Sodium in PDB 3atu: Crystal Structure of Human HSP70 Nbd in the Adp- and Mg Ion-Bound State

The structure of Crystal Structure of Human HSP70 Nbd in the Adp- and Mg Ion-Bound State, PDB code: 3atu was solved by A.Arakawa, N.Handa, M.Shirouzu, S.Yokoyama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 1.65
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	46.114, 63.675, 143.534, 90.00, 90.00, 90.00
R / Rfree (%)	18.6 / 21.8

The structure of Crystal Structure of Human HSP70 Nbd in the Adp- and Mg Ion-Bound State also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Sodium atom in the Crystal Structure of Human HSP70 Nbd in the Adp- and Mg Ion-Bound State (pdb code 3atu). 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 Human HSP70 Nbd in the Adp- and Mg Ion-Bound State, PDB code: 3atu:

Sodium binding site 1 out of 1 in the Crystal Structure of Human HSP70 Nbd in the Adp- and Mg Ion-Bound State


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 Human HSP70 Nbd in the Adp- and Mg Ion-Bound State within 5.0Å range: probe atom residue distance (Å) B Occ A:Na6267 b:13.1 occ:1.00 O2B A:ADP1452 2.3 11.8 1.0 OD2 A:ASP10 2.4 13.7 1.0 O A:TYR15 2.4 12.5 1.0 O A:HOH395 2.5 13.9 1.0 O A:HOH392 2.6 16.9 1.0 O3A A:ADP1452 3.2 14.1 1.0 CG A:ASP10 3.2 12.3 1.0 PB A:ADP1452 3.3 13.4 1.0 MG A:MG6266 3.4 13.7 1.0 O A:HOH394 3.4 12.8 1.0 OD1 A:ASP10 3.5 11.7 1.0 C A:TYR15 3.5 12.4 1.0 O1A A:ADP1452 3.8 13.1 1.0 PA A:ADP1452 3.8 14.3 1.0 O1B A:ADP1452 3.9 14.0 1.0 CA A:GLY12 4.0 10.8 1.0 O2A A:ADP1452 4.0 13.8 1.0 O A:HOH396 4.4 14.7 1.0 N A:SER16 4.4 11.9 1.0 CB A:TYR15 4.4 11.8 1.0 CA A:TYR15 4.4 11.7 1.0 O A:ASP366 4.4 13.3 1.0 CA A:SER16 4.5 12.0 1.0 N A:GLY12 4.5 11.4 1.0 CB A:ASP10 4.6 11.2 1.0 O3B A:ADP1452 4.6 13.8 1.0 N A:TYR15 4.6 11.3 1.0 O A:HOH391 4.7 14.2 1.0 O A:HOH397 4.8 12.2 1.0 O A:ASP10 4.9 9.6 1.0 C A:SER16 4.9 12.1 1.0 O4 A:PO46265 5.0 15.8 1.0

A.Arakawa, N.Handa, M.Shirouzu, S.Yokoyama. Biochemical and Structural Studies on the High Affinity of HSP70 For Adp. Protein Sci. V. 20 1367 2011.
ISSN: ISSN 0961-8368
PubMed: 21608060
DOI: 10.1002/PRO.663