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Cadmium in PDB 4h0l: Cytochrome B6F Complex Crystal Structure From Mastigocladus Laminosus with N-Side Inhibitor Nqno

Enzymatic activity of Cytochrome B6F Complex Crystal Structure From Mastigocladus Laminosus with N-Side Inhibitor Nqno

All present enzymatic activity of Cytochrome B6F Complex Crystal Structure From Mastigocladus Laminosus with N-Side Inhibitor Nqno:
1.10.9.1;

Protein crystallography data

The structure of Cytochrome B6F Complex Crystal Structure From Mastigocladus Laminosus with N-Side Inhibitor Nqno, PDB code: 4h0l was solved by S.S.Hasan, E.Yamashita, D.Baniulis, W.A.Cramer, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.45 / 3.25
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 159.133, 159.133, 362.250, 90.00, 90.00, 120.00
R / Rfree (%) 21.8 / 24.7

Other elements in 4h0l:

The structure of Cytochrome B6F Complex Crystal Structure From Mastigocladus Laminosus with N-Side Inhibitor Nqno 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 Cytochrome B6F Complex Crystal Structure From Mastigocladus Laminosus with N-Side Inhibitor Nqno (pdb code 4h0l). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total 2 binding sites of Cadmium where determined in the Cytochrome B6F Complex Crystal Structure From Mastigocladus Laminosus with N-Side Inhibitor Nqno, PDB code: 4h0l:
Jump to Cadmium binding site number: 1; 2;

Cadmium binding site 1 out of 2 in 4h0l

Go back to Cadmium Binding Sites List in 4h0l
Cadmium binding site 1 out of 2 in the Cytochrome B6F Complex Crystal Structure From Mastigocladus Laminosus with N-Side Inhibitor Nqno


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of Cytochrome B6F Complex Crystal Structure From Mastigocladus Laminosus with N-Side Inhibitor Nqno within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd301

b:83.1
occ:1.00
OE2 A:GLU75 1.9 71.6 1.0
NE2 C:HIS143 2.3 90.5 1.0
CD A:GLU75 2.6 82.4 1.0
OE1 A:GLU75 2.6 0.9 1.0
CE1 C:HIS143 3.0 75.0 1.0
HE1 C:HIS143 3.0 90.0 1.0
O A:HOH401 3.1 57.5 1.0
O C:HOH401 3.3 55.5 1.0
CD2 C:HIS143 3.4 76.1 1.0
HD2 C:HIS143 3.7 91.3 1.0
O C:LYS140 3.7 0.1 1.0
HB3 A:ASN74 4.0 69.3 1.0
CG A:GLU75 4.1 64.1 1.0
ND1 C:HIS143 4.1 63.1 1.0
HA C:ASN141 4.3 0.9 1.0
HG2 A:GLU75 4.3 76.9 1.0
CG C:HIS143 4.4 56.5 1.0
HG3 A:GLU75 4.4 76.9 1.0
O A:ASN74 4.6 71.9 1.0
HA A:GLU75 4.7 77.3 1.0
OD1 C:ASN141 4.7 0.8 1.0
HD1 C:HIS143 4.8 75.8 1.0
C C:LYS140 4.9 95.4 1.0
CB A:ASN74 5.0 57.7 1.0

Cadmium binding site 2 out of 2 in 4h0l

Go back to Cadmium Binding Sites List in 4h0l
Cadmium binding site 2 out of 2 in the Cytochrome B6F Complex Crystal Structure From Mastigocladus Laminosus with N-Side Inhibitor Nqno


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 2 of Cytochrome B6F Complex Crystal Structure From Mastigocladus Laminosus with N-Side Inhibitor Nqno within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Cd201

b:0.2
occ:1.00
OD1 B:ASP58 2.0 94.0 1.0
HZ1 C:LYS146 2.5 75.5 1.0
HZ2 C:LYS146 2.6 75.5 1.0
NZ C:LYS146 3.0 62.9 1.0
CG B:ASP58 3.0 83.3 1.0
OD2 B:ASP58 3.3 78.4 1.0
OE2 F:GLU4 3.5 0.7 1.0
HZ3 C:LYS146 3.6 75.5 1.0
HE3 C:LYS146 3.7 0.3 1.0
HB3 G:LEU5 3.8 86.7 1.0
CE C:LYS146 4.0 90.2 1.0
HB3 G:GLU3 4.1 0.8 1.0
HB2 G:LEU5 4.1 86.7 1.0
HD23 G:LEU5 4.2 97.2 1.0
CB B:ASP58 4.4 70.9 1.0
CB G:LEU5 4.4 72.3 1.0
CD F:GLU4 4.5 0.9 1.0
HE21 C:GLN38 4.5 93.8 1.0
HB2 B:ASP58 4.5 85.1 1.0
HE2 C:LYS146 4.5 0.3 1.0
HA G:GLU3 4.6 0.7 1.0
OE1 F:GLU4 4.6 0.6 1.0
H G:LEU5 4.7 86.0 1.0
HB3 B:ASP58 4.7 85.1 1.0
HD22 G:LEU5 4.8 97.2 1.0
HD2 G:PRO4 4.8 0.3 1.0
CD2 G:LEU5 4.9 81.0 1.0
HD2 C:LYS146 4.9 74.4 1.0
HZ2 A:TRP88 4.9 75.3 1.0
HG2 G:PRO4 4.9 0.6 1.0
CB G:GLU3 5.0 90.6 1.0

Reference:

S.S.Hasan, E.Yamashita, D.Baniulis, W.A.Cramer. Quinone-Dependent Proton Transfer Pathways in the Photosynthetic Cytochrome B6F Complex Proc.Natl.Acad.Sci.Usa V. 110 4297 2013.
ISSN: ISSN 0027-8424
PubMed: 23440205
DOI: 10.1073/PNAS.1222248110
Page generated: Sat Dec 12 08:24:40 2020

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