Sodium in PDB 6y5t: Crystal Structure of Savinase at Room Temperature

All present enzymatic activity of Crystal Structure of Savinase at Room Temperature:
3.4.21.62;

The structure of Crystal Structure of Savinase at Room Temperature, PDB code: 6y5t was solved by S.Wu, O.Moroz, J.Turkenburg, J.E.Nielsen, K.S.Wilson, K.Teilum, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.37 / 1.10
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	47.704, 62.205, 75.766, 90.00, 90.00, 90.00
R / Rfree (%)	13 / 15

The structure of Crystal Structure of Savinase at Room Temperature also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Sodium atom in the Crystal Structure of Savinase at Room Temperature (pdb code 6y5t). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of Savinase at Room Temperature, PDB code: 6y5t:

Sodium binding site 1 out of 1 in the Crystal Structure of Savinase at Room Temperature


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 Savinase at Room Temperature within 5.0Å range: probe atom residue distance (Å) B Occ A:Na302 b:19.0 occ:1.00 O A:HOH412 2.1 24.6 1.0 O A:ALA168 2.3 13.5 1.0 O A:ALA163 2.4 12.9 1.0 O A:TYR165 2.4 14.1 1.0 O A:HOH411 2.5 31.4 1.0 C A:TYR165 3.4 12.9 1.0 C A:ALA168 3.5 11.2 1.0 C A:ALA163 3.6 11.3 1.0 O A:GLY189 3.7 19.1 1.0 C A:ARG164 3.8 14.9 1.0 OD2 A:ASP191 3.9 15.1 1.0 O A:ARG164 3.9 18.6 1.0 N A:TYR165 4.0 12.7 1.0 CB A:ALA170 4.1 11.7 1.0 O A:ALA166 4.1 15.3 1.0 NH2 A:ARG241 4.1 16.6 1.0 N A:ALA168 4.2 11.9 1.0 C A:ALA166 4.2 12.8 1.0 CA A:ALA166 4.2 13.9 1.0 N A:ALA170 4.2 10.0 1.0 N A:ALA166 4.3 12.9 1.0 CA A:ALA168 4.3 11.7 1.0 CA A:ARG164 4.3 13.5 1.0 CA A:TYR165 4.3 13.6 1.0 CB A:ALA168 4.4 14.7 1.0 N A:ARG164 4.4 11.7 1.0 N A:MET169 4.5 10.5 1.0 CA A:ALA163 4.6 11.5 1.0 C A:GLY189 4.6 16.4 1.0 CA A:MET169 4.7 10.3 1.0 C A:MET169 4.7 10.6 1.0 CA A:ALA170 4.8 9.8 1.0 CA A:GLY189 4.8 19.6 1.0 O A:PRO162 4.9 13.5 1.0 N A:ASN167 5.0 12.3 1.0

S.Wu, T.T.T.N.Nguyen, O.Moroz, J.Turkenburg, J.E.Nielsen, K.S.Wilson, K.D.Rand, K.Teilum. Conformational Heterogeneity of Savinase From uc(Nmr), Hdx-Ms and X-Ray Diffraction Analysis To Be Published.