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Magnesium in PDB 8hx7: Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae Co-Crystallized with L-Glutamine

Enzymatic activity of Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae Co-Crystallized with L-Glutamine

All present enzymatic activity of Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae Co-Crystallized with L-Glutamine:
2.6.1.85;

Protein crystallography data

The structure of Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae Co-Crystallized with L-Glutamine, PDB code: 8hx7 was solved by Y.Nakamichi, M.Watanabe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.11 / 1.95
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 98.291, 170.915, 160.344, 90, 90, 90
R / Rfree (%) 21 / 24

Other elements in 8hx7:

The structure of Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae Co-Crystallized with L-Glutamine also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae Co-Crystallized with L-Glutamine (pdb code 8hx7). 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 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae Co-Crystallized with L-Glutamine, PDB code: 8hx7:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 8hx7

Go back to Magnesium Binding Sites List in 8hx7
Magnesium binding site 1 out of 3 in the Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae Co-Crystallized with L-Glutamine


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 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae Co-Crystallized with L-Glutamine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg703

b:58.3
occ:1.00
 O A:HOH886 2.0 52.8 1.0
O A:HOH879 2.1 62.1 1.0
O A:HOH887 2.1 66.1 1.0
O A:HOH803 2.2 63.5 1.0
OD1 A:ASP175 2.5 51.3 1.0
O A:SER174 2.5 50.2 1.0
C A:SER174 3.4 50.7 1.0
CA A:ASP175 3.6 49.9 1.0
CG A:ASP175 3.6 52.0 1.0
N A:ASP175 3.8 50.2 1.0
O A:ILE172 3.9 53.1 1.0
O A:HOH813 4.1 51.3 1.0
CB A:ASP175 4.2 50.9 1.0
O A:HOH854 4.2 56.3 1.0
O A:HOH850 4.4 53.9 1.0
N A:SER174 4.6 52.3 1.0
CA A:SER174 4.6 51.7 1.0
OD2 A:ASP175 4.7 54.4 1.0
C A:ASP175 4.8 49.0 1.0
C A:GLY173 4.9 53.6 1.0
C A:ILE172 4.9 53.5 1.0

Magnesium binding site 2 out of 3 in 8hx7

Go back to Magnesium Binding Sites List in 8hx7
Magnesium binding site 2 out of 3 in the Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae Co-Crystallized with L-Glutamine


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 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae Co-Crystallized with L-Glutamine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg704

b:64.4
occ:1.00
 O A:HOH809 2.1 59.5 1.0
O A:ALA652 2.3 56.0 1.0
O A:HOH851 2.5 56.1 1.0
OE2 A:GLU528 2.6 59.1 1.0
OE1 A:GLU662 2.8 60.1 1.0
OE2 A:GLU662 2.8 63.0 1.0
CD A:GLU662 3.1 62.5 1.0
CD A:GLU528 3.2 56.7 1.0
OE1 A:GLU528 3.2 56.6 1.0
C A:ALA652 3.4 55.1 1.0
NZ A:LYS524 3.6 64.6 1.0
N A:ALA652 3.7 52.0 1.0
O A:HOH830 3.7 54.9 1.0
CB A:ALA652 3.7 52.0 1.0
CA A:ALA652 3.8 53.1 1.0
OE1 A:GLU665 4.0 57.7 1.0
OE2 A:GLU665 4.3 54.5 1.0
OG A:SER657 4.5 61.5 1.0
CD A:GLU665 4.5 55.7 1.0
CG A:GLU528 4.5 55.5 1.0
C A:GLY651 4.5 52.8 1.0
N A:ILE653 4.6 56.2 1.0
CG A:GLU662 4.6 65.0 1.0
O A:HOH848 4.8 52.0 1.0
CE A:LYS524 4.9 66.8 1.0
CA A:GLY651 5.0 51.9 1.0

Magnesium binding site 3 out of 3 in 8hx7

Go back to Magnesium Binding Sites List in 8hx7
Magnesium binding site 3 out of 3 in the Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae Co-Crystallized with L-Glutamine


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 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae Co-Crystallized with L-Glutamine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg703

b:58.8
occ:1.00
 O B:HOH846 2.1 52.3 1.0
O B:HOH857 2.2 54.3 1.0
OD1 B:ASP175 2.3 47.2 1.0
O B:HOH858 2.4 60.6 1.0
O B:HOH802 2.4 51.4 1.0
O B:SER174 2.6 47.2 1.0
CG B:ASP175 3.5 47.6 1.0
C B:SER174 3.5 45.6 1.0
CA B:ASP175 3.7 45.9 1.0
O B:ILE172 3.8 48.3 1.0
N B:ASP175 3.9 45.7 1.0
CB B:ASP175 4.1 46.6 1.0
O B:HOH821 4.2 49.4 1.0
O B:HOH849 4.3 48.4 1.0
OD2 B:ASP175 4.5 47.8 1.0
N B:SER174 4.7 45.7 1.0
CA B:SER174 4.8 45.4 1.0
C B:GLY173 4.9 46.3 1.0
C B:ILE172 4.9 47.2 1.0
C B:ASP175 4.9 45.4 1.0

Reference:

Y.Nakamichi, J.Kobayashi, K.Toyoda, M.Suda, K.Hiraga, M.Inui, M.Watanabe. Structural Basis For the Allosteric Pathway of 4-Amino-4-Deoxychorismate Synthase. Acta Crystallogr D Struct V. 79 895 2023BIOL.
ISSN: ISSN 2059-7983
PubMed: 37712435
DOI: 10.1107/S2059798323006320
Page generated: Fri Oct 4 08:55:50 2024

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