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Sodium in PDB 3deb: Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain

Enzymatic activity of Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain

All present enzymatic activity of Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain:
3.4.24.69;

Protein crystallography data

The structure of Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain, PDB code: 3deb was solved by R.Rawat, D.Kumaran, S.Swaminathan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.88 / 1.95
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 106.740, 106.740, 140.240, 90.00, 90.00, 120.00
R / Rfree (%) 19.4 / 20

Other elements in 3deb:

The structure of Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain (pdb code 3deb). 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 Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain, PDB code: 3deb:

Sodium binding site 1 out of 1 in 3deb

Go back to Sodium Binding Sites List in 3deb
Sodium binding site 1 out of 1 in the Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na499

b:44.2
occ:1.00
 O A:HOH949 2.3 42.7 1.0
O A:HOH554 2.4 19.8 1.0
O A:PRO168 2.4 20.0 1.0
O A:HOH971 2.7 45.8 1.0
O A:HOH531 2.8 19.6 1.0
O A:HOH972 3.1 44.4 1.0
OE2 A:GLU269 3.5 19.7 1.0
C A:PRO168 3.6 20.3 1.0
O A:HOH970 3.6 44.7 1.0
CA A:GLU169 3.9 21.4 1.0
OD1 A:ASP167 4.0 25.9 1.0
O A:HOH564 4.1 24.1 1.0
N A:GLU169 4.2 20.6 1.0
OE2 A:GLU230 4.2 15.7 1.0
OE1 A:GLU230 4.4 16.9 1.0
CB A:GLU169 4.5 24.1 1.0
CG A:GLU169 4.6 31.4 1.0
CD A:GLU230 4.7 14.4 1.0
CD A:GLU269 4.7 18.7 1.0
CA A:PRO168 4.7 19.2 1.0
O A:HOH769 4.8 44.1 1.0
N A:THR170 4.8 17.8 1.0
N A:PRO168 4.9 20.6 1.0
C A:GLU169 5.0 18.9 1.0
CG A:ASP167 5.0 25.2 1.0
O A:HOH969 5.0 43.1 1.0

Reference:

R.Rawat, D.Kumaran, S.Swaminathan. Crystal Structure of Apo Form (Zinc Removed) of the Botulinum Neurotoxin Type C Light Chain To Be Published.
Page generated: Mon Oct 7 08:13:21 2024

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