Magnesium in PDB 8dp2: Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From Pseudomonas Aeruginosa PAO1 in Complex with Uma (Uridine- 5'-Diphosphate-N-Acetylmuramoyl-L-Alanine)

Enzymatic activity of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From Pseudomonas Aeruginosa PAO1 in Complex with Uma (Uridine- 5'-Diphosphate-N-Acetylmuramoyl-L-Alanine)

All present enzymatic activity of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From Pseudomonas Aeruginosa PAO1 in Complex with Uma (Uridine- 5'-Diphosphate-N-Acetylmuramoyl-L-Alanine):
6.3.2.9;

Protein crystallography data

The structure of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From Pseudomonas Aeruginosa PAO1 in Complex with Uma (Uridine- 5'-Diphosphate-N-Acetylmuramoyl-L-Alanine), PDB code: 8dp2 was solved by Seattle Structural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

*Resolution Low / High (Å)*	41.34 / 1.60
*Space group*	P 6₁
*Cell size a, b, c (Å), α, β, γ (°)*	95.46, 95.46, 99.55, 90, 90, 120
*R / R_free (%)*	15 / 16.9

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From Pseudomonas Aeruginosa PAO1 in Complex with Uma (Uridine- 5'-Diphosphate-N-Acetylmuramoyl-L-Alanine) (pdb code 8dp2). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From Pseudomonas Aeruginosa PAO1 in Complex with Uma (Uridine- 5'-Diphosphate-N-Acetylmuramoyl-L-Alanine), PDB code: 8dp2:

Magnesium binding site 1 out of 1 in 8dp2

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Magnesium Binding Sites List in 8dp2

Magnesium binding site 1 out of 1 in the Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From Pseudomonas Aeruginosa PAO1 in Complex with Uma (Uridine- 5'-Diphosphate-N-Acetylmuramoyl-L-Alanine)

Mono view

Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From Pseudomonas Aeruginosa PAO1 in Complex with Uma (Uridine- 5'-Diphosphate-N-Acetylmuramoyl-L-Alanine) within 5.0Å range:

probe	atom	residue	distance (Å)	B	Occ
A:Mg502 b:21.0 occ:1.00	O	A:HOH648	2.0	19.1	1.0
	O20	A:UMA501	2.1	24.5	1.0
	O	A:HOH652	2.1	19.9	1.0
	NE2	A:HIS188	2.2	20.9	1.0
	O	A:HOH664	2.2	24.9	1.0
	O	A:HOH608	2.3	27.0	1.0
	CE1	A:HIS188	3.0	23.0	1.0
	C22	A:UMA501	3.1	30.5	1.0
	CD2	A:HIS188	3.3	17.4	1.0
	O19	A:UMA501	3.5	28.6	1.0
	OD2	A:ASP187	3.8	17.0	1.0
	O3	A:SIN507	3.9	37.2	1.0
	NZ	A:LYS120	4.0	20.7	1.0
	OQ1	A:KCX202	4.0	17.3	1.0
	O	A:HOH727	4.1	24.8	1.0
	O	A:HOH757	4.1	18.5	1.0
	ND1	A:HIS188	4.2	19.6	1.0
	OQ2	A:KCX202	4.2	17.2	1.0
	C21	A:UMA501	4.3	20.7	1.0
	CG	A:HIS188	4.3	17.7	1.0
	C23	A:UMA501	4.4	24.4	1.0
	O	A:HOH679	4.5	41.0	1.0
	CX	A:KCX202	4.6	16.4	1.0
	C4	A:SIN507	4.6	30.8	1.0
	CG	A:ASP187	4.6	15.7	1.0
	O4	A:SIN507	4.9	30.7	1.0
	CE	A:LYS120	4.9	17.3	1.0

Reference:

J.Abendroth, N.D.Debouver, D.D.Lorimer, P.S.Horanyi, T.E.Edwards. Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From Pseudomonas Aeruginosa PAO1 in Complex with Uma (Uridine-5'-Diphosphate-N-Acetylmuramoyl-L-Alanine) To Be Published.

Page generated: Fri Oct 4 00:47:33 2024

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