Sodium in PDB 8rnx: Hen Egg White Lysozyme Soaked with [Hisq][Trans-RUCL4(Dmso)(Isq)]

All present enzymatic activity of Hen Egg White Lysozyme Soaked with [Hisq][Trans-RUCL4(Dmso)(Isq)]:
3.2.1.17;

The structure of Hen Egg White Lysozyme Soaked with [Hisq][Trans-RUCL4(Dmso)(Isq)], PDB code: 8rnx was solved by M.Oszajca, M.Flejszar, A.Szura, P.Drozdz, M.Brindell, K.Kurpiewska, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.16 / 1.25
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	78.993, 78.993, 37.002, 90, 90, 90
R / Rfree (%)	22.2 / 24.8

The structure of Hen Egg White Lysozyme Soaked with [Hisq][Trans-RUCL4(Dmso)(Isq)] also contains other interesting chemical elements:

Chlorine	(Cl)	3 atoms
Ruthenium	(Ru)	1 atom

The binding sites of Sodium atom in the Hen Egg White Lysozyme Soaked with [Hisq][Trans-RUCL4(Dmso)(Isq)] (pdb code 8rnx). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Hen Egg White Lysozyme Soaked with [Hisq][Trans-RUCL4(Dmso)(Isq)], PDB code: 8rnx:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Hen Egg White Lysozyme Soaked with [Hisq][Trans-RUCL4(Dmso)(Isq)]


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Hen Egg White Lysozyme Soaked with [Hisq][Trans-RUCL4(Dmso)(Isq)] within 5.0Å range: probe atom residue distance (Å) B Occ A:Na202 b:20.6 occ:1.00 O A:SER60 2.4 19.5 1.0 O A:HOH348 2.4 23.2 1.0 O A:CYS64 2.4 18.7 1.0 O A:ARG73 2.4 22.0 1.0 O A:HOH334 2.4 19.9 1.0 OG A:SER72 2.5 21.9 1.0 CB A:SER72 3.3 18.6 1.0 C A:ARG73 3.5 21.8 1.0 C A:CYS64 3.5 17.5 1.0 C A:SER60 3.5 18.5 1.0 CA A:ASN65 3.9 20.8 1.0 N A:ARG73 3.9 23.5 1.0 CA A:SER60 4.1 18.0 1.0 C A:SER72 4.1 27.1 1.0 N A:ASN65 4.1 18.5 1.0 CB A:SER60 4.3 18.5 1.0 CA A:ARG73 4.3 23.0 1.0 CA A:SER72 4.3 23.5 1.0 N A:ASN74 4.4 21.8 1.0 N A:CYS64 4.5 17.5 1.0 CA A:ASN74 4.5 20.4 1.0 O A:ARG61 4.6 22.4 1.0 C A:ARG61 4.6 24.7 1.0 N A:ASP66 4.6 17.1 1.0 N A:ARG61 4.6 18.8 1.0 OD1 A:ASN65 4.6 21.3 1.0 CA A:CYS64 4.6 17.8 1.0 CB A:ASN74 4.7 22.6 1.0 O A:SER72 4.7 24.2 1.0 CL A:CL205 4.7 23.8 1.0 CB A:THR69 4.7 19.1 1.0 C A:ASN65 4.8 17.4 1.0 CB A:ASN65 4.8 21.2 1.0 CA A:ARG61 4.9 20.7 1.0 N A:TRP62 4.9 20.9 1.0

Sodium binding site 2 out of 2 in the Hen Egg White Lysozyme Soaked with [Hisq][Trans-RUCL4(Dmso)(Isq)]


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Hen Egg White Lysozyme Soaked with [Hisq][Trans-RUCL4(Dmso)(Isq)] within 5.0Å range: probe atom residue distance (Å) B Occ A:Na203 b:43.8 occ:1.00 O A:HOH341 2.3 47.4 1.0 O A:HOH379 2.4 40.1 1.0 NE2 A:HIS15 2.5 38.8 1.0 NH1 A:ARG14 2.6 48.5 1.0 O A:HOH381 2.9 25.8 1.0 CE1 A:HIS15 3.2 37.5 1.0 CD2 A:HIS15 3.6 29.6 1.0 CZ A:ARG14 3.7 47.8 1.0 OD1 A:ASP87 3.9 35.1 1.0 CD A:ARG14 4.3 44.1 1.0 ND1 A:HIS15 4.4 37.9 1.0 NE A:ARG14 4.4 50.4 1.0 NH2 A:ARG14 4.6 44.0 1.0 CG A:HIS15 4.6 31.2 1.0 OG1 A:THR89 4.7 30.2 1.0 CG A:ASP87 4.7 36.8 1.0

M.Oszajca, M.Flejszar, A.Szura, P.Drozdz, M.Brindell, K.Kurpiewska. Exploring the Coordination Chemistry of Ruthenium Complexes with Lysozymes: Structural and in Solution Studies To Be Published.