Sodium in PDB 6r5h: Major Aspartyl Peptidase 1 From C. Neoformans

The structure of Major Aspartyl Peptidase 1 From C. Neoformans, PDB code: 6r5h was solved by R.Krystufek, P.Sacha, J.Brynda, J.Konvalinka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.71 / 1.75
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	97.422, 112.058, 91.212, 90, 90, 90
R / Rfree (%)	18 / 21

The binding sites of Sodium atom in the Major Aspartyl Peptidase 1 From C. Neoformans (pdb code 6r5h). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Major Aspartyl Peptidase 1 From C. Neoformans, PDB code: 6r5h:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Major Aspartyl Peptidase 1 From C. Neoformans


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Major Aspartyl Peptidase 1 From C. Neoformans within 5.0Å range: probe atom residue distance (Å) B Occ A:Na416 b:45.7 occ:1.00 OD2 A:ASP238 3.2 27.4 1.0 OD1 A:ASP40 3.2 24.2 1.0 OD2 A:ASP40 3.2 23.4 1.0 O1 A:PEG410 3.3 47.8 1.0 OD1 A:ASP238 3.4 25.0 1.0 CG A:ASP40 3.6 22.7 1.0 CG A:ASP238 3.7 23.6 1.0 O A:GLY42 3.9 22.9 1.0 C1 A:PEG405 3.9 56.4 1.0 OG1 A:THR241 3.9 37.6 0.5 C A:GLY42 4.0 22.6 1.0 C1 A:PEG410 4.0 47.8 1.0 CG2 A:THR241 4.0 28.7 0.5 CA A:GLY42 4.0 23.1 1.0 CD1 A:TYR83 4.3 28.8 1.0 N A:SER43 4.6 22.9 1.0 O A:GLY240 4.6 30.3 1.0 C A:GLY240 4.6 29.1 1.0 N A:GLY42 4.6 21.1 1.0 CA A:GLY240 4.7 26.3 1.0 CB A:SER43 4.7 21.5 1.0 O A:HOH507 4.8 31.8 0.4 O1 A:PEG405 4.8 57.1 1.0 OG A:SER43 4.9 22.1 1.0 CE1 A:TYR83 4.9 29.3 1.0 O2 A:PEG405 5.0 55.5 1.0

Sodium binding site 2 out of 2 in the Major Aspartyl Peptidase 1 From C. Neoformans


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Major Aspartyl Peptidase 1 From C. Neoformans within 5.0Å range: probe atom residue distance (Å) B Occ A:Na417 b:88.5 occ:1.00 OG A:SER256 3.0 35.8 1.0 O1 A:PEG406 3.0 72.6 1.0 O A:HOH678 3.7 60.7 1.0 O2 A:PEG406 3.7 66.5 1.0 C2 A:PEG406 3.8 67.5 1.0 C1 A:PEG406 3.8 70.0 1.0 CB A:SER256 4.1 29.6 1.0 C4 A:PEG406 4.1 57.1 1.0 O4 A:PEG406 4.4 58.3 1.0 C3 A:PEG406 4.6 56.1 1.0 CA A:SER256 4.9 27.8 1.0

R.Krystufek, P.Sacha, J.Brynda, J.Konvalinka. Major Aspartyl Peptidase 1 From C. Neoformans To Be Published.