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Manganese in PDB 2jd2: X-Ray Structure of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase, Dxr, RV2870C, From Mycobacterium Tuberculosis, in Complex with Manganese

Enzymatic activity of X-Ray Structure of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase, Dxr, RV2870C, From Mycobacterium Tuberculosis, in Complex with Manganese

All present enzymatic activity of X-Ray Structure of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase, Dxr, RV2870C, From Mycobacterium Tuberculosis, in Complex with Manganese:
1.1.1.267;

Protein crystallography data

The structure of X-Ray Structure of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase, Dxr, RV2870C, From Mycobacterium Tuberculosis, in Complex with Manganese, PDB code: 2jd2 was solved by L.M.Henriksson, T.Unge, T.A.Jones, S.L.Mowbray, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.00 / 2.15
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 67.589, 64.812, 85.961, 90.00, 101.89, 90.00
R / Rfree (%) 17.6 / 22.5

Manganese Binding Sites:

The binding sites of Manganese atom in the X-Ray Structure of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase, Dxr, RV2870C, From Mycobacterium Tuberculosis, in Complex with Manganese (pdb code 2jd2). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the X-Ray Structure of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase, Dxr, RV2870C, From Mycobacterium Tuberculosis, in Complex with Manganese, PDB code: 2jd2:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 2jd2

Go back to Manganese Binding Sites List in 2jd2
Manganese binding site 1 out of 2 in the X-Ray Structure of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase, Dxr, RV2870C, From Mycobacterium Tuberculosis, in Complex with Manganese


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of X-Ray Structure of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase, Dxr, RV2870C, From Mycobacterium Tuberculosis, in Complex with Manganese within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn1390

b:29.3
occ:1.00
 OD1 A:ASP151 2.2 24.4 1.0
OE1 A:GLU222 2.2 23.1 1.0
OE1 A:GLU153 2.2 24.4 1.0
O A:HOH2158 2.2 25.1 1.0
O A:HOH2159 2.6 39.6 1.0
O A:HOH2160 2.6 29.6 1.0
CD A:GLU153 3.1 20.5 1.0
CG A:ASP151 3.2 22.3 1.0
CD A:GLU222 3.3 18.3 1.0
OE2 A:GLU153 3.3 22.9 1.0
OD2 A:ASP151 3.7 25.4 1.0
OE2 A:GLU222 3.7 17.3 1.0
OG A:SER152 3.9 20.3 1.0
ND2 A:ASN218 3.9 16.0 1.0
NZ A:LYS128 4.2 26.0 1.0
N A:SER152 4.4 16.4 1.0
CG A:GLU153 4.4 17.9 1.0
CG A:GLU222 4.5 15.2 1.0
CB A:ASP151 4.5 18.9 1.0
N A:GLU153 4.6 15.5 1.0
NZ A:LYS219 4.7 13.4 1.0
CB A:GLU153 4.8 15.2 1.0
O4 A:SO41391 4.9 23.9 1.0
CB A:SER152 4.9 16.4 1.0
CA A:ASP151 4.9 18.0 1.0
CG A:ASN218 4.9 14.8 1.0
C A:ASP151 5.0 17.3 1.0

Manganese binding site 2 out of 2 in 2jd2

Go back to Manganese Binding Sites List in 2jd2
Manganese binding site 2 out of 2 in the X-Ray Structure of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase, Dxr, RV2870C, From Mycobacterium Tuberculosis, in Complex with Manganese


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of X-Ray Structure of 1-Deoxy-D-Xylulose 5-Phosphate Reductoisomerase, Dxr, RV2870C, From Mycobacterium Tuberculosis, in Complex with Manganese within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn1390

b:15.3
occ:1.00
 OD2 B:ASP151 2.2 14.7 1.0
OE1 B:GLU222 2.2 10.7 1.0
OE1 B:GLU153 2.2 14.9 1.0
O B:HOH2221 2.2 17.5 1.0
O B:HOH2223 2.3 15.0 1.0
O B:HOH2222 2.3 10.8 1.0
CG B:ASP151 3.1 13.9 1.0
CD B:GLU153 3.1 14.6 1.0
CD B:GLU222 3.3 9.9 1.0
OD1 B:ASP151 3.3 16.2 1.0
OE2 B:GLU153 3.4 14.9 1.0
O B:HOH2132 3.7 15.0 1.0
OE2 B:GLU222 3.7 11.2 1.0
O B:HOH2091 4.0 20.5 1.0
ND2 B:ASN218 4.0 11.1 1.0
OG B:SER152 4.1 13.1 1.0
CG B:GLU153 4.5 10.1 1.0
CB B:ASP151 4.5 11.7 1.0
CG B:GLU222 4.5 9.0 1.0
N B:GLU153 4.7 8.4 1.0
NZ B:LYS219 4.7 8.0 1.0
N B:SER152 4.7 9.1 1.0
O4 B:SO41391 4.7 15.6 1.0
CB B:GLU153 4.8 8.7 1.0

Reference:

L.M.Henriksson, T.Unge, J.Carlsson, J.Aqvist, S.L.Mowbray, T.A.Jones. Structures of Mycobacterium Tuberculosis 1-Deoxy-D- Xylulose-5-Phosphate Reductoisomerase Provide New Insights Into Catalysis. J.Biol.Chem. V. 282 19905 2007.
ISSN: ISSN 0021-9258
PubMed: 17491006
DOI: 10.1074/JBC.M701935200
Page generated: Sat Aug 16 10:30:49 2025

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