Atomistry » Magnesium » PDB 3ig8-3irw » 3iie
Atomistry »
  Magnesium »
    PDB 3ig8-3irw »
      3iie »

Magnesium in PDB 3iie: 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From Yersinia Pestis.

Enzymatic activity of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From Yersinia Pestis.

All present enzymatic activity of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From Yersinia Pestis.:
1.1.1.267;

Protein crystallography data

The structure of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From Yersinia Pestis., PDB code: 3iie was solved by J.Osipiuk, R.Mulligan, J.Stam, W.F.Anderson, A.Joachimiak, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.21
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 121.460, 121.460, 86.923, 90.00, 90.00, 120.00
R / Rfree (%) 17.9 / 24.1

Magnesium Binding Sites:

The binding sites of Magnesium atom in the 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From Yersinia Pestis. (pdb code 3iie). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From Yersinia Pestis., PDB code: 3iie:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 3iie

Go back to Magnesium Binding Sites List in 3iie
Magnesium binding site 1 out of 3 in the 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From Yersinia Pestis.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From Yersinia Pestis. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg501

b:46.3
occ:1.00
O A:HOH497 1.9 47.9 1.0
OE1 A:GLU231 2.0 36.9 1.0
OE1 A:GLU152 2.0 38.6 1.0
O A:HOH493 2.1 32.0 1.0
O A:HOH440 2.2 39.2 1.0
OD2 A:ASP150 2.2 37.7 1.0
CD A:GLU152 3.0 39.6 1.0
CD A:GLU231 3.1 37.7 1.0
CG A:ASP150 3.1 39.2 1.0
OD1 A:ASP150 3.2 41.9 1.0
OE2 A:GLU152 3.3 40.9 1.0
OE2 A:GLU231 3.6 40.2 1.0
O A:HOH413 3.8 48.6 1.0
O A:HOH409 4.0 42.2 1.0
O A:HOH449 4.2 48.1 1.0
ND2 A:ASN227 4.2 42.7 1.0
CG A:GLU231 4.3 36.5 1.0
CB A:SER151 4.3 36.5 1.0
OD1 A:ASN227 4.4 40.8 1.0
CG A:GLU152 4.5 35.8 1.0
N A:GLU152 4.5 32.9 1.0
CB A:ASP150 4.6 36.4 1.0
N A:SER151 4.6 36.4 1.0
NZ A:LYS228 4.6 36.7 1.0
CG A:ASN227 4.8 39.2 1.0
CB A:GLU152 4.9 32.3 1.0

Magnesium binding site 2 out of 3 in 3iie

Go back to Magnesium Binding Sites List in 3iie
Magnesium binding site 2 out of 3 in the 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From Yersinia Pestis.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From Yersinia Pestis. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg502

b:37.5
occ:1.00
O A:HOH495 1.9 33.8 1.0
OE1 A:GLN3 2.0 33.3 1.0
O A:HOH492 2.1 26.6 1.0
O A:HOH436 2.1 22.4 1.0
O A:HOH496 2.1 33.7 1.0
O A:HOH486 2.3 35.0 1.0
CD A:GLN3 3.1 33.3 1.0
CG A:GLN3 3.8 32.7 1.0
O A:ASP93 4.0 33.7 1.0
O A:MET1 4.2 36.0 1.0
NE2 A:GLN3 4.2 31.2 1.0
O A:HOH400 4.4 25.5 1.0
O A:HOH469 4.4 34.7 1.0
OD2 A:ASP95 4.4 35.3 1.0
CB A:GLN3 4.6 30.0 1.0
CB A:ASP93 4.8 33.2 1.0

Magnesium binding site 3 out of 3 in 3iie

Go back to Magnesium Binding Sites List in 3iie
Magnesium binding site 3 out of 3 in the 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From Yersinia Pestis.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From Yersinia Pestis. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg501

b:44.6
occ:1.00
OE2 B:GLU231 1.9 30.1 1.0
O B:HOH506 2.1 31.1 1.0
O B:HOH458 2.1 34.9 1.0
O B:HOH511 2.1 31.9 1.0
OE1 B:GLU152 2.2 32.5 1.0
OD2 B:ASP150 2.2 36.4 1.0
CD B:GLU231 3.0 36.6 1.0
CG B:ASP150 3.0 39.9 1.0
OD1 B:ASP150 3.1 43.2 1.0
CD B:GLU152 3.2 36.8 1.0
OE2 B:GLU152 3.5 38.2 1.0
OE1 B:GLU231 3.6 34.0 1.0
O B:HOH477 3.6 45.9 1.0
O B:HOH402 4.2 29.6 1.0
OD1 B:ASN227 4.2 50.1 1.0
CG B:GLU231 4.3 33.4 1.0
CB B:ASP150 4.5 35.0 1.0
CG B:GLU152 4.5 33.6 1.0
OG B:SER151 4.6 36.4 1.0
N B:GLU152 4.7 32.4 1.0
N B:SER151 4.7 33.9 1.0
NZ B:LYS228 4.7 30.5 1.0
CB B:GLU152 4.8 31.6 1.0

Reference:

J.Osipiuk, R.Mulligan, J.Stam, W.F.Anderson, A.Joachimiak. X-Ray Crystal Structure of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase From Yersinia Pestis. To Be Published.
Page generated: Mon Dec 14 08:16:59 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy