Sodium in PDB 6qlw: Cathepsin-K in Complex with Miv-710

All present enzymatic activity of Cathepsin-K in Complex with Miv-710:
3.4.22.38;

The structure of Cathepsin-K in Complex with Miv-710, PDB code: 6qlw was solved by D.J.Derbyshire, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	74.47 / 2.00
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	75.727, 69.484, 78.680, 90.00, 100.89, 90.00
R / Rfree (%)	18 / 22.5

The structure of Cathepsin-K in Complex with Miv-710 also contains other interesting chemical elements:

Fluorine	(F)	4 atoms
Chlorine	(Cl)	11 atoms

The binding sites of Sodium atom in the Cathepsin-K in Complex with Miv-710 (pdb code 6qlw). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Cathepsin-K in Complex with Miv-710, PDB code: 6qlw:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Cathepsin-K in Complex with Miv-710


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Cathepsin-K in Complex with Miv-710 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na305 b:26.9 occ:1.00 OD1 A:ASN70 2.3 12.6 1.0 OE1 A:GLN73 2.5 13.7 1.0 O A:HOH565 2.5 24.1 1.0 OE1 A:GLU59 2.6 17.6 1.0 O A:HOH484 2.7 19.9 1.0 CD A:GLU59 3.3 17.9 1.0 CD A:GLN73 3.3 13.4 1.0 CG A:ASN70 3.5 12.4 1.0 NE2 A:GLN73 3.5 13.4 1.0 OE2 A:GLU59 3.7 18.6 1.0 ND2 A:ASN70 4.3 12.4 1.0 O A:HOH409 4.3 14.9 1.0 CG A:GLU59 4.4 17.6 1.0 CB A:ASN70 4.4 12.2 1.0 O A:HOH581 4.4 23.2 1.0 CA A:ASN70 4.5 12.2 1.0 CB A:GLU59 4.5 16.9 1.0 CG A:GLN73 4.7 13.3 1.0

Sodium binding site 2 out of 2 in the Cathepsin-K in Complex with Miv-710


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Cathepsin-K in Complex with Miv-710 within 5.0Å range: probe atom residue distance (Å) B Occ C:Na304 b:26.2 occ:1.00 OD1 C:ASN70 2.4 13.1 1.0 OE1 C:GLU59 2.4 18.3 1.0 OE1 C:GLN73 2.4 14.0 1.0 O C:HOH482 2.6 24.4 1.0 O C:HOH568 2.6 29.5 1.0 CD C:GLU59 3.2 18.9 1.0 CD C:GLN73 3.3 13.7 1.0 CG C:ASN70 3.5 12.9 1.0 OE2 C:GLU59 3.6 19.5 1.0 NE2 C:GLN73 3.6 13.6 1.0 CG C:GLU59 4.3 18.6 1.0 O C:HOH431 4.3 10.4 1.0 O C:HOH557 4.3 20.8 1.0 ND2 C:ASN70 4.3 13.0 1.0 CB C:GLU59 4.5 18.1 1.0 CB C:ASN70 4.5 12.6 1.0 CA C:ASN70 4.5 12.6 1.0 CG C:GLN73 4.7 13.6 1.0

D.J.Derbyshire, D.J.Derbyshire. N/A N/A.