Sodium in PDB 3u8e: Crystal Structure of Cysteine Protease From Bulbs of Crocus Sativus at 1.3 A Resolution

The structure of Crystal Structure of Cysteine Protease From Bulbs of Crocus Sativus at 1.3 A Resolution, PDB code: 3u8e was solved by S.Iqbal, A.Akrem, F.Buck, M.Perbandt, S.Banumathi, C.Betzel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.49 / 1.31
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	97.970, 97.970, 48.780, 90.00, 90.00, 120.00
R / Rfree (%)	14.4 / 18.9

The binding sites of Sodium atom in the Crystal Structure of Cysteine Protease From Bulbs of Crocus Sativus at 1.3 A Resolution (pdb code 3u8e). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Cysteine Protease From Bulbs of Crocus Sativus at 1.3 A Resolution, PDB code: 3u8e:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Cysteine Protease From Bulbs of Crocus Sativus at 1.3 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Cysteine Protease From Bulbs of Crocus Sativus at 1.3 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Na223 b:29.8 occ:1.00 O A:HOH293 2.7 26.4 1.0 O A:ASP70 2.8 14.1 1.0 OD2 A:ASP57 2.8 27.1 1.0 CG A:ASP57 3.5 22.7 1.0 OD1 A:ASP57 3.6 30.2 1.0 C A:ASP70 3.6 13.3 1.0 N A:TRP74 3.7 13.0 1.0 CA A:ASP70 3.8 13.3 1.0 CB A:ARG73 3.9 14.5 1.0 CB A:TRP74 3.9 13.3 1.0 CA A:TRP74 4.1 12.4 1.0 CB A:ASP70 4.1 15.3 1.0 C A:ARG73 4.3 13.0 1.0 OD1 A:ASP70 4.4 20.3 1.0 CA A:ARG73 4.6 12.3 1.0 NE A:ARG73 4.7 20.8 1.0 CG A:ASP70 4.7 18.2 1.0 N A:ALA71 4.8 13.4 1.0 CB A:ASP57 4.8 21.3 1.0 CG A:TRP74 5.0 13.3 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Cysteine Protease From Bulbs of Crocus Sativus at 1.3 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Cysteine Protease From Bulbs of Crocus Sativus at 1.3 A Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Na224 b:24.5 occ:1.00 OD2 A:ASP55 2.6 17.4 1.0 O A:HOH292 2.7 24.3 1.0 O A:HOH241 2.8 23.2 1.0 O A:HOH244 2.9 20.3 1.0 CG A:ASP55 3.5 17.1 1.0 CG A:GLN51 3.6 13.1 1.0 OD1 A:ASP55 3.7 17.0 1.0 CE2 A:TYR87 3.9 16.2 1.0 NE2 A:GLN51 4.0 15.7 1.0 CD A:GLN51 4.2 14.1 1.0 CG2 A:THR90 4.3 20.3 1.0 OG1 A:THR90 4.3 18.3 1.0 CA A:GLY94 4.4 16.3 1.0 O A:THR95 4.4 16.1 1.0 O A:HOH420 4.5 33.5 1.0 O A:HOH357 4.5 40.6 1.0 OH A:TYR87 4.5 15.1 1.0 O A:HOH229 4.6 43.6 1.0 N A:GLY94 4.6 18.3 1.0 C A:GLY94 4.7 16.9 1.0 CZ A:TYR87 4.7 13.0 1.0 O A:VAL92 4.8 19.8 1.0 O A:PRO88 4.9 13.7 1.0 CD2 A:TYR87 4.9 13.1 1.0 CB A:ASP55 4.9 14.9 1.0 N A:THR95 5.0 16.7 1.0 CB A:GLN51 5.0 12.6 1.0

S.Iqbal, A.Akrem, F.Buck, M.Perbandt, S.Banumathi, C.Betzel. Crystal Structure of A Papain-Like Cysteine Protease From Bulbs of Crocus Sativum at 1.3 A Resolution To Be Published.