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Sodium in PDB 2qwm: Crystal Structure of Bovine HSC70 (1-394AA)in the Adp*VI State

Protein crystallography data

The structure of Crystal Structure of Bovine HSC70 (1-394AA)in the Adp*VI State, PDB code: 2qwm was solved by J.Jiang, E.G.Maes, L.Wang, A.B.Taylor, A.P.Hinck, E.M.Lafer, R.Sousa, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 36.06 / 1.86
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 73.336, 77.841, 75.793, 90.00, 101.53, 90.00
R / Rfree (%) 18.8 / 22.4

Other elements in 2qwm:

The structure of Crystal Structure of Bovine HSC70 (1-394AA)in the Adp*VI State also contains other interesting chemical elements:

Magnesium (Mg) 2 atoms
Vanadium (V) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Bovine HSC70 (1-394AA)in the Adp*VI State (pdb code 2qwm). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 4 binding sites of Sodium where determined in the Crystal Structure of Bovine HSC70 (1-394AA)in the Adp*VI State, PDB code: 2qwm:
Jump to Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in 2qwm

Go back to Sodium Binding Sites List in 2qwm
Sodium binding site 1 out of 4 in the Crystal Structure of Bovine HSC70 (1-394AA)in the Adp*VI 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 Bovine HSC70 (1-394AA)in the Adp*VI State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na589

b:2.0
occ:1.00
O A:HOH626 2.5 6.8 1.0
OD2 A:ASP10 2.6 15.6 1.0
O A:HOH656 2.7 6.0 1.0
O3B A:ADP486 2.7 11.6 1.0
O A:TYR15 2.7 10.8 1.0
O3A A:ADP486 3.2 8.7 1.0
CG A:ASP10 3.3 13.3 1.0
PB A:ADP486 3.3 9.7 1.0
OD1 A:ASP10 3.4 13.3 1.0
MG A:MG587 3.5 8.3 1.0
O1B A:ADP486 3.5 10.3 1.0
C A:TYR15 3.7 10.7 1.0
O1A A:ADP486 3.8 7.8 1.0
CA A:GLY12 3.9 10.5 1.0
PA A:ADP486 3.9 6.1 1.0
O2A A:ADP486 4.1 4.0 1.0
N A:GLY12 4.4 10.8 1.0
CB A:TYR15 4.4 11.1 1.0
CA A:TYR15 4.5 10.8 1.0
CB A:ASP10 4.5 12.2 1.0
O A:HOH611 4.6 7.3 1.0
N A:SER16 4.6 10.7 1.0
O A:ASP366 4.6 12.0 1.0
CA A:SER16 4.7 10.7 1.0
N A:TYR15 4.7 10.0 1.0
O2B A:ADP486 4.8 16.7 1.0
O2 A:VO4491 4.8 9.9 1.0
O A:HOH616 4.9 6.7 1.0
O A:HOH727 4.9 3.6 1.0
C A:GLY12 5.0 10.3 1.0
O A:ASP10 5.0 11.5 1.0
O1 A:VO4491 5.0 12.5 1.0

Sodium binding site 2 out of 4 in 2qwm

Go back to Sodium Binding Sites List in 2qwm
Sodium binding site 2 out of 4 in the Crystal Structure of Bovine HSC70 (1-394AA)in the Adp*VI State


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 Bovine HSC70 (1-394AA)in the Adp*VI State within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na590

b:9.4
occ:1.00
O1 A:VO4491 2.6 12.5 1.0
OG1 A:THR204 2.7 12.1 1.0
OD2 A:ASP206 3.0 14.3 1.0
O A:HOH727 3.1 3.6 1.0
OD1 A:ASP199 3.1 12.8 1.0
O A:THR204 3.2 11.2 1.0
CG A:ASP199 3.4 12.6 1.0
V A:VO4491 3.6 17.9 1.0
O A:ASP199 3.6 10.5 1.0
OD2 A:ASP199 3.7 13.2 1.0
C A:THR204 3.8 10.9 1.0
O3 A:VO4491 3.9 11.8 1.0
CB A:THR204 3.9 10.8 1.0
MG A:MG587 4.0 8.3 1.0
N A:GLY201 4.0 10.9 1.0
CG A:ASP206 4.0 12.2 1.0
O A:HOH600 4.0 3.4 1.0
O4 A:VO4491 4.1 9.8 1.0
O A:HOH597 4.2 8.3 1.0
O A:HOH606 4.2 10.0 1.0
C A:ASP199 4.2 10.9 1.0
CB A:ASP199 4.3 11.4 1.0
O A:HOH640 4.3 9.9 1.0
N A:ASP206 4.3 10.6 1.0
CA A:GLY201 4.4 11.0 1.0
CA A:THR204 4.4 10.6 1.0
CB A:ASP206 4.4 11.0 1.0
N A:PHE205 4.5 10.7 1.0
CA A:PHE205 4.7 10.8 1.0
C A:LEU200 4.8 10.7 1.0
C A:PHE205 4.8 10.6 1.0
N A:THR204 4.9 10.3 1.0
N A:LEU200 4.9 10.6 1.0
CA A:ASP199 4.9 11.3 1.0
OE1 A:GLU175 4.9 13.4 1.0
O3B A:ADP486 5.0 11.6 1.0
CA A:LEU200 5.0 10.7 1.0

