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Magnesium in PDB 5bq2: Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa

Enzymatic activity of Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa

All present enzymatic activity of Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa:
2.5.1.7;

Protein crystallography data

The structure of Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa, PDB code: 5bq2 was solved by Ssgcid, 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) 43.41 / 1.70
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 130.170, 166.810, 81.450, 90.00, 90.00, 90.00
R / Rfree (%) 14.8 / 18.1

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa (pdb code 5bq2). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa, PDB code: 5bq2:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 5bq2

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Magnesium binding site 1 out of 6 in the Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa


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 Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg502

b:10.7
occ:1.00
 O A:HOH698 2.0 10.5 1.0
O11 A:QPA117 2.1 10.2 1.0
O A:HOH684 2.1 9.4 1.0
O A:HOH903 2.1 11.4 1.0
O A:HOH938 2.1 12.4 1.0
O9 A:QPA117 2.2 13.0 1.0
C10 A:QPA117 3.1 13.1 1.0
P2 A:QPA117 3.3 9.2 1.0
O12 A:QPA117 3.7 8.9 1.0
O14 A:QPA117 3.8 10.8 1.0
C8 A:QPA117 3.9 10.3 1.0
NH1 A:ARG400 3.9 9.4 1.0
O10 A:QPA117 3.9 12.6 1.0
O A:THR91 4.0 10.5 1.0
O A:HOH749 4.0 18.5 1.0
O B:HOH926 4.2 32.0 1.0
O A:HOH1088 4.2 19.3 1.0
O A:HOH868 4.3 27.9 1.0
O A:HOH846 4.3 11.3 1.0
O A:HOH717 4.3 31.7 1.0
O A:LYS90 4.4 10.5 1.0
C9 A:QPA117 4.5 9.1 1.0
C A:THR91 4.5 10.7 1.0
O13 A:QPA117 4.5 8.8 1.0
O A:HOH692 4.7 14.7 1.0
CA A:THR91 4.9 9.9 1.0
CZ A:ARG400 5.0 11.5 1.0

Magnesium binding site 2 out of 6 in 5bq2

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Magnesium binding site 2 out of 6 in the Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa


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 Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg502

b:10.3
occ:1.00
 O B:HOH868 2.0 11.1 1.0
O13 B:QPA117 2.0 9.5 1.0
O B:HOH925 2.1 14.4 1.0
O B:HOH680 2.1 8.4 1.0
O10 B:QPA117 2.1 11.9 1.0
O B:HOH639 2.1 11.2 1.0
C10 B:QPA117 3.0 12.2 1.0
P2 B:QPA117 3.2 9.1 1.0
O12 B:QPA117 3.6 10.2 1.0
O14 B:QPA117 3.7 9.4 1.0
C8 B:QPA117 3.8 8.9 1.0
O9 B:QPA117 3.8 16.0 1.0
NH1 B:ARG400 3.9 9.9 1.0
O B:HOH625 3.9 23.9 1.0
O B:THR91 4.1 11.2 1.0
O A:HOH941 4.2 33.2 1.0
O B:HOH822 4.2 24.1 1.0
O B:HOH807 4.3 9.7 1.0
O B:HOH1088 4.3 23.1 1.0
O B:HOH799 4.3 26.0 1.0
C9 B:QPA117 4.4 10.1 1.0
O B:LYS90 4.4 12.6 1.0
O B:HOH644 4.5 13.7 1.0
O11 B:QPA117 4.5 10.7 1.0
C B:THR91 4.5 11.0 1.0
CA B:THR91 4.9 8.3 1.0
CZ B:ARG400 5.0 10.8 1.0

Magnesium binding site 3 out of 6 in 5bq2

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Magnesium binding site 3 out of 6 in the Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa


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 Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg502

b:10.5
occ:1.00
 O13 C:QPA117 2.0 9.7 1.0
O C:HOH675 2.0 11.0 1.0
O C:HOH732 2.1 11.5 1.0
O C:HOH918 2.1 16.2 1.0
O C:HOH900 2.1 12.4 1.0
O10 C:QPA117 2.2 13.0 1.0
C10 C:QPA117 3.1 14.1 1.0
P2 C:QPA117 3.2 9.6 1.0
O12 C:QPA117 3.6 10.9 1.0
O14 C:QPA117 3.7 11.4 1.0
C8 C:QPA117 3.8 10.7 1.0
O9 C:QPA117 3.9 14.8 1.0
NH1 C:ARG400 3.9 10.1 1.0
O C:THR91 4.1 11.7 1.0
O C:HOH637 4.1 25.2 1.0
O D:HOH954 4.1 39.5 1.0
O C:HOH816 4.3 12.3 1.0
O C:HOH891 4.3 28.7 1.0
O C:HOH633 4.3 21.7 1.0
O C:HOH1049 4.4 22.7 1.0
O C:LYS90 4.4 12.5 1.0
C9 C:QPA117 4.5 14.1 1.0
O11 C:QPA117 4.5 10.8 1.0
O C:HOH731 4.5 13.4 1.0
C C:THR91 4.6 7.9 1.0
CA C:THR91 4.9 10.7 1.0

