00
FE L:HEM200 0.0 24.4 1.0
ND L:HEM200 2.0 25.2 1.0
NC L:HEM200 2.0 24.5 1.0
NB L:HEM200 2.0 23.6 1.0
NA L:HEM200 2.0 22.4 1.0
NE2 L:HIS61 2.1 19.9 1.0
SD L:MET101 2.3 25.6 1.0
C4D L:HEM200 3.0 26.0 1.0
C1D L:HEM200 3.1 26.3 1.0
C1C L:HEM200 3.1 25.6 1.0
CE1 L:HIS61 3.1 22.2 1.0
C4C L:HEM200 3.1 25.9 1.0
C1B L:HEM200 3.1 24.2 1.0
C4A L:HEM200 3.1 23.2 1.0
C1A L:HEM200 3.1 23.8 1.0
C4B L:HEM200 3.1 24.3 1.0
CD2 L:HIS61 3.2 20.6 1.0
CHD L:HEM200 3.4 25.8 1.0
CHB L:HEM200 3.4 22.8 1.0
CHA L:HEM200 3.4 21.6 1.0
CHC L:HEM200 3.4 21.8 1.0
CG L:MET101 3.5 25.4 1.0
CE L:MET101 3.5 30.0 1.0
CB L:MET101 4.1 28.7 1.0
CG L:HIS61 4.2 23.5 1.0
ND1 L:HIS61 4.3 24.3 1.0
C3D L:HEM200 4.3 27.7 1.0
C2D L:HEM200 4.3 29.1 1.0
C3A L:HEM200 4.3 22.9 1.0
C2A L:HEM200 4.3 23.8 1.0
C3C L:HEM200 4.3 25.9 1.0
C3B L:HEM200 4.3 24.2 1.0
C2B L:HEM200 4.3 23.5 1.0
C2C L:HEM200 4.3 24.9 1.0
CA L:MET101 4.8 28.9 1.0

Iron binding site 3 out of 4 in 2gc4

Go back to Iron Binding Sites List in 2gc4
Iron binding site 3 out of 4 in the Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe200

b:24.6
occ:1.00
FE D:HEM200 0.0 24.6 1.0
ND D:HEM200 2.0 25.1 1.0
NC D:HEM200 2.0 25.4 1.0
NB D:HEM200 2.0 23.7 1.0
NE2 D:HIS61 2.0 21.9 1.0
NA D:HEM200 2.0 23.7 1.0
SD D:MET101 2.3 25.0 1.0
CE1 D:HIS61 3.0 21.9 1.0
C4D D:HEM200 3.0 25.5 1.0
C1D D:HEM200 3.0 25.7 1.0
C1A D:HEM200 3.0 21.9 1.0
C4C D:HEM200 3.1 26.0 1.0
C1C D:HEM200 3.1 26.8 1.0
C1B D:HEM200 3.1 22.7 1.0
C4A D:HEM200 3.1 22.3 1.0
C4B D:HEM200 3.1 24.2 1.0
CD2 D:HIS61 3.2 22.2 1.0
CHA D:HEM200 3.4 24.2 1.0
CHD D:HEM200 3.4 27.1 1.0
CHB D:HEM200 3.4 22.5 1.0
CHC D:HEM200 3.4 23.6 1.0
CE D:MET101 3.5 28.4 1.0
CG D:MET101 3.5 25.9 1.0
CG D:HIS61 4.1 23.0 1.0
CB D:MET101 4.2 26.7 1.0
ND1 D:HIS61 4.2 20.1 1.0
C3D D:HEM200 4.3 25.5 1.0
C2A D:HEM200 4.3 23.6 1.0
C2D D:HEM200 4.3 25.5 1.0
C3C D:HEM200 4.3 26.6 1.0
C3A D:HEM200 4.3 22.3 1.0
C3B D:HEM200 4.3 22.0 1.0
C2B D:HEM200 4.3 21.9 1.0
C2C D:HEM200 4.3 25.3 1.0
CA D:MET101 4.9 28.8 1.0

Iron binding site 4 out of 4 in 2gc4

Go back to Iron Binding Sites List in 2gc4
Iron binding site 4 out of 4 in the Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution.


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution. within 5.0Å range:
probe atom residue distance (Å) B Occ
P:Fe200

b:26.2
occ:1.00
FE P:HEM200 0.0 26.2 1.0
ND P:HEM200 2.0 31.2 1.0
NC P:HEM200 2.0 27.2 1.0
NE2 P:HIS61 2.0 26.0 1.0
NA P:HEM200 2.0 27.4 1.0
NB P:HEM200 2.0 24.5 1.0
SD P:MET101 2.4 25.9 1.0
C4C P:HEM200 3.0 28.6 1.0
C1C P:HEM200 3.0 28.6 1.0
C4D P:HEM200 3.1 29.3 1.0
CE1 P:HIS61 3.1 27.2 1.0
C1A P:HEM200 3.1 26.4 1.0
C1D P:HEM200 3.1 31.1 1.0
C1B P:HEM200 3.1 24.3 1.0
C4A P:HEM200 3.1 26.7 1.0
C4B P:HEM200 3.1 26.4 1.0
CD2 P:HIS61 3.1 26.6 1.0
CHD P:HEM200 3.4 32.0 1.0
CHA P:HEM200 3.4 25.6 1.0
CHB P:HEM200 3.4 26.0 1.0
CHC P:HEM200 3.4 26.7 1.0
CE P:MET101 3.5 31.3 1.0
CG P:MET101 3.6 25.6 1.0
CG P:HIS61 4.1 24.7 1.0
CB P:MET101 4.2 24.9 1.0
ND1 P:HIS61 4.3 26.0 1.0
C3C P:HEM200 4.3 30.1 1.0
C3B P:HEM200 4.3 24.8 1.0
C3D P:HEM200 4.3 29.1 1.0
C2A P:HEM200 4.3 28.1 1.0
C2C P:HEM200 4.3 29.0 1.0
C2B P:HEM200 4.3 24.7 1.0
C3A P:HEM200 4.3 27.6 1.0
C2D P:HEM200 4.3 30.8 1.0
CA P:MET101 4.9 30.8 1.0

Reference:

Z.Chen, R.Durley, V.L.Davidson, F.S.Mathews. Structural Comparison of the Oxidized Ternary Electron Transfer Complex of Methylamine Dehydrogenase, Amicyanin and Cytochrome C551I From Paracoccus Denitrificans with the Substrate-Reduced, Copper Free Complex at 1.9 A Resolution. To Be Published.
Page generated: Sat Aug 3 22:30:04 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy