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Cadmium in PDB 2e75: Crystal Structure of the Cytochrome B6F Complex with 2-Nonyl-4- Hydroxyquinoline N-Oxide (Nqno) From M.Laminosus

Enzymatic activity of Crystal Structure of the Cytochrome B6F Complex with 2-Nonyl-4- Hydroxyquinoline N-Oxide (Nqno) From M.Laminosus

All present enzymatic activity of Crystal Structure of the Cytochrome B6F Complex with 2-Nonyl-4- Hydroxyquinoline N-Oxide (Nqno) From M.Laminosus:
1.10.99.1;

Protein crystallography data

The structure of Crystal Structure of the Cytochrome B6F Complex with 2-Nonyl-4- Hydroxyquinoline N-Oxide (Nqno) From M.Laminosus, PDB code: 2e75 was solved by W.A.Cramer, E.Yamashita, H.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.94 / 3.55
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 159.164, 159.164, 362.269, 90.00, 90.00, 120.00
R / Rfree (%) 20.1 / 26.7

Other elements in 2e75:

The structure of Crystal Structure of the Cytochrome B6F Complex with 2-Nonyl-4- Hydroxyquinoline N-Oxide (Nqno) From M.Laminosus also contains other interesting chemical elements:

Magnesium (Mg) 1 atom
Iron (Fe) 6 atoms

Cadmium Binding Sites:

The binding sites of Cadmium atom in the Crystal Structure of the Cytochrome B6F Complex with 2-Nonyl-4- Hydroxyquinoline N-Oxide (Nqno) From M.Laminosus (pdb code 2e75). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 2 binding sites of Cadmium where determined in the Crystal Structure of the Cytochrome B6F Complex with 2-Nonyl-4- Hydroxyquinoline N-Oxide (Nqno) From M.Laminosus, PDB code: 2e75:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in 2e75

Go back to Cadmium Binding Sites List in 2e75
Cadmium binding site 1 out of 2 in the Crystal Structure of the Cytochrome B6F Complex with 2-Nonyl-4- Hydroxyquinoline N-Oxide (Nqno) From M.Laminosus


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Crystal Structure of the Cytochrome B6F Complex with 2-Nonyl-4- Hydroxyquinoline N-Oxide (Nqno) From M.Laminosus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd216

b:47.7
occ:1.00
OE2 A:GLU75 1.9 39.2 1.0
NE2 C:HIS143 2.0 31.5 1.0
OE1 A:GLU75 2.1 64.2 1.0
CD A:GLU75 2.3 52.7 1.0
CE1 C:HIS143 2.5 43.1 1.0
O A:HOH1105 3.0 2.0 1.0
O A:HOH1106 3.0 2.0 1.0
CD2 C:HIS143 3.2 49.5 1.0
ND1 C:HIS143 3.7 51.9 1.0
CG A:GLU75 3.8 38.0 1.0
CG C:HIS143 4.1 18.5 1.0
O C:LYS140 4.4 41.3 1.0
CB A:GLU75 4.9 2.0 1.0
O A:ASN74 5.0 33.3 1.0

Cadmium binding site 2 out of 2 in 2e75

Go back to Cadmium Binding Sites List in 2e75
Cadmium binding site 2 out of 2 in the Crystal Structure of the Cytochrome B6F Complex with 2-Nonyl-4- Hydroxyquinoline N-Oxide (Nqno) From M.Laminosus


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Crystal Structure of the Cytochrome B6F Complex with 2-Nonyl-4- Hydroxyquinoline N-Oxide (Nqno) From M.Laminosus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd161

b:0.8
occ:1.00
OD1 B:ASP58 2.0 41.1 1.0
NZ C:LYS146 3.0 13.4 1.0
CG B:ASP58 3.1 52.1 1.0
OE2 G:GLU3 3.1 0.6 1.0
OE1 G:GLU3 3.3 0.4 1.0
OD2 B:ASP58 3.6 44.6 1.0
CD G:GLU3 3.6 0.6 1.0
OE2 F:GLU4 3.8 99.5 1.0
CE C:LYS146 3.8 19.3 1.0
CB B:ASP58 4.3 30.5 1.0
CB G:LEU5 4.5 36.4 1.0
CD2 G:LEU5 4.5 46.8 1.0
OE2 C:GLU246 4.8 0.8 1.0
CD F:GLU4 4.8 0.4 1.0

Reference:

E.Yamashita, H.Zhang, W.A.Cramer. Structure of the Cytochrome B(6)F Complex: Quinone Analogue Inhibitors As Ligands of Heme C(N) J.Mol.Biol. V. 370 39 2007.
ISSN: ISSN 0022-2836
PubMed: 17498743
DOI: 10.1016/J.JMB.2007.04.011
Page generated: Sat Dec 12 08:16:51 2020

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