Atomistry » Magnesium » PDB 5avy-5b8f » 5b8f
Atomistry »
  Magnesium »
    PDB 5avy-5b8f »
      5b8f »

Magnesium in PDB 5b8f: X-Ray Crystal Structure of A 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase From Pseudomonas Aeruginosa

Enzymatic activity of X-Ray Crystal Structure of A 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase From Pseudomonas Aeruginosa

All present enzymatic activity of X-Ray Crystal Structure of A 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase From Pseudomonas Aeruginosa:
4.6.1.12;

Protein crystallography data

The structure of X-Ray Crystal Structure of A 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase From Pseudomonas Aeruginosa, PDB code: 5b8f 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) 36.98 / 1.45
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 80.560, 100.210, 54.810, 90.00, 90.00, 90.00
R / Rfree (%) 13.8 / 16.9

Magnesium Binding Sites:

The binding sites of Magnesium atom in the X-Ray Crystal Structure of A 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase From Pseudomonas Aeruginosa (pdb code 5b8f). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the X-Ray Crystal Structure of A 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase From Pseudomonas Aeruginosa, PDB code: 5b8f:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 5b8f

Go back to Magnesium Binding Sites List in 5b8f
Magnesium binding site 1 out of 3 in the X-Ray Crystal Structure of A 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of X-Ray Crystal Structure of A 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg201

b:20.9
occ:1.00
 OD2 A:ASP8 2.1 17.3 0.6
NE2 A:HIS10 2.1 16.4 0.3
CD2 A:HIS42 2.2 16.5 0.4
ND1 A:HIS42 2.2 14.1 0.6
NE2 A:HIS10 2.3 24.4 0.7
NE2 A:HIS42 2.6 16.9 0.4
CG A:HIS42 2.6 15.7 0.4
CG A:ASP8 2.9 15.8 0.6
CE1 A:HIS10 3.0 16.5 0.3
OD1 A:ASP8 3.1 17.0 0.6
CE1 A:HIS42 3.1 17.2 0.4
ND1 A:HIS42 3.1 17.4 0.4
CE1 A:HIS42 3.1 13.9 0.6
CG A:HIS42 3.2 12.0 0.6
CD2 A:HIS10 3.2 16.4 0.3
CD2 A:HIS10 3.3 23.2 0.7
CE1 A:HIS10 3.3 24.4 0.7
CB A:HIS42 3.5 13.1 0.4
CB A:HIS42 3.5 10.9 0.6
ND1 A:HIS10 4.2 16.1 0.3
NE2 A:HIS42 4.2 12.9 0.6
CB A:ASP8 4.2 12.6 0.4
CB A:ASP8 4.3 13.2 0.6
CD2 A:HIS42 4.3 13.0 0.6
CG A:HIS10 4.3 15.8 0.3
ND1 A:HIS10 4.3 23.4 0.7
CG A:HIS10 4.4 21.2 0.7
CG A:ASP8 4.4 13.6 0.4
OD1 A:ASP8 4.5 15.4 0.4
O C:HOH457 4.5 23.0 1.0
O A:HOH414 4.5 33.7 1.0
CA A:HIS42 4.9 11.3 0.4
O A:HOH473 4.9 30.6 1.0
CA A:VAL39 5.0 11.7 0.4
O C:HOH437 5.0 30.6 1.0
CA A:HIS42 5.0 10.4 0.6

Magnesium binding site 2 out of 3 in 5b8f

Go back to Magnesium Binding Sites List in 5b8f
Magnesium binding site 2 out of 3 in the X-Ray Crystal Structure of A 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of X-Ray Crystal Structure of A 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg201

b:24.9
occ:1.00
 O B:HOH491 1.9 36.0 1.0
OD2 B:ASP8 2.0 17.7 1.0
ND1 B:HIS42 2.1 13.8 0.6
NE2 B:HIS10 2.2 24.5 0.3
NE2 B:HIS10 2.2 25.4 0.7
CD2 B:HIS42 2.3 16.3 0.4
CG B:HIS42 2.7 14.4 0.4
NE2 B:HIS42 2.8 16.6 0.4
CG B:ASP8 2.9 16.0 1.0
CE1 B:HIS10 3.0 24.4 0.3
CE1 B:HIS42 3.0 13.8 0.6
CE1 B:HIS10 3.0 24.7 0.7
CG B:HIS42 3.1 11.7 0.6
OD1 B:ASP8 3.1 17.3 1.0
CD2 B:HIS10 3.2 24.2 0.7
CD2 B:HIS10 3.3 23.7 0.3
ND1 B:HIS42 3.4 15.2 0.4
CB B:HIS42 3.4 11.8 0.4
CE1 B:HIS42 3.4 16.0 0.4
CB B:HIS42 3.5 9.7 0.6
O B:HOH470 3.6 31.3 1.0
NE2 B:HIS42 4.1 13.3 0.6
ND1 B:HIS10 4.2 23.3 0.3
CD2 B:HIS42 4.2 12.5 0.6
ND1 B:HIS10 4.2 23.6 0.7
CB B:ASP8 4.3 13.5 1.0
CG B:HIS10 4.3 22.4 0.7
O B:HOH438 4.3 42.4 1.0
CG B:HIS10 4.3 22.2 0.3
O A:HOH475 4.6 29.8 1.0
CA B:VAL39 4.9 11.0 0.5
CA B:HIS42 4.9 10.3 0.4
CA B:HIS42 5.0 9.8 0.6
CA B:VAL39 5.0 9.8 0.5

Magnesium binding site 3 out of 3 in 5b8f

Go back to Magnesium Binding Sites List in 5b8f
Magnesium binding site 3 out of 3 in the X-Ray Crystal Structure of A 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of X-Ray Crystal Structure of A 2-C-Methyl-D-Erythritol 2,4- Cyclodiphosphate Synthase From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg201

b:19.4
occ:1.00
 OD2 C:ASP8 2.0 10.9 1.0
ND1 C:HIS42 2.1 14.0 1.0
NE2 C:HIS10 2.1 14.6 1.0
CG C:ASP8 2.9 13.2 1.0
CE1 C:HIS42 3.0 15.6 1.0
CD2 C:HIS10 3.1 15.4 1.0
CG C:HIS42 3.1 12.7 1.0
CE1 C:HIS10 3.1 17.5 1.0
OD1 C:ASP8 3.2 14.0 1.0
CB C:HIS42 3.4 9.8 1.0
NE2 C:HIS42 4.1 15.0 1.0
CD2 C:HIS42 4.2 13.6 1.0
ND1 C:HIS10 4.2 18.4 1.0
CG C:HIS10 4.2 15.1 1.0
CB C:ASP8 4.3 10.9 1.0
O C:HOH318 4.4 24.2 1.0
CA C:VAL39 4.7 9.3 1.0
O B:HOH321 4.8 23.6 1.0
CA C:HIS42 4.9 9.2 1.0

Reference:

Ssgcid, J.W.Fairman, D.M.Dranow, D.Lorimer, T.E.Edwards. X-Ray Crystal Structure of A 2-C-Methyl-D-Erythritol 2,4-Cyclodiphosphate Synthase From Pseudomonas Aeruginosa To Be Published.
Page generated: Sun Sep 29 01:01:17 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy