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Sodium in PDB 3cqb: Crystal Structure of Heat Shock Protein Htpx Domain From Vibrio Parahaemolyticus Rimd 2210633

Protein crystallography data

The structure of Crystal Structure of Heat Shock Protein Htpx Domain From Vibrio Parahaemolyticus Rimd 2210633, PDB code: 3cqb was solved by R.Wu, S.Clancy, A.Joachimiak, Midwest Center For Structural Genomics(Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.37 / 1.86
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 75.873, 75.873, 65.471, 90.00, 90.00, 120.00
R / Rfree (%) 15.2 / 19.2

Other elements in 3cqb:

The structure of Crystal Structure of Heat Shock Protein Htpx Domain From Vibrio Parahaemolyticus Rimd 2210633 also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Heat Shock Protein Htpx Domain From Vibrio Parahaemolyticus Rimd 2210633 (pdb code 3cqb). 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 Heat Shock Protein Htpx Domain From Vibrio Parahaemolyticus Rimd 2210633, PDB code: 3cqb:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 3cqb

Go back to Sodium Binding Sites List in 3cqb
Sodium binding site 1 out of 2 in the Crystal Structure of Heat Shock Protein Htpx Domain From Vibrio Parahaemolyticus Rimd 2210633


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 Heat Shock Protein Htpx Domain From Vibrio Parahaemolyticus Rimd 2210633 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na106

b:40.0
occ:1.00
OD1 A:ASP50 2.4 23.3 1.0
O A:HOH158 2.7 52.5 1.0
O A:HOH200 2.8 15.8 0.5
OG A:SER48 3.1 17.2 1.0
CG A:ASP50 3.5 23.4 1.0
O A:HOH124 3.8 19.5 1.0
CB A:ASP50 3.8 17.9 1.0
O A:HOH215 3.9 43.2 1.0
N A:ASP50 3.9 15.9 1.0
CA A:ASP50 4.4 17.8 1.0
CB A:SER48 4.5 15.6 1.0
N A:ALA49 4.5 15.6 1.0
OD2 A:ASP50 4.6 25.3 1.0
C A:ALA49 4.8 16.7 1.0

Sodium binding site 2 out of 2 in 3cqb

Go back to Sodium Binding Sites List in 3cqb
Sodium binding site 2 out of 2 in the Crystal Structure of Heat Shock Protein Htpx Domain From Vibrio Parahaemolyticus Rimd 2210633


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 Heat Shock Protein Htpx Domain From Vibrio Parahaemolyticus Rimd 2210633 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na105

b:38.4
occ:1.00
OD1 B:ASP47 2.6 25.6 1.0
OG1 B:THR69 2.8 16.9 1.0
O2 B:EDO107 3.3 28.5 1.0
CG B:ASP47 3.4 23.4 1.0
CB B:ASP47 3.4 19.2 1.0
CB B:THR69 3.6 17.0 1.0
CG2 B:THR69 3.7 18.4 1.0
CA B:ASP47 3.7 18.3 1.0
N B:SER48 4.2 17.5 1.0
C B:ASP47 4.3 18.4 1.0
OD2 B:ASP47 4.5 28.4 1.0
C2 B:EDO107 4.6 35.5 1.0
N B:ASP47 5.0 17.3 1.0

Reference:

R.Wu, S.Clancy, A.Joachimiak. The Crystal Structure of Heat Shock Protein Htpx Domain From Vibrio Parahaemolyticus Rimd 2210633. To Be Published.
Page generated: Tue Dec 15 06:07:59 2020

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