Atomistry » Sodium » PDB 6h6m-6hip » 6hdk
Atomistry »
  Sodium »
    PDB 6h6m-6hip »
      6hdk »

Sodium in PDB 6hdk: R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Aluminium Tetrafluoride and Beta-G6P to 1.2 A.

Enzymatic activity of R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Aluminium Tetrafluoride and Beta-G6P to 1.2 A.

All present enzymatic activity of R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Aluminium Tetrafluoride and Beta-G6P to 1.2 A.:
5.4.2.6;

Protein crystallography data

The structure of R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Aluminium Tetrafluoride and Beta-G6P to 1.2 A., PDB code: 6hdk was solved by A.J.Robertson, C.Bisson, J.P.Waltho, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 52.17 / 1.24
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 37.230, 54.290, 104.240, 90.00, 90.00, 90.00
R / Rfree (%) 13.6 / 16.7

Other elements in 6hdk:

The structure of R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Aluminium Tetrafluoride and Beta-G6P to 1.2 A. also contains other interesting chemical elements:

Fluorine (F) 4 atoms
Magnesium (Mg) 1 atom
Aluminium (Al) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Aluminium Tetrafluoride and Beta-G6P to 1.2 A. (pdb code 6hdk). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Aluminium Tetrafluoride and Beta-G6P to 1.2 A., PDB code: 6hdk:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 6hdk

Go back to Sodium Binding Sites List in 6hdk
Sodium binding site 1 out of 2 in the R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Aluminium Tetrafluoride and Beta-G6P to 1.2 A.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Aluminium Tetrafluoride and Beta-G6P to 1.2 A. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na302

b:18.4
occ:1.00
O A:GLU124 2.2 11.8 1.0
OD1 A:ASN127 2.3 15.9 1.0
O A:HOH571 2.3 24.0 1.0
O A:HOH543 2.4 42.6 1.0
O A:HOH479 2.4 19.8 1.0
O A:HOH560 2.5 26.4 1.0
C A:GLU124 3.4 10.6 1.0
CG A:ASN127 3.5 14.6 1.0
O A:HOH527 4.0 48.4 1.0
O A:ARG125 4.1 11.7 1.0
C A:ARG125 4.2 10.2 1.0
CA A:ARG125 4.2 10.6 1.0
N A:ARG125 4.2 10.2 1.0
ND2 A:ASN127 4.2 21.2 1.0
N A:ASN127 4.2 10.6 1.0
O A:HOH563 4.3 29.1 1.0
CA A:GLU124 4.3 12.0 1.0
CA A:ASN127 4.4 10.6 1.0
CB A:ASN127 4.6 12.4 1.0
O A:HOH608 4.6 29.7 1.0
O A:HOH568 4.8 35.5 1.0
CB A:GLU124 4.8 15.0 1.0
OE2 A:GLU124 4.8 39.1 1.0
NH1 A:ARG125 4.8 17.6 1.0
O A:HOH565 4.8 30.5 1.0
N A:MET126 4.9 9.4 1.0
O A:HOH586 5.0 39.1 1.0

Sodium binding site 2 out of 2 in 6hdk

Go back to Sodium Binding Sites List in 6hdk
Sodium binding site 2 out of 2 in the R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Aluminium Tetrafluoride and Beta-G6P to 1.2 A.


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Aluminium Tetrafluoride and Beta-G6P to 1.2 A. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na303

b:27.8
occ:1.00
O A:HOH574 2.3 37.2 1.0
O A:PHE132 2.4 15.3 1.0
O A:HOH541 2.5 38.0 1.0
O A:THR129 2.5 13.0 1.0
O A:HOH569 2.7 18.8 0.5
C A:THR129 3.5 11.9 1.0
C A:PHE132 3.5 12.3 1.0
O A:HOH569 3.6 24.7 0.5
CA A:GLY130 3.9 13.3 1.0
N A:PHE132 4.0 11.3 1.0
C A:GLY130 4.0 14.2 1.0
N A:GLY130 4.1 13.2 1.0
CG2 A:THR129 4.1 15.9 1.0
O A:GLY130 4.2 19.8 1.0
CA A:PHE132 4.2 11.3 1.0
CB A:PHE132 4.4 10.8 1.0
O A:HOH481 4.5 40.8 1.0
O A:HOH498 4.6 38.3 1.0
N A:TYR131 4.6 11.8 1.0
CA A:THR129 4.6 11.8 1.0
O A:HOH607 4.6 37.8 1.0
N A:ASP133 4.7 12.0 1.0
C A:TYR131 4.9 12.9 1.0
CB A:THR129 4.9 13.9 1.0
CA A:ASP133 5.0 13.6 1.0

Reference:

A.J.Robertson, C.Bisson, J.P.Waltho. Transition State of Phospho-Enzyme Hydrolysis in Beta-Phosphoglucomutase. To Be Published.
Page generated: Tue Dec 15 12:20:10 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy