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Magnesium in PDB 3kia: Crystal Structure of Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus

Enzymatic activity of Crystal Structure of Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus

All present enzymatic activity of Crystal Structure of Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus:
2.4.1.217;

Protein crystallography data

The structure of Crystal Structure of Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus, PDB code: 3kia was solved by S.Macedo-Ribeiro, P.J.B.Pereira, N.Empadinhas, M.S.Da Costa, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 53.70 / 2.80
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 109.010, 109.010, 313.418, 90.00, 90.00, 120.00
R / Rfree (%) 19 / 23.9

Other elements in 3kia:

The structure of Crystal Structure of Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus (pdb code 3kia). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Crystal Structure of Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus, PDB code: 3kia:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 3kia

Go back to Magnesium Binding Sites List in 3kia
Magnesium binding site 1 out of 3 in the Crystal Structure of Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus


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 Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg339

b:50.1
occ:1.00
 O A:HOH394 2.1 44.5 1.0
O A:HOH393 2.1 37.6 1.0
O A:HOH349 2.1 45.4 1.0
O C:HOH390 2.1 38.9 1.0
O A:ASP302 2.3 50.5 1.0
O A:GLN299 2.4 61.8 1.0
C A:GLN299 3.4 62.4 1.0
C A:ASP302 3.5 52.5 1.0
CB A:ASP302 3.8 54.7 1.0
O C:HOH373 4.1 38.5 1.0
CA A:ASP302 4.1 55.4 1.0
N A:GLN299 4.1 60.3 1.0
CB A:GLN299 4.1 61.9 1.0
CA A:GLN299 4.1 62.7 1.0
N A:ASP302 4.3 55.2 1.0
O C:ASN194 4.4 39.0 1.0
OD1 A:ASP302 4.4 52.4 1.0
CG A:ASP302 4.4 54.6 1.0
N A:LEU300 4.4 45.8 1.0
O A:PHE297 4.5 63.8 1.0
N A:TYR303 4.6 42.2 1.0
O C:HOH383 4.6 51.3 1.0
CA A:LEU300 4.7 44.2 1.0
OD1 C:ASN194 4.7 39.5 1.0
C A:LEU300 4.9 45.3 1.0
CA A:TYR303 4.9 40.0 1.0

Magnesium binding site 2 out of 3 in 3kia

Go back to Magnesium Binding Sites List in 3kia
Magnesium binding site 2 out of 3 in the Crystal Structure of Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg340

b:44.3
occ:1.00
 O3P A:5GP336 1.8 39.9 1.0
OD2 A:ASP137 3.0 43.0 1.0
P A:5GP336 3.3 39.9 1.0
O5' A:5GP336 3.6 39.9 1.0
CG A:ASP137 4.1 45.0 1.0
O1P A:5GP336 4.2 39.9 1.0
O2P A:5GP336 4.2 39.9 1.0
OD1 A:ASP137 4.4 45.4 1.0
C5' A:5GP336 4.4 39.9 1.0
OD2 A:ASP135 4.7 50.1 1.0
CB A:ARG257 4.7 0.0 0.0

Magnesium binding site 3 out of 3 in 3kia

Go back to Magnesium Binding Sites List in 3kia
Magnesium binding site 3 out of 3 in the Crystal Structure of Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Crystal Structure of Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg338

b:64.7
occ:1.00
 O2P C:5GP336 1.9 49.7 1.0
OD2 C:ASP137 3.3 56.6 1.0
P C:5GP336 3.4 49.7 1.0
OD2 C:ASP135 4.0 53.4 1.0
O1P C:5GP336 4.1 49.7 1.0
C5' C:5GP336 4.1 49.7 1.0
CG C:ASP137 4.3 57.2 1.0
O3P C:5GP336 4.3 49.7 1.0
O5' C:5GP336 4.3 49.7 1.0
OD1 C:ASP137 4.3 56.2 1.0
CG C:ASP135 4.9 52.4 1.0

Reference:

N.Empadinhas, P.J.B.Pereira, L.Albuquerque, J.Costa, B.Sa-Moura, A.T.Marques, S.Macedo-Ribeiro, M.S.Da Costa. Functional and Structural Characterization of A Novel Mannosyl-3-Phosphoglycerate Synthase From Rubrobacter Xylanophilus Reveals Its Dual Substrate Specificity Mol.Microbiol. V. 79 76 2011.
ISSN: ISSN 0950-382X
PubMed: 21166895
DOI: 10.1111/J.1365-2958.2010.07432.X
Page generated: Wed Aug 14 18:08:27 2024

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