Atomistry » Calcium » PDB 3ecj-3eqd » 3ehb
Atomistry »
  Calcium »
    PDB 3ecj-3eqd »
      3ehb »

Calcium in PDB 3ehb: A D-Pathway Mutation Decouples the Paracoccus Denitrificans Cytochrome C Oxidase By Altering the Side Chain Orientation of A Distant, Conserved Glutamate

Enzymatic activity of A D-Pathway Mutation Decouples the Paracoccus Denitrificans Cytochrome C Oxidase By Altering the Side Chain Orientation of A Distant, Conserved Glutamate

All present enzymatic activity of A D-Pathway Mutation Decouples the Paracoccus Denitrificans Cytochrome C Oxidase By Altering the Side Chain Orientation of A Distant, Conserved Glutamate:
1.9.3.1;

Protein crystallography data

The structure of A D-Pathway Mutation Decouples the Paracoccus Denitrificans Cytochrome C Oxidase By Altering the Side Chain Orientation of A Distant, Conserved Glutamate, PDB code: 3ehb was solved by J.Koepke, H.Mueller, G.Peng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.69 / 2.32
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 84.461, 151.332, 157.487, 90.00, 90.00, 90.00
R / Rfree (%) 20.5 / 24.2

Other elements in 3ehb:

The structure of A D-Pathway Mutation Decouples the Paracoccus Denitrificans Cytochrome C Oxidase By Altering the Side Chain Orientation of A Distant, Conserved Glutamate also contains other interesting chemical elements:

Magnesium (Mg) 1 atom
Iron (Fe) 2 atoms
Copper (Cu) 3 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the A D-Pathway Mutation Decouples the Paracoccus Denitrificans Cytochrome C Oxidase By Altering the Side Chain Orientation of A Distant, Conserved Glutamate (pdb code 3ehb). 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 A D-Pathway Mutation Decouples the Paracoccus Denitrificans Cytochrome C Oxidase By Altering the Side Chain Orientation of A Distant, Conserved Glutamate, PDB code: 3ehb:

Calcium binding site 1 out of 1 in 3ehb

Go back to Calcium Binding Sites List in 3ehb
Calcium binding site 1 out of 1 in the A D-Pathway Mutation Decouples the Paracoccus Denitrificans Cytochrome C Oxidase By Altering the Side Chain Orientation of A Distant, Conserved Glutamate


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of A D-Pathway Mutation Decouples the Paracoccus Denitrificans Cytochrome C Oxidase By Altering the Side Chain Orientation of A Distant, Conserved Glutamate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca563

b:53.9
occ:1.00
 O A:HIS59 2.3 40.8 1.0
OE1 A:GLN63 2.3 58.5 1.0
OE2 A:GLU56 2.3 46.5 1.0
O A:GLY61 2.3 58.1 1.0
O A:GLU56 2.4 51.4 1.0
O A:HOH669 2.4 46.4 1.0
CD A:GLN63 3.4 62.1 1.0
CD A:GLU56 3.4 54.9 1.0
C A:GLU56 3.5 49.7 1.0
C A:GLY61 3.5 60.2 1.0
C A:HIS59 3.5 44.9 1.0
CA A:VAL62 3.9 54.9 1.0
CA A:GLU56 4.0 45.4 1.0
NE2 A:GLN63 4.0 57.4 1.0
CG A:GLU56 4.0 52.1 1.0
N A:VAL62 4.1 54.3 1.0
C A:PRO60 4.1 52.5 1.0
N A:HIS59 4.1 52.4 1.0
O A:PRO60 4.1 48.9 1.0
N A:GLN63 4.2 62.4 1.0
CA A:HIS59 4.3 50.3 1.0
N A:GLY61 4.4 53.9 1.0
CA A:PRO60 4.4 52.6 1.0
N A:PRO60 4.5 46.5 1.0
C A:VAL62 4.5 62.6 1.0
OE1 A:GLU56 4.5 51.1 1.0
CB A:HIS59 4.5 52.6 1.0
O A:HOH658 4.5 62.5 1.0
CB A:GLU56 4.6 46.9 1.0
CG A:GLN63 4.6 63.1 1.0
OD1 A:ASP477 4.6 53.0 1.0
N A:LEU57 4.6 45.5 1.0
CA A:GLY61 4.7 50.9 1.0
N A:GLN58 4.9 43.9 1.0
CA A:LEU57 4.9 42.5 1.0

Reference:

K.L.Durr, J.Koepke, P.Hellwig, H.Muller, H.Angerer, G.Peng, E.Olkhova, O.-M.H.Richter, B.Ludwig, H.Michel. A D-Pathway Mutation Decouples the Paracoccusdenitrificans Cytochrome C Oxidase By Altering the Side-Chain Orientation of A Distant Conserved Glutamate J.Mol.Biol. V. 384 865 2008.
ISSN: ISSN 0022-2836
PubMed: 18930738
DOI: 10.1016/J.JMB.2008.09.074
Page generated: Sat Dec 12 04:10:08 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy