Atomistry » Iron » PDB 3b9j-3by0 » 3bvd
Atomistry »
  Iron »
    PDB 3b9j-3by0 »
      3bvd »

Iron in PDB 3bvd: Structure of Surface-Engineered Cytochrome BA3 Oxidase From Thermus Thermophilus Under Xenon Pressure, 100PSI 5MIN

Enzymatic activity of Structure of Surface-Engineered Cytochrome BA3 Oxidase From Thermus Thermophilus Under Xenon Pressure, 100PSI 5MIN

All present enzymatic activity of Structure of Surface-Engineered Cytochrome BA3 Oxidase From Thermus Thermophilus Under Xenon Pressure, 100PSI 5MIN:
1.9.3.1;

Protein crystallography data

The structure of Structure of Surface-Engineered Cytochrome BA3 Oxidase From Thermus Thermophilus Under Xenon Pressure, 100PSI 5MIN, PDB code: 3bvd was solved by V.M.Luna, Y.Chen, J.A.Fee, C.D.Stout, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 26.96 / 3.37
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 119.726, 119.726, 153.535, 90.00, 90.00, 90.00
R / Rfree (%) 29.2 / 33.6

Other elements in 3bvd:

The structure of Structure of Surface-Engineered Cytochrome BA3 Oxidase From Thermus Thermophilus Under Xenon Pressure, 100PSI 5MIN also contains other interesting chemical elements:

Xenon (Xe) 7 atoms
Copper (Cu) 3 atoms

Iron Binding Sites:

The binding sites of Iron atom in the Structure of Surface-Engineered Cytochrome BA3 Oxidase From Thermus Thermophilus Under Xenon Pressure, 100PSI 5MIN (pdb code 3bvd). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the Structure of Surface-Engineered Cytochrome BA3 Oxidase From Thermus Thermophilus Under Xenon Pressure, 100PSI 5MIN, PDB code: 3bvd:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in 3bvd

Go back to Iron Binding Sites List in 3bvd
Iron binding site 1 out of 2 in the Structure of Surface-Engineered Cytochrome BA3 Oxidase From Thermus Thermophilus Under Xenon Pressure, 100PSI 5MIN


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of Surface-Engineered Cytochrome BA3 Oxidase From Thermus Thermophilus Under Xenon Pressure, 100PSI 5MIN within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe800

b:85.5
occ:1.00
FE A:HEM800 0.0 85.5 1.0
NC A:HEM800 2.0 85.5 1.0
NA A:HEM800 2.0 85.5 1.0
NB A:HEM800 2.1 85.5 1.0
ND A:HEM800 2.1 85.5 1.0
NE2 A:HIS386 2.1 85.5 1.0
NE2 A:HIS72 2.2 85.5 1.0
CE1 A:HIS386 3.0 85.5 1.0
C1A A:HEM800 3.0 85.5 1.0
C4D A:HEM800 3.0 85.5 1.0
C4A A:HEM800 3.0 85.5 1.0
C4C A:HEM800 3.1 85.5 1.0
C1B A:HEM800 3.1 85.5 1.0
C1C A:HEM800 3.1 85.5 1.0
C1D A:HEM800 3.1 85.5 1.0
C4B A:HEM800 3.1 85.5 1.0
CE1 A:HIS72 3.1 85.5 1.0
CD2 A:HIS386 3.2 85.5 1.0
CD2 A:HIS72 3.2 85.5 1.0
CHA A:HEM800 3.4 85.5 1.0
CHB A:HEM800 3.4 85.5 1.0
CHD A:HEM800 3.4 85.5 1.0
CHC A:HEM800 3.5 85.5 1.0
ND1 A:HIS386 4.2 85.5 1.0
C2A A:HEM800 4.2 85.5 1.0
C3A A:HEM800 4.2 85.5 1.0
ND1 A:HIS72 4.3 85.5 1.0
CG A:HIS386 4.3 85.5 1.0
C3D A:HEM800 4.3 85.5 1.0
C3C A:HEM800 4.3 85.5 1.0
C2C A:HEM800 4.3 85.5 1.0
C2B A:HEM800 4.3 85.5 1.0
C2D A:HEM800 4.3 85.5 1.0
C3B A:HEM800 4.3 85.5 1.0
CG A:HIS72 4.3 85.5 1.0
NE2 A:GLN42 4.9 85.5 1.0

Iron binding site 2 out of 2 in 3bvd

Go back to Iron Binding Sites List in 3bvd
Iron binding site 2 out of 2 in the Structure of Surface-Engineered Cytochrome BA3 Oxidase From Thermus Thermophilus Under Xenon Pressure, 100PSI 5MIN


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of Surface-Engineered Cytochrome BA3 Oxidase From Thermus Thermophilus Under Xenon Pressure, 100PSI 5MIN within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe801

b:85.5
occ:1.00
FE A:HAS801 0.0 85.5 1.0
ND A:HAS801 2.1 85.5 1.0
NA A:HAS801 2.1 85.5 1.0
NC A:HAS801 2.1 85.5 1.0
NB A:HAS801 2.1 85.5 1.0
NE2 A:HIS384 2.9 85.5 1.0
C1D A:HAS801 3.1 85.5 1.0
C1A A:HAS801 3.1 85.5 1.0
C4D A:HAS801 3.1 85.5 1.0
C4C A:HAS801 3.1 85.5 1.0
C4A A:HAS801 3.1 85.5 1.0
C1B A:HAS801 3.1 85.5 1.0
C1C A:HAS801 3.1 85.5 1.0
C4B A:HAS801 3.1 85.5 1.0
CHA A:HAS801 3.4 85.5 1.0
CHD A:HAS801 3.4 85.5 1.0
CHC A:HAS801 3.4 85.5 1.0
CHB A:HAS801 3.5 85.5 1.0
CD2 A:HIS384 3.8 85.5 1.0
CE1 A:HIS384 3.8 85.5 1.0
C2D A:HAS801 4.3 85.5 1.0
C3C A:HAS801 4.3 85.5 1.0
C3D A:HAS801 4.3 85.5 1.0
C2B A:HAS801 4.3 85.5 1.0
C2C A:HAS801 4.4 85.5 1.0
C3B A:HAS801 4.4 85.5 1.0
C2A A:HAS801 4.4 85.5 1.0
C3A A:HAS801 4.4 85.5 1.0
CU A:CU803 4.7 85.5 1.0
CE1 A:HIS233 4.7 85.5 1.0
ND1 A:HIS384 4.9 85.5 1.0
CG A:HIS384 5.0 85.5 1.0
ND1 A:HIS233 5.0 85.5 1.0

Reference:

V.M.Luna, Y.Chen, J.A.Fee, C.D.Stout. Crystallographic Studies of Xe and Kr Binding Within the Large Internal Cavity of Cytochrome BA3 From Thermus Thermophilus: Structural Analysis and Role of Oxygen Transport Channels in the Heme-Cu Oxidases. Biochemistry V. 47 4657 2008.
ISSN: ISSN 0006-2960
PubMed: 18376849
DOI: 10.1021/BI800045Y
Page generated: Sun Dec 13 15:02:10 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy