Sodium in PDB 8d5w: Crystal Structure of Hen Egg White Lysozyme at 125 Kelvin

All present enzymatic activity of Crystal Structure of Hen Egg White Lysozyme at 125 Kelvin:
3.2.1.17;

The structure of Crystal Structure of Hen Egg White Lysozyme at 125 Kelvin, PDB code: 8d5w was solved by F.S.Ribeiro, L.M.T.R.Lima, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	22.30 / 1.50
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	78.782, 78.782, 37.17, 90, 90, 90
R / Rfree (%)	18.5 / 21.4

The structure of Crystal Structure of Hen Egg White Lysozyme at 125 Kelvin also contains other interesting chemical elements:

Chlorine

(Cl)

7 atoms

The binding sites of Sodium atom in the Crystal Structure of Hen Egg White Lysozyme at 125 Kelvin (pdb code 8d5w). 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 Hen Egg White Lysozyme at 125 Kelvin, PDB code: 8d5w:

Sodium binding site 1 out of 1 in the Crystal Structure of Hen Egg White Lysozyme at 125 Kelvin


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 Hen Egg White Lysozyme at 125 Kelvin within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:12.7 occ:1.00 O A:SER60 2.3 9.4 1.0 O A:HOH376 2.3 10.7 1.0 O A:HOH363 2.4 9.4 1.0 O A:ARG73 2.4 15.5 1.0 OG A:SER72 2.4 13.8 1.0 O A:CYS64 2.5 5.8 1.0 CB A:SER72 3.2 16.3 1.0 C A:SER60 3.4 9.3 1.0 C A:ARG73 3.5 13.6 1.0 C A:CYS64 3.6 6.0 1.0 CA A:ASN65 4.0 6.3 1.0 N A:ARG73 4.0 17.0 1.0 CA A:SER60 4.0 8.2 1.0 C A:SER72 4.1 19.5 1.0 N A:ASN65 4.2 6.3 1.0 CA A:SER72 4.3 16.9 1.0 CB A:SER60 4.3 7.4 1.0 CA A:ARG73 4.3 15.5 1.0 N A:ASN74 4.4 11.7 1.0 N A:ARG61 4.5 11.3 1.0 C A:ARG61 4.6 12.3 1.0 CB A:THR69 4.6 9.6 1.0 N A:CYS64 4.6 6.9 1.0 CL A:CL203 4.6 14.8 1.0 O A:ARG61 4.6 11.4 1.0 CA A:ASN74 4.7 9.9 1.0 ND2 A:ASN65 4.7 7.9 1.0 N A:ASP66 4.7 5.6 1.0 O A:SER72 4.7 21.0 1.0 CA A:CYS64 4.7 6.7 1.0 CB A:ASN74 4.8 9.7 1.0 N A:TRP62 4.8 11.3 1.0 CA A:ARG61 4.9 13.2 1.0 C A:ASN65 4.9 6.0 1.0 O A:THR69 4.9 10.6 1.0 CB A:ASN65 4.9 7.5 1.0 OG1 A:THR69 5.0 8.7 1.0

F.De Sa Ribeiro, L.M.T.Lima. Linking B-Factor and Temperature-Induced Conformational Transition Biophys.Chem. 07027 2023.
ISSN: ISSN 0301-4622
DOI: 10.1016/J.BPC.2023.107027