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Magnesium in PDB 5tvg: Crystal Structure of An Alpha,Alpha-Trehalose-Phosphate Synthase (Udp- Forming) From Burkholderia Vietnamiensis

Enzymatic activity of Crystal Structure of An Alpha,Alpha-Trehalose-Phosphate Synthase (Udp- Forming) From Burkholderia Vietnamiensis

All present enzymatic activity of Crystal Structure of An Alpha,Alpha-Trehalose-Phosphate Synthase (Udp- Forming) From Burkholderia Vietnamiensis:
2.4.1.15;

Protein crystallography data

The structure of Crystal Structure of An Alpha,Alpha-Trehalose-Phosphate Synthase (Udp- Forming) From Burkholderia Vietnamiensis, PDB code: 5tvg was solved by Seattle Structural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 46.54 / 2.30
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 96.170, 103.020, 218.470, 90.00, 96.42, 90.00
R / Rfree (%) 17.8 / 22.5

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of An Alpha,Alpha-Trehalose-Phosphate Synthase (Udp- Forming) From Burkholderia Vietnamiensis (pdb code 5tvg). 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 An Alpha,Alpha-Trehalose-Phosphate Synthase (Udp- Forming) From Burkholderia Vietnamiensis, PDB code: 5tvg:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 5tvg

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Magnesium binding site 1 out of 3 in the Crystal Structure of An Alpha,Alpha-Trehalose-Phosphate Synthase (Udp- Forming) From Burkholderia Vietnamiensis


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 An Alpha,Alpha-Trehalose-Phosphate Synthase (Udp- Forming) From Burkholderia Vietnamiensis within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg507

b:38.5
occ:1.00
 O A:ARG352 2.1 44.6 1.0
OE1 A:GLN377 2.2 31.8 1.0
O A:SER354 2.3 40.9 1.0
O A:HOH699 2.6 37.2 1.0
O A:HOH738 2.7 29.0 1.0
C A:ARG352 3.0 40.8 1.0
CD A:GLN377 3.3 33.2 1.0
C A:SER354 3.5 40.5 1.0
O A:PHE351 3.5 41.5 1.0
CA A:ARG352 3.7 37.9 1.0
NE2 A:GLN377 3.7 31.5 1.0
N A:SER354 3.8 30.1 1.0
N A:GLY383 3.8 31.3 1.0
C A:MET353 3.9 30.7 1.0
O A:HOH841 4.0 61.7 1.0
N A:MET353 4.0 33.2 1.0
O A:HOH826 4.1 40.9 1.0
O A:MET353 4.1 38.1 1.0
CA A:SER354 4.2 29.8 1.0
CA A:GLY383 4.2 35.7 1.0
O A:ASP381 4.3 32.1 1.0
CA A:MET353 4.4 39.2 1.0
C A:PHE351 4.4 44.2 1.0
OG A:SER354 4.5 30.3 1.0
N A:GLN355 4.5 32.8 1.0
CG A:GLN377 4.6 29.7 1.0
N A:ARG352 4.6 38.8 1.0
OH A:TYR373 4.7 28.7 1.0
C A:PRO382 4.7 36.9 1.0
CA A:GLN355 4.8 29.9 1.0
CB A:ARG352 4.8 32.8 1.0
CG A:ARG352 4.9 34.5 1.0
CB A:GLN377 4.9 31.1 1.0
CA A:GLN377 5.0 33.7 1.0
CA A:PRO382 5.0 31.3 1.0

Magnesium binding site 2 out of 3 in 5tvg

Go back to Magnesium Binding Sites List in 5tvg
Magnesium binding site 2 out of 3 in the Crystal Structure of An Alpha,Alpha-Trehalose-Phosphate Synthase (Udp- Forming) From Burkholderia Vietnamiensis