Sodium binding site 3 out of 4 in 2qwm

Go back to Sodium Binding Sites List in 2qwm
Sodium binding site 3 out of 4 in the Crystal Structure of Bovine HSC70 (1-394AA)in the Adp*VI State


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of Bovine HSC70 (1-394AA)in the Adp*VI State within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na689

b:2.0
occ:1.00
O B:HOH728 2.6 4.0 1.0
O B:TYR15 2.7 11.4 1.0
O3B B:ADP486 2.7 11.6 1.0
OD2 B:ASP10 2.7 15.8 1.0
O B:HOH840 3.1 4.4 1.0
O3A B:ADP486 3.2 6.6 1.0
PB B:ADP486 3.3 8.7 1.0
CG B:ASP10 3.3 12.6 1.0
O1B B:ADP486 3.4 8.2 1.0
OD1 B:ASP10 3.5 13.4 1.0
MG B:MG687 3.5 7.0 1.0
C B:TYR15 3.7 10.4 1.0
O1A B:ADP486 3.8 5.9 1.0
PA B:ADP486 3.8 5.1 1.0
CA B:GLY12 3.9 11.0 1.0
O2A B:ADP486 4.1 3.8 1.0
CB B:TYR15 4.4 9.8 1.0
N B:GLY12 4.4 11.5 1.0
CA B:TYR15 4.5 10.1 1.0
O B:HOH692 4.5 3.1 1.0
N B:SER16 4.6 11.0 1.0
O B:ASP366 4.6 13.1 1.0
CB B:ASP10 4.6 12.7 1.0
N B:TYR15 4.6 9.6 1.0
CA B:SER16 4.7 10.9 1.0
O2 B:VO4491 4.8 8.6 1.0
O2B B:ADP486 4.8 14.4 1.0
O B:HOH712 4.9 2.0 1.0
O B:HOH716 4.9 5.6 1.0
O B:ASP10 4.9 12.6 1.0
O B:HOH803 5.0 5.8 1.0

Sodium binding site 4 out of 4 in 2qwm

Go back to Sodium Binding Sites List in 2qwm
Sodium binding site 4 out of 4 in the Crystal Structure of Bovine HSC70 (1-394AA)in the Adp*VI State


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Structure of Bovine HSC70 (1-394AA)in the Adp*VI State within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na690

b:7.9
occ:1.00
O1 B:VO4491 2.5 10.1 1.0
OG1 B:THR204 2.7 11.2 1.0
OD2 B:ASP206 2.9 14.5 1.0
OD1 B:ASP199 3.2 10.2 1.0
O B:HOH712 3.2 2.0 1.0
O B:THR204 3.2 10.9 1.0
CG B:ASP199 3.5 11.5 1.0
V B:VO4491 3.6 17.3 1.0
O B:ASP199 3.6 12.0 1.0
OD2 B:ASP199 3.7 11.2 1.0
C B:THR204 3.8 10.4 1.0
O3 B:VO4491 3.9 9.1 1.0
CG B:ASP206 3.9 12.0 1.0
CB B:THR204 3.9 10.1 1.0
MG B:MG687 4.0 7.0 1.0
N B:GLY201 4.0 10.6 1.0
O B:HOH803 4.1 5.8 1.0
O4 B:VO4491 4.1 9.0 1.0
O B:HOH707 4.1 8.5 1.0
O B:HOH714 4.3 5.1 1.0
O B:HOH702 4.3 6.5 1.0
C B:ASP199 4.3 11.3 1.0
N B:ASP206 4.3 9.9 1.0
CB B:ASP199 4.3 10.9 1.0
CB B:ASP206 4.4 10.2 1.0
CA B:THR204 4.4 10.1 1.0
CA B:GLY201 4.4 10.6 1.0
N B:PHE205 4.5 9.9 1.0
CA B:PHE205 4.7 10.0 1.0
C B:PHE205 4.8 9.9 1.0
C B:LEU200 4.8 11.6 1.0
N B:THR204 4.9 10.0 1.0
N B:LEU200 4.9 10.9 1.0
OD1 B:ASP206 4.9 13.2 1.0
CA B:ASP199 5.0 11.2 1.0
O3B B:ADP486 5.0 11.6 1.0
CA B:LEU200 5.0 11.3 1.0
OE1 B:GLU175 5.0 13.3 1.0

Reference:

J.Jiang, E.G.Maes, A.B.Taylor, L.Wang, A.P.Hinck, E.M.Lafer, R.Sousa. Structural Basis of J Cochaperone Binding and Regulation of HSP70. Mol.Cell V. 28 422 2007.
ISSN: ISSN 1097-2765
PubMed: 17996706
DOI: 10.1016/J.MOLCEL.2007.08.022
Page generated: Thu Oct 29 04:15:59 2020

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