Atomistry » Manganese » PDB 5dcd-5ekd » 5e5g
Atomistry »
  Manganese »
    PDB 5dcd-5ekd »
      5e5g »

Manganese in PDB 5e5g: 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase with D-Tryptophan Bound in the Tryptophan and Phenylalanine Binding Sites

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

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

Protein crystallography data

The structure of 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase with D-Tryptophan Bound in the Tryptophan and Phenylalanine Binding Sites, PDB code: 5e5g 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) 47.25 / 1.95
Space group P 32 2 1
Cell size a, b, c (Å), α, β, γ (°) 205.002, 205.002, 66.542, 90.00, 90.00, 120.00
R / Rfree (%) 16.8 / 18.4

Manganese Binding Sites:

The binding sites of Manganese atom in the 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase with D-Tryptophan Bound in the Tryptophan and Phenylalanine Binding Sites (pdb code 5e5g). 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 with D-Tryptophan Bound in the Tryptophan and Phenylalanine Binding Sites, PDB code: 5e5g:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in 5e5g

Go back to Manganese Binding Sites List in 5e5g
Manganese binding site 1 out of 2 in the 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase with D-Tryptophan Bound in the Tryptophan 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 with D-Tryptophan Bound in the Tryptophan and Phenylalanine Binding Sites within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn502

b:25.9
occ:0.80
O A:HOH777 2.1 31.8 1.0
OE2 A:GLU411 2.2 28.9 1.0
OD2 A:ASP441 2.2 29.9 1.0
NE2 A:HIS369 2.3 31.3 1.0
SG A:CYS87 2.5 26.6 1.0
OE1 A:GLU411 2.6 28.7 1.0
CD A:GLU411 2.7 28.0 1.0
CG A:ASP441 3.1 30.4 1.0
CE1 A:HIS369 3.1 30.2 1.0
CD2 A:HIS369 3.3 32.4 1.0
CB A:ASP441 3.5 29.6 1.0
CB A:CYS87 3.5 23.9 1.0
O A:HOH638 4.0 46.7 1.0
NH1 A:ARG382 4.1 32.2 1.0
O A:HOH740 4.1 37.2 1.0
CA A:CYS87 4.1 23.2 1.0
CG A:GLU411 4.2 27.1 1.0
O A:HOH865 4.2 32.0 1.0
OD1 A:ASP441 4.3 28.8 1.0
NH2 A:ARG126 4.3 26.9 1.0
ND1 A:HIS369 4.3 30.3 1.0
O A:HOH799 4.3 31.8 1.0
CG A:HIS369 4.4 32.2 1.0
CA A:ASP441 4.7 29.2 1.0
O A:CYS87 4.8 24.4 1.0
C A:CYS87 4.8 22.8 1.0
NH2 A:ARG382 4.8 30.7 1.0
N A:ASP441 4.8 29.2 1.0
CZ A:ARG382 4.9 32.2 1.0
CZ A:ARG126 5.0 26.6 1.0

Manganese binding site 2 out of 2 in 5e5g

Go back to Manganese Binding Sites List in 5e5g
Manganese binding site 2 out of 2 in the 3-Deoxy-D-Arabino-Heptulosonate 7-Phosphate Synthase with D-Tryptophan Bound in the Tryptophan 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 with D-Tryptophan Bound in the Tryptophan and Phenylalanine Binding Sites within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn505

b:22.0
occ:0.70
O B:HOH760 1.8 33.2 1.0
OE2 B:GLU411 2.2 25.7 1.0
OD2 B:ASP441 2.2 31.7 1.0
NE2 B:HIS369 2.3 28.1 1.0
SG B:CYS87 2.5 27.8 1.0
OE1 B:GLU411 2.6 25.6 1.0
CD B:GLU411 2.7 24.5 1.0
CG B:ASP441 3.1 30.1 1.0
CE1 B:HIS369 3.2 28.9 1.0
CD2 B:HIS369 3.4 28.7 1.0
CB B:ASP441 3.4 30.2 1.0
CB B:CYS87 3.5 24.1 1.0
NH2 B:ARG382 4.0 33.2 1.0
O B:HOH918 4.1 39.4 1.0
CA B:CYS87 4.1 22.9 1.0
O B:HOH681 4.2 41.2 1.0
CG B:GLU411 4.2 24.1 1.0
OD1 B:ASP441 4.3 29.7 1.0
O B:HOH847 4.3 34.7 1.0
O B:HOH749 4.3 47.5 1.0
NH2 B:ARG126 4.3 21.7 1.0
ND1 B:HIS369 4.3 29.7 1.0
CG B:HIS369 4.5 28.9 1.0
CA B:ASP441 4.7 29.3 1.0
NH1 B:ARG382 4.8 31.6 1.0
O B:CYS87 4.8 20.5 1.0
N B:ASP441 4.8 27.9 1.0
C B:CYS87 4.8 22.3 1.0
CZ B:ARG382 4.9 33.9 1.0
CZ B:ARG126 4.9 20.7 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: Tue Dec 15 04:37:42 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy