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Sodium in PDB 3c88: Crystal Structure of the Catalytic Domain of Botulinum Neurotoxin Serotype A with Inhibitory Peptide Rrgc

Enzymatic activity of Crystal Structure of the Catalytic Domain of Botulinum Neurotoxin Serotype A with Inhibitory Peptide Rrgc

All present enzymatic activity of Crystal Structure of the Catalytic Domain of Botulinum Neurotoxin Serotype A with Inhibitory Peptide Rrgc:
3.4.24.69;

Protein crystallography data

The structure of Crystal Structure of the Catalytic Domain of Botulinum Neurotoxin Serotype A with Inhibitory Peptide Rrgc, PDB code: 3c88 was solved by D.Kumaran, S.Swaminathan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 32.04 / 1.60
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 50.883, 66.392, 64.746, 90.00, 98.28, 90.00
R / Rfree (%) 19.8 / 21.7

Other elements in 3c88:

The structure of Crystal Structure of the Catalytic Domain of Botulinum Neurotoxin Serotype A with Inhibitory Peptide Rrgc also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of the Catalytic Domain of Botulinum Neurotoxin Serotype A with Inhibitory Peptide Rrgc (pdb code 3c88). 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 the Catalytic Domain of Botulinum Neurotoxin Serotype A with Inhibitory Peptide Rrgc, PDB code: 3c88:

Sodium binding site 1 out of 1 in 3c88

Go back to Sodium Binding Sites List in 3c88
Sodium binding site 1 out of 1 in the Crystal Structure of the Catalytic Domain of Botulinum Neurotoxin Serotype A with Inhibitory Peptide Rrgc


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 the Catalytic Domain of Botulinum Neurotoxin Serotype A with Inhibitory Peptide Rrgc within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na453

b:22.3
occ:1.00
SG B:CYS503 2.1 35.0 1.0
CB B:CYS503 3.2 28.8 1.0
CA B:CYS503 3.5 27.3 1.0
N B:CYS503 4.1 26.9 1.0
O A:HOH687 4.2 30.9 1.0
CD2 A:PHE423 4.8 35.1 1.0
C B:CYS503 4.8 26.0 1.0
CE2 A:PHE423 4.9 34.9 1.0
CD1 A:LEU256 4.9 34.9 1.0
C B:GLY502 4.9 27.5 1.0

Reference:

D.Kumaran, R.Rawat, M.L.Ludivico, S.A.Ahmed, S.Swaminathan. Structure- and Substrate-Based Inhibitor Design For Clostridium Botulinum Neurotoxin Serotype A J.Biol.Chem. V. 283 18883 2008.
ISSN: ISSN 0021-9258
PubMed: 18434312
DOI: 10.1074/JBC.M801240200
Page generated: Tue Dec 15 06:04:12 2020

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