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Sodium in PDB 4yxw: Bovine Heart Mitochondrial F1-Atpase Inhibited By Amp-Pnp and Adp in the Presence of Thiophosphate.

Enzymatic activity of Bovine Heart Mitochondrial F1-Atpase Inhibited By Amp-Pnp and Adp in the Presence of Thiophosphate.

All present enzymatic activity of Bovine Heart Mitochondrial F1-Atpase Inhibited By Amp-Pnp and Adp in the Presence of Thiophosphate.:
3.6.3.14;

Protein crystallography data

The structure of Bovine Heart Mitochondrial F1-Atpase Inhibited By Amp-Pnp and Adp in the Presence of Thiophosphate., PDB code: 4yxw was solved by J.V.Bason, M.G.Montgomery, A.G.W.Leslie, J.E.Walker, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 76.50 / 3.10
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 105.353, 123.052, 261.276, 90.00, 90.00, 90.00
R / Rfree (%) 22.6 / 27.3

Other elements in 4yxw:

The structure of Bovine Heart Mitochondrial F1-Atpase Inhibited By Amp-Pnp and Adp in the Presence of Thiophosphate. also contains other interesting chemical elements:

Magnesium (Mg) 5 atoms
Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Bovine Heart Mitochondrial F1-Atpase Inhibited By Amp-Pnp and Adp in the Presence of Thiophosphate. (pdb code 4yxw). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Bovine Heart Mitochondrial F1-Atpase Inhibited By Amp-Pnp and Adp in the Presence of Thiophosphate., PDB code: 4yxw:

Sodium binding site 1 out of 1 in 4yxw

Go back to Sodium Binding Sites List in 4yxw
Sodium binding site 1 out of 1 in the Bovine Heart Mitochondrial F1-Atpase Inhibited By Amp-Pnp and Adp in the Presence of Thiophosphate.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Bovine Heart Mitochondrial F1-Atpase Inhibited By Amp-Pnp and Adp in the Presence of Thiophosphate. within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Na503

b:61.0
occ:1.00
 O F:LEU414 2.4 68.4 1.0
C F:LEU414 3.6 68.5 1.0
CB F:GLN416 3.7 61.8 1.0
OE1 F:GLN416 3.8 57.3 1.0
N F:VAL139 3.8 55.6 1.0
CG1 F:VAL139 3.8 56.4 1.0
CG F:PRO346 3.9 59.7 1.0
CG2 F:ILE137 3.9 59.0 1.0
N F:LYS138 3.9 56.4 1.0
CD F:PRO346 3.9 59.7 1.0
CG2 F:VAL139 4.0 55.7 1.0
C F:SER415 4.1 66.4 1.0
N F:GLN416 4.1 65.8 1.0
CB F:LYS138 4.2 56.3 1.0
CA F:SER415 4.3 66.8 1.0
CB F:VAL139 4.3 55.6 1.0
CA F:LYS138 4.4 56.4 1.0
N F:SER415 4.4 67.3 1.0
O F:SER415 4.5 67.9 1.0
CA F:GLN416 4.6 64.3 1.0
CA F:LEU414 4.6 69.0 1.0
C F:LYS138 4.6 56.2 1.0
CE F:LYS138 4.6 55.5 1.0
CD F:GLN416 4.6 59.6 1.0
C F:ILE137 4.6 56.5 1.0
CA F:VAL139 4.7 55.4 1.0
CG F:GLN416 4.8 60.2 1.0
CA F:ILE137 4.9 57.7 1.0
CG F:LYS138 5.0 56.0 1.0
N F:PRO346 5.0 59.2 1.0

Reference:

J.V.Bason, M.G.Montgomery, A.G.Leslie, J.E.Walker. How Release of Phosphate From Mammalian F1-Atpase Generates A Rotary Substep. Proc.Natl.Acad.Sci.Usa V. 112 6009 2015.
ISSN: ESSN 1091-6490
PubMed: 25918412
DOI: 10.1073/PNAS.1506465112
Page generated: Mon Oct 7 19:35:56 2024

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