Magnesium binding site 4 out of 6 in 5bq2

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Magnesium binding site 4 out of 6 in the Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg503

b:24.2
occ:1.00
 O B:HOH688 2.0 21.2 1.0
O C:HOH764 2.1 23.7 1.0
O A:HOH876 2.1 27.0 1.0
O C:HOH921 2.1 28.1 1.0
O B:HOH736 2.2 27.8 1.0
OD1 C:ASN353 2.4 21.8 1.0
CG C:ASN353 3.2 17.9 1.0
ND2 C:ASN353 3.7 15.6 1.0
O A:HOH626 3.8 21.1 1.0
OE2 A:GLU351 4.1 17.6 1.0
CA A:GLY352 4.2 12.3 1.0
O C:HOH809 4.3 16.8 1.0
O B:HOH965 4.3 35.5 1.0
CB C:ASN353 4.3 11.4 1.0
OE2 B:GLU332 4.3 35.7 1.0
OE1 B:GLU332 4.4 33.0 1.0
N C:ASN353 4.5 16.4 1.0
CG A:GLU351 4.5 13.7 1.0
O C:HOH799 4.5 55.4 1.0
OE1 C:GLU332 4.6 44.8 1.0
N A:GLY352 4.6 15.7 1.0
O A:GLU351 4.7 13.1 1.0
CD A:GLU351 4.8 14.6 1.0
CD B:GLU332 4.8 33.3 1.0
C A:GLU351 4.8 16.0 1.0
O C:HOH944 5.0 36.5 1.0
CA C:ASN353 5.0 12.8 1.0

Magnesium binding site 5 out of 6 in 5bq2

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Magnesium binding site 5 out of 6 in the Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg502

b:11.5
occ:1.00
 O11 D:QPA117 2.0 10.5 1.0
O9 D:QPA117 2.0 11.3 1.0
O D:HOH902 2.1 12.2 1.0
O D:HOH646 2.1 13.3 1.0
O D:HOH933 2.1 13.6 1.0
O D:HOH670 2.2 10.7 1.0
C10 D:QPA117 2.9 15.4 1.0
P2 D:QPA117 3.2 10.3 1.0
O12 D:QPA117 3.6 11.8 1.0
O10 D:QPA117 3.7 14.3 1.0
O14 D:QPA117 3.7 10.0 1.0
C8 D:QPA117 3.8 9.1 1.0
O D:HOH647 3.9 26.3 1.0
NH1 D:ARG400 4.0 9.8 1.0
O D:THR91 4.2 9.5 1.0
O D:HOH836 4.2 11.9 1.0
O D:HOH935 4.3 21.7 1.0
O D:HOH1063 4.4 20.9 1.0
O D:LYS90 4.4 13.0 1.0
C9 D:QPA117 4.4 8.0 1.0
O D:HOH690 4.4 14.5 1.0
O D:HOH818 4.5 29.2 1.0
O13 D:QPA117 4.5 11.5 1.0
C D:THR91 4.6 9.2 1.0
CA D:THR91 5.0 11.0 1.0

Magnesium binding site 6 out of 6 in 5bq2

Go back to Magnesium Binding Sites List in 5bq2
Magnesium binding site 6 out of 6 in the Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg503

b:19.9
occ:1.00
 O A:HOH622 2.0 18.2 1.0
O B:HOH851 2.0 19.6 1.0
O D:HOH926 2.1 24.4 1.0
O A:HOH670 2.2 23.0 1.0
O D:HOH806 2.2 27.2 1.0
OD1 D:ASN353 2.3 18.2 1.0
CG D:ASN353 3.2 15.4 1.0
ND2 D:ASN353 3.7 13.2 1.0
O B:HOH624 3.9 26.2 1.0
O B:HOH878 4.0 30.5 1.0
O D:HOH626 4.1 46.7 1.0
OE2 A:GLU332 4.2 38.0 1.0
OE2 B:GLU351 4.2 15.5 1.0
CB D:ASN353 4.3 10.6 1.0
CA B:GLY352 4.3 14.0 1.0
OE1 A:GLU332 4.3 30.1 1.0
O B:HOH798 4.3 16.7 1.0
N D:ASN353 4.4 13.8 1.0
O A:HOH1004 4.5 25.9 1.0
O B:GLU351 4.5 13.8 1.0
CG B:GLU351 4.5 14.7 1.0
N B:GLY352 4.7 13.8 1.0
CD A:GLU332 4.7 37.4 1.0
C B:GLU351 4.8 15.9 1.0
OE1 D:GLU332 4.8 47.7 1.0
CD B:GLU351 4.8 18.1 1.0
CA D:ASN353 4.9 13.3 1.0

Reference:

J.Abendroth, D.M.Dranow, D.D.Lorimer, T.E.Edwards. Crystal Structure of Udp-N-Acetylglucosamine 1-Carboxyvinyltransferase (Udp-N-Acetylglucosamine Enolpyruvyl Transferase, Ept) From Pseudomonas Aeruginosa To Be Published.
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