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 An Alpha,Alpha-Trehalose-Phosphate Synthase (Udp- Forming) From Burkholderia Vietnamiensis within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg503

b:50.4
occ:1.00
 O B:ARG352 2.2 70.6 1.0
O B:SER354 2.4 49.1 1.0
O B:HOH656 2.5 49.8 1.0
OE1 B:GLN377 2.5 48.4 1.0
O B:HOH688 2.6 60.5 1.0
C B:ARG352 3.2 59.2 1.0
C B:SER354 3.5 53.6 1.0
CD B:GLN377 3.6 48.3 1.0
O B:PHE351 3.7 43.6 1.0
N B:SER354 3.9 47.5 1.0
N B:GLY383 3.9 53.4 1.0
C B:MET353 3.9 51.0 1.0
CA B:ARG352 3.9 50.5 1.0
O B:HOH704 3.9 56.1 1.0
O B:ASP381 4.1 61.6 1.0
NE2 B:GLN377 4.1 45.5 1.0
O B:MET353 4.1 45.6 1.0
N B:MET353 4.1 59.8 1.0
CA B:GLY383 4.3 53.6 1.0
CA B:SER354 4.3 46.9 1.0
CA B:MET353 4.4 63.1 1.0
N B:GLN355 4.6 51.5 1.0
C B:PHE351 4.7 45.7 1.0
C B:PRO382 4.7 57.0 1.0
OG B:SER354 4.8 48.2 1.0
N B:ARG352 4.8 46.2 1.0
CA B:GLN355 4.8 48.5 1.0
CG B:GLN377 4.9 43.3 1.0
CA B:PRO382 4.9 59.8 1.0
CG B:ARG352 5.0 52.3 1.0
OH B:TYR373 5.0 45.2 1.0
NE2 B:GLN355 5.0 60.4 1.0

Magnesium binding site 3 out of 3 in 5tvg

Go back to Magnesium Binding Sites List in 5tvg
Magnesium binding site 3 out of 3 in the Crystal Structure of An Alpha,Alpha-Trehalose-Phosphate Synthase (Udp- Forming) From Burkholderia Vietnamiensis


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 An Alpha,Alpha-Trehalose-Phosphate Synthase (Udp- Forming) From Burkholderia Vietnamiensis within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg504

b:61.0
occ:1.00
 O D:ARG352 2.4 54.8 1.0
O D:SER354 2.4 51.2 1.0
O D:HOH610 2.5 54.1 1.0
OE1 D:GLN377 2.5 50.9 1.0
O D:HOH635 2.6 51.1 1.0
C D:ARG352 3.3 50.1 1.0
CD D:GLN377 3.6 50.0 1.0
C D:SER354 3.6 49.5 1.0
N D:GLY383 3.7 48.7 1.0
O D:PHE351 3.7 44.1 1.0
O D:HOH650 3.8 48.7 1.0
O D:ASP381 3.9 59.3 1.0
N D:SER354 4.0 43.5 1.0
CA D:ARG352 4.0 43.1 1.0
C D:MET353 4.0 48.0 1.0
NE2 D:GLN377 4.1 45.0 1.0
CA D:GLY383 4.2 45.5 1.0
O D:MET353 4.3 45.7 1.0
N D:MET353 4.3 49.8 1.0
C D:PRO382 4.5 48.9 1.0
CA D:SER354 4.5 48.7 1.0
CA D:MET353 4.6 51.7 1.0
N D:GLN355 4.6 47.3 1.0
CA D:PRO382 4.7 49.5 1.0
C D:PHE351 4.7 46.1 1.0
CA D:GLN355 4.8 43.5 1.0
CG D:GLN377 4.8 46.7 1.0
OG D:SER354 4.8 44.5 1.0
OH D:TYR373 4.9 41.5 1.0
CA D:GLN377 4.9 45.9 1.0
N D:ARG352 4.9 40.9 1.0
CB D:GLN377 4.9 46.1 1.0
C D:ASP381 5.0 59.0 1.0

Reference:

T.E.Edwards, D.G.Conrady, J.W.Fairman, D.Lorimer, Seattle Structural Genomics Center For Infectious Disease(Ssgcid). Crystal Structure of An Alpha,Alpha-Trehalose-Phosphate Synthase (Udp-Forming) From Burkholderia Vietnamiensis To Be Published.
Page generated: Mon Sep 30 05:02:52 2024

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