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Manganese in PDB 5e4n: 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase From Mycobacterium Tuberculosis with D-Tyrosine Bound in the Tyrosine and Phenylalanine Binding Sites

Enzymatic activity of 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase From Mycobacterium Tuberculosis with D-Tyrosine Bound in the Tyrosine and Phenylalanine Binding Sites

All present enzymatic activity of 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase From Mycobacterium Tuberculosis with D-Tyrosine Bound in the Tyrosine and Phenylalanine Binding Sites:
2.5.1.54;

Protein crystallography data

The structure of 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase From Mycobacterium Tuberculosis with D-Tyrosine Bound in the Tyrosine and Phenylalanine Binding Sites, PDB code: 5e4n was solved by S.Reichau, W.Jiao, E.J.Parker, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.37 / 2.05
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 205.739, 205.739, 66.644, 90.00, 90.00, 120.00
R / Rfree (%) 19.9 / 22.9

Other elements in 5e4n:

The structure of 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase From Mycobacterium Tuberculosis with D-Tyrosine Bound in the Tyrosine and Phenylalanine Binding Sites also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase From Mycobacterium Tuberculosis with D-Tyrosine Bound in the Tyrosine and Phenylalanine Binding Sites (pdb code 5e4n). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase From Mycobacterium Tuberculosis with D-Tyrosine Bound in the Tyrosine and Phenylalanine Binding Sites, PDB code: 5e4n:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 5e4n

Go back to Manganese Binding Sites List in 5e4n
Manganese binding site 1 out of 2 in the 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase From Mycobacterium Tuberculosis with D-Tyrosine Bound in the Tyrosine and Phenylalanine Binding Sites


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase From Mycobacterium Tuberculosis with D-Tyrosine Bound in the Tyrosine and Phenylalanine Binding Sites within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn503

b:29.8
occ:0.80
O A:HOH709 2.1 29.2 1.0
OE2 A:GLU411 2.1 30.1 1.0
NE2 A:HIS369 2.3 33.6 1.0
OD2 A:ASP441 2.4 29.8 1.0
SG A:CYS87 2.5 27.8 1.0
OE1 A:GLU411 2.6 30.2 1.0
CD A:GLU411 2.7 27.9 1.0
CE1 A:HIS369 3.1 32.6 1.0
CG A:ASP441 3.3 31.8 1.0
CD2 A:HIS369 3.3 33.2 1.0
CB A:CYS87 3.5 23.1 1.0
CB A:ASP441 3.5 31.8 1.0
NH1 A:ARG382 4.0 30.9 1.0
CA A:CYS87 4.1 22.0 1.0
O A:HOH836 4.2 30.5 1.0
O A:HOH618 4.2 38.8 1.0
CG A:GLU411 4.2 25.8 1.0
NH2 A:ARG126 4.3 24.9 1.0
ND1 A:HIS369 4.3 32.0 1.0
CG A:HIS369 4.4 32.1 1.0
OD1 A:ASP441 4.4 30.4 1.0
O A:HOH783 4.5 31.1 1.0
O A:CYS87 4.7 21.6 1.0
C A:CYS87 4.7 22.1 1.0
CA A:ASP441 4.8 29.2 1.0
NH2 A:ARG382 4.8 31.9 1.0
N A:ASP441 4.8 28.6 1.0
CZ A:ARG382 4.9 31.8 1.0
CZ A:ARG126 4.9 25.1 1.0

Manganese binding site 2 out of 2 in 5e4n

Go back to Manganese Binding Sites List in 5e4n
Manganese binding site 2 out of 2 in the 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase From Mycobacterium Tuberculosis with D-Tyrosine Bound in the Tyrosine and Phenylalanine Binding Sites


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase From Mycobacterium Tuberculosis with D-Tyrosine Bound in the Tyrosine and Phenylalanine Binding Sites within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn505

b:32.8
occ:0.80
OE2 B:GLU411 2.2 25.2 1.0
OD2 B:ASP441 2.4 33.4 1.0
NE2 B:HIS369 2.4 30.2 1.0
SG B:CYS87 2.6 29.1 1.0
OE1 B:GLU411 2.7 23.0 1.0
CD B:GLU411 2.8 23.2 1.0
CE1 B:HIS369 3.2 31.5 1.0
CG B:ASP441 3.3 34.4 1.0
CD2 B:HIS369 3.5 30.4 1.0
CB B:ASP441 3.6 35.4 1.0
CB B:CYS87 3.6 24.5 1.0
O B:HOH858 4.0 31.3 1.0
NH2 B:ARG382 4.1 36.3 1.0
O B:HOH807 4.1 29.8 1.0
CA B:CYS87 4.2 22.1 1.0
NH2 B:ARG126 4.2 20.9 1.0
CG B:GLU411 4.2 22.2 1.0
ND1 B:HIS369 4.4 30.9 1.0
OD1 B:ASP441 4.4 34.3 1.0
CG B:HIS369 4.6 29.9 1.0
O B:CYS87 4.7 21.7 1.0
NH1 B:ARG382 4.8 32.4 1.0
C B:CYS87 4.8 21.9 1.0
CA B:ASP441 4.9 33.3 1.0
CZ B:ARG126 4.9 20.1 1.0
N B:ASP441 4.9 32.6 1.0
CZ B:ARG382 4.9 34.5 1.0

Reference:

S.Reichau, N.J.Blackmore, W.Jiao, E.J.Parker. Probing the Sophisticated Synergistic Allosteric Regulation of Aromatic Amino Acid Biosynthesis in Mycobacterium Tuberculosis Using -Amino Acids. Plos One V. 11 52723 2016.
ISSN: ESSN 1932-6203
PubMed: 27128682
DOI: 10.1371/JOURNAL.PONE.0152723
Page generated: Sat Oct 5 23:59:14 2024

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