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Calcium in PDB 3hb3: High Resolution Crystal Structure of Paracoccus Denitrificans Cytochrome C Oxidase

Enzymatic activity of High Resolution Crystal Structure of Paracoccus Denitrificans Cytochrome C Oxidase

All present enzymatic activity of High Resolution Crystal Structure of Paracoccus Denitrificans Cytochrome C Oxidase:
1.9.3.1;

Protein crystallography data

The structure of High Resolution Crystal Structure of Paracoccus Denitrificans Cytochrome C Oxidase, PDB code: 3hb3 was solved by J.Koepke, H.Angerer, G.Peng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.98 / 2.25
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 83.403, 150.473, 157.185, 90.00, 90.00, 90.00
R / Rfree (%) 21.8 / 28

Other elements in 3hb3:

The structure of High Resolution Crystal Structure of Paracoccus Denitrificans Cytochrome C Oxidase also contains other interesting chemical elements:

Manganese (Mn) 1 atom
Iron (Fe) 2 atoms
Copper (Cu) 3 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the High Resolution Crystal Structure of Paracoccus Denitrificans Cytochrome C Oxidase (pdb code 3hb3). 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 High Resolution Crystal Structure of Paracoccus Denitrificans Cytochrome C Oxidase, PDB code: 3hb3:

Calcium binding site 1 out of 1 in 3hb3

Go back to Calcium Binding Sites List in 3hb3
Calcium binding site 1 out of 1 in the High Resolution Crystal Structure of Paracoccus Denitrificans Cytochrome C Oxidase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of High Resolution Crystal Structure of Paracoccus Denitrificans Cytochrome C Oxidase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca563

b:35.0
occ:1.00
 OE2 A:GLU56 2.3 30.7 1.0
O A:HOH851 2.3 33.5 1.0
O A:GLU56 2.3 32.3 1.0
O A:HIS59 2.3 33.7 1.0
O A:GLY61 2.3 38.9 1.0
OE1 A:GLN63 2.3 38.4 1.0
O A:HOH965 2.7 35.5 1.0
CD A:GLU56 3.4 34.5 1.0
C A:GLU56 3.4 31.6 1.0
CD A:GLN63 3.4 42.9 1.0
C A:GLY61 3.5 39.2 1.0
C A:HIS59 3.5 34.6 1.0
NE2 A:GLN63 3.9 42.9 1.0
CG A:GLU56 3.9 34.2 1.0
CA A:GLU56 3.9 30.1 1.0
CA A:VAL62 4.0 39.4 1.0
N A:HIS59 4.1 34.5 1.0
N A:GLN63 4.1 39.4 1.0
N A:VAL62 4.2 39.3 1.0
N A:GLY61 4.2 37.0 1.0
C A:PRO60 4.2 36.3 1.0
CA A:HIS59 4.3 35.3 1.0
OE1 A:GLU56 4.5 32.5 1.0
O A:PRO60 4.5 35.2 1.0
C A:VAL62 4.5 40.3 1.0
CA A:GLY61 4.5 38.4 1.0
N A:PRO60 4.5 33.6 1.0
CB A:GLU56 4.5 30.0 1.0
N A:LEU57 4.6 30.4 1.0
CA A:PRO60 4.7 35.4 1.0
CB A:HIS59 4.7 35.5 1.0
O A:HOH771 4.7 54.5 1.0
CG A:GLN63 4.8 40.1 1.0
OD1 A:ASP477 4.8 31.8 1.0
O A:MET55 4.9 25.7 1.0
CA A:LEU57 4.9 28.1 1.0

Reference:

J.Koepke, E.Olkhova, H.Angerer, H.Muller, G.Peng, H.Michel. High Resolution Crystal Structure of Paracoccus Denitrificans Cytochrome C Oxidase: New Insights Into the Active Site and the Proton Transfer Pathways Biochim.Biophys.Acta V.1787 635 2009.
ISSN: ISSN 0006-3002
PubMed: 19374884
DOI: 10.1016/J.BBABIO.2009.04.003
Page generated: Sat Jul 13 10:54:34 2024

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