Sodium in PDB 5bpl: Crystal Structure of Adp and Pi Bound Human HSP70 Nbd Mutant R272K.

The structure of Crystal Structure of Adp and Pi Bound Human HSP70 Nbd Mutant R272K., PDB code: 5bpl was solved by D.Narayanan, R.A.Engh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.53 / 1.93
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	46.037, 63.327, 143.798, 90.00, 90.00, 90.00
R / Rfree (%)	18.3 / 23.9

The structure of Crystal Structure of Adp and Pi Bound Human HSP70 Nbd Mutant R272K. also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Chlorine	(Cl)	1 atom

The binding sites of Sodium atom in the Crystal Structure of Adp and Pi Bound Human HSP70 Nbd Mutant R272K. (pdb code 5bpl). 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 Adp and Pi Bound Human HSP70 Nbd Mutant R272K., PDB code: 5bpl:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Adp and Pi Bound Human HSP70 Nbd Mutant R272K.


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 Adp and Pi Bound Human HSP70 Nbd Mutant R272K. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na406 b:14.2 occ:1.00 OD2 A:ASP10 2.2 16.7 1.0 O2B A:ADP401 2.3 13.3 1.0 O A:HOH644 2.4 14.9 1.0 O A:TYR15 2.6 17.6 1.0 O A:HOH567 2.6 12.7 1.0 CG A:ASP10 3.1 14.9 1.0 O A:HOH545 3.2 14.8 1.0 O3A A:ADP401 3.4 17.5 1.0 OD1 A:ASP10 3.4 16.0 1.0 PB A:ADP401 3.4 15.7 1.0 MG A:MG405 3.5 16.0 1.0 C A:TYR15 3.7 18.5 1.0 O1A A:ADP401 3.9 17.3 1.0 CA A:GLY12 4.0 11.1 1.0 PA A:ADP401 4.0 17.4 1.0 O3B A:ADP401 4.0 18.5 1.0 O2A A:ADP401 4.1 11.2 1.0 O A:HOH623 4.3 13.6 1.0 O A:ASP366 4.4 17.6 1.0 CA A:SER16 4.4 16.9 1.0 N A:SER16 4.4 16.1 1.0 CB A:ASP10 4.5 14.3 1.0 N A:GLY12 4.6 11.4 1.0 CA A:TYR15 4.6 19.8 1.0 CB A:TYR15 4.6 17.0 1.0 O A:HOH723 4.7 16.0 1.0 O1B A:ADP401 4.7 16.9 1.0 O A:ASP10 4.7 17.3 1.0 C A:SER16 4.8 15.0 1.0 O A:HOH559 4.8 11.3 1.0 N A:TYR15 4.9 15.4 1.0 O3 A:PO4402 4.9 22.6 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Adp and Pi Bound Human HSP70 Nbd Mutant R272K.


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 Adp and Pi Bound Human HSP70 Nbd Mutant R272K. within 5.0Å range: probe atom residue distance (Å) B Occ A:Na407 b:38.2 occ:1.00 O1B A:ADP401 2.4 16.9 1.0 O4 A:PO4402 2.7 19.1 1.0 N A:GLY203 3.0 16.8 1.0 OG1 A:THR204 3.1 23.6 1.0 N A:THR204 3.1 18.8 1.0 N A:GLY202 3.3 10.3 1.0 O1 A:PO4402 3.4 17.2 1.0 PB A:ADP401 3.5 15.7 1.0 O3B A:ADP401 3.6 18.5 1.0 P A:PO4402 3.6 18.1 1.0 CA A:GLY203 3.8 19.9 1.0 C A:GLY201 3.9 17.8 1.0 CL A:CL409 3.9 41.5 0.8 C A:GLY203 3.9 19.7 1.0 CA A:GLY201 3.9 19.2 1.0 CB A:THR204 3.9 19.8 1.0 O A:THR204 4.0 10.8 1.0 C A:GLY202 4.0 11.4 1.0 CA A:THR204 4.0 15.2 1.0 CA A:GLY202 4.0 10.2 1.0 CB A:THR13 4.1 13.7 1.0 CG2 A:THR204 4.2 12.8 1.0 O3 A:PO4402 4.3 22.6 1.0 O2B A:ADP401 4.3 13.3 1.0 OG1 A:THR13 4.3 15.6 1.0 O A:HOH559 4.4 11.3 1.0 OG1 A:THR14 4.4 17.6 1.0 C A:THR204 4.4 17.1 1.0 CG2 A:THR14 4.5 14.2 1.0 N A:GLY201 4.6 17.9 1.0 N A:THR14 4.7 14.3 1.0 MG A:MG405 4.8 16.0 1.0 O3A A:ADP401 4.8 17.5 1.0 O A:GLY201 4.9 20.0 1.0 O2 A:PO4402 4.9 18.7 1.0 N A:THR13 4.9 10.7 1.0 CG2 A:THR13 5.0 20.5 1.0

D.Narayanan, A.Pflug, T.Christopeit, P.Kyomuhendo, R.A.Engh. Nucleotide Binding to Variants of the HSP70-Nbd. To Be Published.