Ruthenium in PDB 5lvk: Human Lysozyme Soaked with [H2IND][Trans-RUCL4(Dmso)(Hind)]

All present enzymatic activity of Human Lysozyme Soaked with [H2IND][Trans-RUCL4(Dmso)(Hind)]:
3.2.1.17;

The structure of Human Lysozyme Soaked with [H2IND][Trans-RUCL4(Dmso)(Hind)], PDB code: 5lvk was solved by K.Kurpiewska, A.Szura, K.Lewinski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	14.37 / 2.49
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	42.039, 64.100, 111.311, 90.00, 90.00, 90.00
R / Rfree (%)	17.7 / 28.1

The structure of Human Lysozyme Soaked with [H2IND][Trans-RUCL4(Dmso)(Hind)] also contains other interesting chemical elements:

Chlorine	(Cl)	5 atoms
Sodium	(Na)	3 atoms

The binding sites of Ruthenium atom in the Human Lysozyme Soaked with [H2IND][Trans-RUCL4(Dmso)(Hind)] (pdb code 5lvk). This binding sites where shown within 5.0 Angstroms radius around Ruthenium atom.
In total 2 binding sites of Ruthenium where determined in the Human Lysozyme Soaked with [H2IND][Trans-RUCL4(Dmso)(Hind)], PDB code: 5lvk:
Jump to Ruthenium binding site number: 1; 2;

Ruthenium binding site 1 out of 2 in the Human Lysozyme Soaked with [H2IND][Trans-RUCL4(Dmso)(Hind)]


Mono view


Stereo pair view

A full contact list of Ruthenium with other atoms in the Ru binding site number 1 of Human Lysozyme Soaked with [H2IND][Trans-RUCL4(Dmso)(Hind)] within 5.0Å range: probe atom residue distance (Å) B Occ B:Ru201 b:58.0 occ:0.76 NE B:ARG113 3.1 15.1 0.4 CG B:ARG113 3.3 18.6 0.4 NE2 B:GLN117 3.4 9.9 1.0 CD B:ARG113 3.5 18.4 0.4 O B:HOH413 3.5 16.1 1.0 NH2 B:ARG107 3.6 18.5 1.0 NE B:ARG113 3.6 16.0 0.6 NH2 B:ARG113 3.7 23.9 0.6 CZ B:ARG113 3.9 22.6 0.4 NH1 B:ARG107 3.9 25.7 1.0 CZ B:ARG113 4.1 20.2 0.6 CZ B:ARG107 4.1 19.6 1.0 NH2 B:ARG113 4.3 27.6 0.4 CD B:GLN117 4.5 19.8 1.0 CB B:ARG113 4.6 14.0 0.4 CB B:ARG113 4.6 13.9 0.6 CD B:ARG113 4.7 16.4 0.6 NH1 B:ARG113 4.8 17.5 0.4 OE1 B:GLN117 4.8 23.4 1.0

Ruthenium binding site 2 out of 2 in the Human Lysozyme Soaked with [H2IND][Trans-RUCL4(Dmso)(Hind)]


Mono view


Stereo pair view

A full contact list of Ruthenium with other atoms in the Ru binding site number 2 of Human Lysozyme Soaked with [H2IND][Trans-RUCL4(Dmso)(Hind)] within 5.0Å range: probe atom residue distance (Å) B Occ B:Ru202 b:52.0 occ:0.69 O B:HOH407 2.4 34.5 1.0 O B:HOH425 3.0 36.2 1.0 N B:GLY127 3.2 13.7 1.0 O B:HOH397 3.4 30.7 1.0 CA B:GLY127 3.5 27.6 1.0 O B:HOH404 3.8 48.6 1.0 O B:HOH406 4.0 33.4 1.0 N B:GLY129 4.0 18.1 1.0 C B:GLY127 4.1 13.5 1.0 N B:CYS128 4.2 21.6 1.0 C B:GLN126 4.3 19.4 1.0 O B:HOH387 4.4 28.2 1.0 CA B:GLY129 4.5 12.9 1.0 O B:VAL125 4.6 11.3 1.0 CA B:GLN126 4.6 18.6 1.0 O B:GLY127 4.9 13.6 1.0

M.Oszajca, K.Kurpiewska, P.Halajko, A.Szura, K.Lewinski, M.Brindell. Ligand-Dependent Interaction of Anticancer Ruthenium Complexes with Hen Egg White Lysozyme and Human Lysozyme To Be Published.