Sodium in PDB 6hdm: R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Magnesium Trifluoride and Beta-G6P to 1.3 A.

Enzymatic activity of R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Magnesium Trifluoride and Beta-G6P to 1.3 A.

All present enzymatic activity of R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Magnesium Trifluoride and Beta-G6P to 1.3 A.:
5.4.2.6;

Protein crystallography data

The structure of R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Magnesium Trifluoride and Beta-G6P to 1.3 A., PDB code: 6hdm 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)*	48.27 / 1.30
*Space group*	P 2₁ 2₁ 2₁
*Cell size a, b, c (Å), α, β, γ (°)*	37.300, 54.340, 104.620, 90.00, 90.00, 90.00
*R / R_free (%)*	12.6 / 14.8

Other elements in 6hdm:

The structure of R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Magnesium Trifluoride and Beta-G6P to 1.3 A. also contains other interesting chemical elements:

Fluorine	(F)	3 atoms
Magnesium	(Mg)	2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Magnesium Trifluoride and Beta-G6P to 1.3 A. (pdb code 6hdm). 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 R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Magnesium Trifluoride and Beta-G6P to 1.3 A., PDB code: 6hdm:

Sodium binding site 1 out of 1 in 6hdm

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Sodium Binding Sites List in 6hdm

Sodium binding site 1 out of 1 in the R49A Variant of Beta-Phosphoglucomutase From Lactococcus Lactis Complexed with Magnesium Trifluoride and Beta-G6P to 1.3 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 Magnesium Trifluoride and Beta-G6P to 1.3 A. within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Na303 b:14.4 occ:1.00	O	A:GLU124	2.3	9.7	1.0
	O	A:HOH555	2.4	35.6	1.0
	OD1	A:ASN127	2.4	12.4	1.0
	O	A:HOH576	2.4	18.4	1.0
	O	A:HOH461	2.4	15.9	1.0
	O	A:HOH556	2.5	20.6	1.0
	C	A:GLU124	3.4	8.7	1.0
	CG	A:ASN127	3.6	11.7	1.0
	O	A:HOH554	4.0	26.0	1.0
	O	A:ARG125	4.1	8.7	1.0
	C	A:ARG125	4.2	7.4	1.0
	CA	A:ARG125	4.2	8.6	1.0
	N	A:ARG125	4.2	8.3	1.0
	N	A:ASN127	4.2	8.1	1.0
	CA	A:GLU124	4.3	9.2	1.0
	ND2	A:ASN127	4.4	16.6	1.0
	CA	A:ASN127	4.4	8.7	1.0
	O	A:HOH559	4.5	23.1	1.0
	CB	A:ASN127	4.6	10.0	1.0
	NH1	A:ARG125	4.7	13.3	1.0
	CB	A:GLU124	4.8	12.1	1.0
	N	A:MET126	4.9	7.3	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 Oct 8 09:18:15 2024

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