Magnesium in PDB 9dqw: Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp

Enzymatic activity of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp

All present enzymatic activity of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp:
6.3.2.9;

Protein crystallography data

The structure of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp, PDB code: 9dqw 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) 47.09 / 1.45
Space group P 41
Cell size a, b, c (Å), α, β, γ (°) 65.441, 65.441, 135.609, 90, 90, 90
R / Rfree (%) 15 / 16.5

Other elements in 9dqw:

The structure of Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp (pdb code 9dqw). 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 E. Coli in Complex with Uma and Amp-Pnp, PDB code: 9dqw:

Magnesium binding site 1 out of 1 in 9dqw

Go back to Magnesium Binding Sites List in 9dqw
Magnesium binding site 1 out of 1 in the Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp


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 E. Coli in Complex with Uma and Amp-Pnp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg501

b:34.4
occ:1.00
 O19 A:UMA502 1.8 24.0 1.0
O A:HOH610 2.1 31.6 1.0
O A:HOH617 2.1 34.0 1.0
NE2 A:HIS183 2.3 18.0 1.0
O A:HOH605 2.5 39.6 1.0
C22 A:UMA502 2.7 24.2 1.0
O A:HOH648 2.8 20.0 1.0
CE1 A:HIS183 3.1 16.0 1.0
OD2 A:ASP182 3.3 15.8 1.0
O20 A:UMA502 3.3 21.8 1.0
CD2 A:HIS183 3.4 17.8 1.0
C21 A:UMA502 3.8 16.5 1.0
C23 A:UMA502 3.9 17.5 1.0
O1G A:ANP506 3.9 26.2 0.4
OQ2 A:KCX198 4.0 22.1 1.0
NZ A:LYS115 4.2 19.3 1.0
CG A:ASP182 4.2 15.4 1.0
OQ1 A:KCX198 4.3 22.3 1.0
ND1 A:HIS183 4.3 17.2 1.0
O A:HOH842 4.4 34.5 1.0
CG A:HIS183 4.5 14.9 1.0
O A:HOH656 4.5 23.3 1.0
CX A:KCX198 4.6 24.2 1.0
O A:HOH831 4.7 22.0 1.0
OD1 A:ASP182 4.8 15.4 1.0
N4 A:UMA502 5.0 14.7 1.0

Reference:

S.Seibold, L.Liu, S.Lovell, K.P.Battaile. Crystal Structure of Udp-N-Acetylmuramoylalanine--D-Glutamate Ligase (Murd) From E. Coli in Complex with Uma and Amp-Pnp To Be Published.
Page generated: Thu Oct 31 22:27:19 2024

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