Atomistry » Magnesium » PDB 8hmu-8i87 » 8hx9
Atomistry »
  Magnesium »
    PDB 8hmu-8i87 »
      8hx9 »

Magnesium in PDB 8hx9: Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae with Chorismate

Enzymatic activity of Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae with Chorismate

All present enzymatic activity of Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae with Chorismate:
2.6.1.85;

Protein crystallography data

The structure of Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae with Chorismate, PDB code: 8hx9 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) 47.47 / 2.03
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 99.289, 170.784, 162.079, 90, 90, 90
R / Rfree (%) 21.8 / 27.9

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae with Chorismate (pdb code 8hx9). 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 with Chorismate, PDB code: 8hx9:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 8hx9

Go back to Magnesium Binding Sites List in 8hx9
Magnesium binding site 1 out of 3 in the Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae with Chorismate


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 with Chorismate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg704

b:49.8
occ:1.00
O A:HOH824 1.9 54.8 1.0
O A:HOH844 2.2 43.0 1.0
O A:SER174 2.4 51.6 1.0
OD1 A:ASP175 2.6 52.9 1.0
O A:HOH846 2.7 50.5 1.0
C A:SER174 3.5 53.1 1.0
CA A:ASP175 3.6 53.0 1.0
CG A:ASP175 3.6 54.3 1.0
N A:ASP175 3.9 53.5 1.0
CB A:ASP175 4.1 53.0 1.0
O A:ILE172 4.4 53.1 1.0
O A:HOH842 4.5 50.2 1.0
OD2 A:ASP175 4.7 52.5 1.0
C A:ASP175 4.7 52.2 1.0
CA A:SER174 4.8 55.0 1.0
N A:SER174 4.8 54.2 1.0
N A:PHE176 4.9 51.8 1.0

Magnesium binding site 2 out of 3 in 8hx9

Go back to Magnesium Binding Sites List in 8hx9
Magnesium binding site 2 out of 3 in the Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae with Chorismate


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 with Chorismate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg705

b:58.5
occ:1.00
O A:HOH801 2.1 47.7 1.0
O A:HOH840 2.3 55.9 1.0
O8 A:ISJ702 2.4 61.8 1.0
O9 A:ISJ702 2.7 56.0 1.0
OE2 A:GLU665 2.8 57.7 1.0
C7 A:ISJ702 2.8 58.2 1.0
OE1 A:GLU528 3.3 51.5 1.0
CD A:GLU665 3.6 56.9 1.0
OE1 A:GLU665 3.6 60.6 1.0
N A:ALA652 3.8 49.9 1.0
CD A:GLU528 4.1 52.6 1.0
OE2 A:GLU528 4.1 56.6 1.0
CB A:ALA652 4.2 50.4 1.0
N A:THR502 4.2 45.0 1.0
OE1 A:GLU662 4.3 53.7 1.0
O A:ALA652 4.3 48.4 1.0
C3 A:ISJ702 4.3 58.9 1.0
N A:GLY501 4.4 43.0 1.0
CA A:ALA652 4.5 50.5 1.0
CA A:GLY501 4.5 44.9 1.0
OG1 A:THR502 4.5 42.0 1.0
CB A:THR502 4.6 46.7 1.0
CA A:GLY651 4.7 50.2 1.0
OE2 A:GLU662 4.7 62.2 1.0
C A:GLY651 4.8 50.1 1.0
NZ A:LYS669 4.8 48.0 1.0
C A:GLY501 4.9 43.8 1.0
C A:ALA652 4.9 50.3 1.0
CD A:GLU662 4.9 57.4 1.0
CD A:LYS500 5.0 48.4 1.0
CG A:GLU665 5.0 55.7 1.0

Magnesium binding site 3 out of 3 in 8hx9

Go back to Magnesium Binding Sites List in 8hx9
Magnesium binding site 3 out of 3 in the Crystal Structure of 4-Amino-4-Deoxychorismate Synthase From Streptomyces Venezuelae with Chorismate


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 with Chorismate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg703

b:46.2
occ:1.00
O B:HOH821 2.2 50.1 1.0
O B:HOH822 2.3 46.0 1.0
O B:HOH805 2.3 39.4 1.0
O B:HOH819 2.3 43.9 1.0
OD1 B:ASP175 2.4 37.6 1.0
O B:SER174 2.6 36.6 1.0
C B:SER174 3.5 39.6 1.0
CG B:ASP175 3.6 38.2 1.0
CA B:ASP175 3.8 40.0 1.0
O B:ILE172 3.9 42.2 1.0
N B:ASP175 4.0 41.2 1.0
O B:HOH802 4.2 39.4 1.0
CB B:ASP175 4.3 39.2 1.0
O B:HOH817 4.3 36.5 1.0
OD2 B:ASP175 4.6 39.3 1.0
O1 B:FMT702 4.6 50.8 1.0
N B:SER174 4.7 40.7 1.0
CA B:SER174 4.7 40.2 1.0
C B:ILE172 4.9 40.8 1.0
C B:GLY173 5.0 41.0 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: Thu Dec 28 09:17:06 2023

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