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Sodium in PDB 8cc3: Vibrio Cholerae Gbpa (Lpmo Domain)

Protein crystallography data

The structure of Vibrio Cholerae Gbpa (Lpmo Domain), PDB code: 8cc3 was solved by M.Montserrat-Canals, H.V.Sorensen, G.Cordara, U.Krengel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.14 / 1.13
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 74.911, 89.103, 47.135, 90, 90, 90
R / Rfree (%) 17.4 / 20.1

Other elements in 8cc3:

The structure of Vibrio Cholerae Gbpa (Lpmo Domain) also contains other interesting chemical elements:

Copper (Cu) 2 atoms
Zinc (Zn) 7 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Vibrio Cholerae Gbpa (Lpmo Domain) (pdb code 8cc3). 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 Vibrio Cholerae Gbpa (Lpmo Domain), PDB code: 8cc3:

Sodium binding site 1 out of 1 in 8cc3

Go back to Sodium Binding Sites List in 8cc3
Sodium binding site 1 out of 1 in the Vibrio Cholerae Gbpa (Lpmo Domain)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Vibrio Cholerae Gbpa (Lpmo Domain) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na305

b:9.4
occ:0.79
OE2 B:GLU173 2.6 12.6 1.0
CD B:GLU173 3.6 11.3 1.0
CG B:GLU173 3.8 10.6 1.0
CB B:GLU173 4.3 11.5 1.0
OE1 B:GLU173 4.7 11.4 1.0
CB B:ALA108 4.8 10.5 1.0

Reference:

H.V.Sorensen, M.Montserrat-Canals, J.S.M.Loose, S.Z.Fisher, M.Moulin, M.P.Blakeley, G.Cordara, K.Bjerregaard-Andersen, U.Krengel. Perdeuterated Gbpa Enables Neutron Scattering Experiments of A Lytic Polysaccharide Monooxygenase. Acs Omega V. 8 29101 2023.
ISSN: ESSN 2470-1343
PubMed: 37599915
DOI: 10.1021/ACSOMEGA.3C02168
Page generated: Wed Oct 9 10:54:52 2024

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