Sodium in PDB 1yky: Effect of Alcohols on Protein Hydration

All present enzymatic activity of Effect of Alcohols on Protein Hydration:
3.2.1.17;

The structure of Effect of Alcohols on Protein Hydration, PDB code: 1yky was solved by A.Deshpande, S.Nimsadkar, S.C.Mande, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	31.42 / 1.90
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	79.294, 79.294, 37.930, 90.00, 90.00, 90.00
R / Rfree (%)	18.5 / 22.2

The structure of Effect of Alcohols on Protein Hydration also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Sodium atom in the Effect of Alcohols on Protein Hydration (pdb code 1yky). 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 Effect of Alcohols on Protein Hydration, PDB code: 1yky:

Sodium binding site 1 out of 1 in the Effect of Alcohols on Protein Hydration


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Effect of Alcohols on Protein Hydration within 5.0Å range: probe atom residue distance (Å) B Occ X:Na130 b:20.0 occ:1.00 O X:SER60 2.5 18.1 1.0 O X:CYS64 2.5 16.2 1.0 O X:ARG73 2.5 32.3 1.0 OG X:SER72 2.6 33.5 1.0 O X:HOH1075 2.6 30.2 1.0 O X:HOH1046 2.7 18.0 1.0 CB X:SER72 3.2 32.6 1.0 C X:ARG73 3.4 29.9 1.0 C X:CYS64 3.5 15.3 1.0 C X:SER60 3.6 17.7 1.0 N X:ARG73 3.8 30.4 1.0 C X:SER72 3.9 31.9 1.0 CA X:ASN65 3.9 16.5 1.0 N X:ASN65 4.1 15.2 1.0 CA X:SER72 4.2 32.1 1.0 CA X:ARG73 4.2 31.5 1.0 N X:ASN74 4.3 25.7 1.0 O X:SER72 4.3 30.2 1.0 O X:ARG61 4.4 24.4 1.0 CA X:SER60 4.4 15.6 1.0 C X:ARG61 4.4 23.5 1.0 N X:CYS64 4.4 14.1 1.0 CA X:ASN74 4.4 23.8 1.0 CA X:CYS64 4.6 14.4 1.0 N X:ARG61 4.6 18.2 1.0 CB X:SER60 4.6 16.3 1.0 CB X:ASN65 4.7 18.6 1.0 CB X:ASN74 4.7 22.5 1.0 CA X:ARG61 4.8 22.8 1.0 O X:HOH1040 4.8 22.4 1.0 CB X:THR69 4.8 18.5 1.0 OD1 X:ASN65 4.8 25.3 1.0 N X:TRP62 4.8 22.2 1.0 N X:ASP66 4.9 15.5 1.0 O X:THR69 4.9 21.1 1.0 C X:ASN65 5.0 15.4 1.0

A.Deshpande, S.Nimsadkar, S.C.Mande. Effect of Alcohols on Protein Hydration: Crystallographic Analysis of Hen Egg-White Lysozyme in the Presence of Alcohols. Acta Crystallogr.,Sect.D V. 61 1005 2005.
ISSN: ISSN 0907-4449
PubMed: 15983424
DOI: 10.1107/S0907444905009364