Sodium in PDB 8ezp: Lysozyme Anomalous Dataset at 260 K and 7.1 Kev

All present enzymatic activity of Lysozyme Anomalous Dataset at 260 K and 7.1 Kev:
3.2.1.17;

The structure of Lysozyme Anomalous Dataset at 260 K and 7.1 Kev, PDB code: 8ezp was solved by T.Doukov, F.Yabukarski, D.Herschlag, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.78 / 1.90
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	77.502, 77.502, 37.177, 90, 90, 90
R / Rfree (%)	13 / 17.3

The structure of Lysozyme Anomalous Dataset at 260 K and 7.1 Kev also contains other interesting chemical elements:

Chlorine

(Cl)

7 atoms

The binding sites of Sodium atom in the Lysozyme Anomalous Dataset at 260 K and 7.1 Kev (pdb code 8ezp). 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 Lysozyme Anomalous Dataset at 260 K and 7.1 Kev, PDB code: 8ezp:

Sodium binding site 1 out of 1 in the Lysozyme Anomalous Dataset at 260 K and 7.1 Kev


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Lysozyme Anomalous Dataset at 260 K and 7.1 Kev within 5.0Å range: probe atom residue distance (Å) B Occ A:Na208 b:23.9 occ:0.86 O A:HOH369 2.3 22.7 1.0 O A:SER60 2.3 16.1 1.0 O A:ARG73 2.4 25.2 1.0 OG A:SER72 2.4 33.5 1.0 O A:HOH366 2.5 16.0 1.0 O A:CYS64 2.6 13.6 1.0 CB A:SER72 3.2 31.7 1.0 C A:ARG73 3.5 26.9 1.0 C A:SER60 3.5 15.2 1.0 C A:CYS64 3.6 15.6 1.0 N A:ARG73 3.9 24.9 1.0 CA A:ASN65 4.0 15.2 1.0 C A:SER72 4.0 30.5 1.0 CA A:SER60 4.1 13.9 1.0 N A:ASN65 4.2 15.4 1.0 CA A:SER72 4.2 32.8 1.0 CA A:ARG73 4.3 26.0 1.0 CB A:SER60 4.3 13.8 1.0 N A:ASN74 4.4 22.2 1.0 C A:ARG61 4.5 17.3 1.0 O A:ARG61 4.5 20.3 1.0 N A:ARG61 4.5 14.8 1.0 CA A:ASN74 4.5 18.6 1.0 N A:CYS64 4.6 15.0 1.0 O A:SER72 4.6 27.1 1.0 CL A:CL203 4.6 22.8 0.7 OD1 A:ASN65 4.7 24.2 1.0 CA A:ARG61 4.7 17.6 0.5 CB A:ASN74 4.7 19.1 1.0 CA A:CYS64 4.7 14.1 1.0 CB A:THR69 4.8 17.4 1.0 N A:ASP66 4.8 13.8 1.0 CB A:ASN65 4.8 17.8 1.0 CA A:ARG61 4.8 17.0 0.5 N A:TRP62 4.8 15.9 1.0 C A:ASN65 4.9 14.1 1.0

T.Doukov, D.Herschlag, F.Yabukarski. Obtaining Anomalous and Ensemble Information From Protein Crystals From 220 K Up to Physiological Temperatures Acta Crystallogr.,Sect.D V. D79 212 2023.
ISSN: ESSN 1399-0047
DOI: 10.1107/S205979832300089X