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Calcium in PDB 5guw: Complex of Cytochrome CD1 Nitrite Reductase and Nitric Oxide Reductase in Denitrification of Pseudomonas Aeruginosa

Enzymatic activity of Complex of Cytochrome CD1 Nitrite Reductase and Nitric Oxide Reductase in Denitrification of Pseudomonas Aeruginosa

All present enzymatic activity of Complex of Cytochrome CD1 Nitrite Reductase and Nitric Oxide Reductase in Denitrification of Pseudomonas Aeruginosa:
1.7.2.1; 1.7.2.5; 1.7.99.1;

Protein crystallography data

The structure of Complex of Cytochrome CD1 Nitrite Reductase and Nitric Oxide Reductase in Denitrification of Pseudomonas Aeruginosa, PDB code: 5guw was solved by E.Terasaka, H.Sugimoto, Y.Shiro, T.Tosha, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.48 / 3.20
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 111.871, 128.606, 127.807, 90.00, 106.83, 90.00
R / Rfree (%) 21 / 25.4

Other elements in 5guw:

The structure of Complex of Cytochrome CD1 Nitrite Reductase and Nitric Oxide Reductase in Denitrification of Pseudomonas Aeruginosa also contains other interesting chemical elements:

Iron (Fe) 12 atoms
Chlorine (Cl) 2 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Complex of Cytochrome CD1 Nitrite Reductase and Nitric Oxide Reductase in Denitrification of Pseudomonas Aeruginosa (pdb code 5guw). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Complex of Cytochrome CD1 Nitrite Reductase and Nitric Oxide Reductase in Denitrification of Pseudomonas Aeruginosa, PDB code: 5guw:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 5guw

Go back to Calcium Binding Sites List in 5guw
Calcium binding site 1 out of 2 in the Complex of Cytochrome CD1 Nitrite Reductase and Nitric Oxide Reductase in Denitrification of Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Complex of Cytochrome CD1 Nitrite Reductase and Nitric Oxide Reductase in Denitrification of Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca202

b:32.6
occ:1.00
O A:GLY71 2.2 57.7 1.0
OE1 B:GLU135 2.3 56.9 1.0
OH A:TYR73 2.3 62.2 1.0
O2A B:HEM802 2.4 64.3 1.0
O2D B:HEM801 2.4 64.0 1.0
CZ A:TYR73 3.0 60.2 1.0
OE2 B:GLU135 3.0 53.5 1.0
CD B:GLU135 3.0 53.8 1.0
CGA B:HEM802 3.0 63.4 1.0
C A:GLY71 3.3 55.7 1.0
O1A B:HEM802 3.3 64.4 1.0
NH2 B:ARG57 3.4 43.8 1.0
CGD B:HEM801 3.6 58.0 1.0
CE1 A:TYR73 3.6 59.6 1.0
CE2 A:TYR73 3.7 60.3 1.0
N A:GLY71 3.9 57.3 1.0
O1D B:HEM801 3.9 58.8 1.0
CA A:GLY71 3.9 56.6 1.0
CBA B:HEM802 4.2 60.2 1.0
N A:ALA72 4.3 54.5 1.0
CZ B:ARG57 4.4 44.1 1.0
CG B:GLU135 4.5 53.6 1.0
CA A:ALA72 4.7 54.1 1.0
CD1 A:TYR73 4.7 59.2 1.0
NH1 B:ARG57 4.7 44.1 1.0
CD2 A:TYR73 4.8 59.9 1.0
CAA B:HEM802 4.8 58.5 1.0
CBD B:HEM801 4.9 53.5 1.0

Calcium binding site 2 out of 2 in 5guw

Go back to Calcium Binding Sites List in 5guw
Calcium binding site 2 out of 2 in the Complex of Cytochrome CD1 Nitrite Reductase and Nitric Oxide Reductase in Denitrification of Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Complex of Cytochrome CD1 Nitrite Reductase and Nitric Oxide Reductase in Denitrification of Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca202

b:8.9
occ:1.00
O C:GLY71 2.4 37.6 1.0
OH C:TYR73 2.4 38.8 1.0
OE1 D:GLU135 2.5 39.2 1.0
O2A D:HEM802 2.5 46.5 1.0
O2D D:HEM801 2.6 45.4 1.0
OE2 D:GLU135 3.0 40.7 1.0
O1A D:HEM802 3.1 45.3 1.0
CGA D:HEM802 3.1 45.4 1.0
CD D:GLU135 3.1 40.6 1.0
CZ C:TYR73 3.2 37.8 1.0
C C:GLY71 3.4 36.2 1.0
CGD D:HEM801 3.6 44.8 1.0
N C:GLY71 3.7 36.6 1.0
CE1 C:TYR73 3.7 37.4 1.0
NH2 D:ARG57 3.8 34.4 1.0
CA C:GLY71 3.9 36.3 1.0
O1D D:HEM801 4.0 46.8 1.0
CE2 C:TYR73 4.1 38.0 1.0
CBA D:HEM802 4.4 44.9 1.0
N C:ALA72 4.5 35.8 1.0
CG D:GLU135 4.6 41.5 1.0
CAA D:HEM802 4.7 45.8 1.0
CZ D:ARG57 4.8 34.6 1.0
CD1 C:TYR73 4.9 37.2 1.0
C C:GLU70 4.9 36.8 1.0
CA C:ALA72 5.0 35.8 1.0

Reference:

E.Terasaka, K.Yamada, P.H.Wang, K.Hosokawa, R.Yamagiwa, K.Matsumoto, S.Ishii, T.Mori, K.Yagi, H.Sawai, H.Arai, H.Sugimoto, Y.Sugita, Y.Shiro, T.Tosha. Dynamics of Nitric Oxide Controlled By Protein Complex in Bacterial System Proc. Natl. Acad. Sci. V. 114 9888 2017U.S.A..
ISSN: ESSN 1091-6490
PubMed: 28847930
DOI: 10.1073/PNAS.1621301114
Page generated: Sun Jul 14 19:44:48 2024

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