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Calcium in PDB 3wfd: Reduced and Acetaldoxime-Bound Cytochrome C-Dependent Nitric Oxide Reductase (Cnor) From Pseudomonas Aeruginosa in Complex with Antibody Fragment

Enzymatic activity of Reduced and Acetaldoxime-Bound Cytochrome C-Dependent Nitric Oxide Reductase (Cnor) From Pseudomonas Aeruginosa in Complex with Antibody Fragment

All present enzymatic activity of Reduced and Acetaldoxime-Bound Cytochrome C-Dependent Nitric Oxide Reductase (Cnor) From Pseudomonas Aeruginosa in Complex with Antibody Fragment:
1.7.2.5;

Protein crystallography data

The structure of Reduced and Acetaldoxime-Bound Cytochrome C-Dependent Nitric Oxide Reductase (Cnor) From Pseudomonas Aeruginosa in Complex with Antibody Fragment, PDB code: 3wfd was solved by N.Sato, S.Ishii, T.Hino, H.Sugimoto, Y.Fukumori, Y.Shiro, T.Tosha, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 33.38 / 2.30
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 90.927, 106.747, 196.437, 90.00, 90.00, 90.00
R / Rfree (%) 19.1 / 23.2

Other elements in 3wfd:

The structure of Reduced and Acetaldoxime-Bound Cytochrome C-Dependent Nitric Oxide Reductase (Cnor) From Pseudomonas Aeruginosa in Complex with Antibody Fragment also contains other interesting chemical elements:

Iron (Fe) 4 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Reduced and Acetaldoxime-Bound Cytochrome C-Dependent Nitric Oxide Reductase (Cnor) From Pseudomonas Aeruginosa in Complex with Antibody Fragment (pdb code 3wfd). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the Reduced and Acetaldoxime-Bound Cytochrome C-Dependent Nitric Oxide Reductase (Cnor) From Pseudomonas Aeruginosa in Complex with Antibody Fragment, PDB code: 3wfd:

Calcium binding site 1 out of 1 in 3wfd

Go back to Calcium Binding Sites List in 3wfd
Calcium binding site 1 out of 1 in the Reduced and Acetaldoxime-Bound Cytochrome C-Dependent Nitric Oxide Reductase (Cnor) From Pseudomonas Aeruginosa in Complex with Antibody Fragment


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Reduced and Acetaldoxime-Bound Cytochrome C-Dependent Nitric Oxide Reductase (Cnor) From Pseudomonas Aeruginosa in Complex with Antibody Fragment within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca806

b:52.9
occ:1.00
 O2A B:HEM802 2.4 51.2 1.0
OE1 B:GLU135 2.4 44.7 1.0
O2D B:HEM801 2.4 55.1 1.0
O B:HOH906 2.5 48.2 1.0
OE2 B:GLU135 2.5 47.6 1.0
O C:GLY71 2.6 41.9 1.0
OH C:TYR73 2.7 47.6 1.0
CD B:GLU135 2.8 48.6 1.0
CGA B:HEM802 3.3 50.0 1.0
CGD B:HEM801 3.4 52.1 1.0
O1D B:HEM801 3.5 56.3 1.0
CZ C:TYR73 3.5 45.3 1.0
C C:GLY71 3.6 42.4 1.0
O1A B:HEM802 3.6 50.4 1.0
NH2 B:ARG57 3.7 45.6 1.0
N C:GLY71 3.9 42.6 1.0
CA C:GLY71 4.1 44.7 1.0
CE1 C:TYR73 4.2 43.9 1.0
CE2 C:TYR73 4.3 44.5 1.0
CG B:GLU135 4.3 49.2 1.0
CBA B:HEM802 4.4 50.2 1.0
CZ B:PHE136 4.5 52.9 1.0
CZ B:ARG57 4.5 48.1 1.0
CAA B:HEM802 4.5 45.8 1.0
NH1 B:ARG57 4.5 46.4 1.0
N C:ALA72 4.7 40.6 1.0
CBD B:HEM801 4.7 46.9 1.0
O C:HOH307 4.8 47.8 1.0

Reference:

N.Sato, S.Ishii, H.Sugimoto, T.Hino, Y.Fukumori, Y.Sako, Y.Shiro, T.Tosha. Structures of Reduced and Ligand-Bound Nitric Oxide Reductase Provide Insights Into Functional Differences in Respiratory Enzymes Proteins 2013.
ISSN: ESSN 1097-0134
PubMed: 24338896
DOI: 10.1002/PROT.24492
Page generated: Sat Jul 13 21:01:36 2024

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