Atomistry » Magnesium » PDB 3zi8-3zwk » 3zmc
Atomistry »
  Magnesium »
    PDB 3zi8-3zwk »
      3zmc »

Magnesium in PDB 3zmc: Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate.

Enzymatic activity of Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate.

All present enzymatic activity of Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate.:
2.5.1.10;

Protein crystallography data

The structure of Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate., PDB code: 3zmc was solved by J.W.Schmidberger, R.Schnell, G.Schneider, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.86 / 1.87
Space group C 2 2 21
Cell size a, b, c (Å), α, β, γ (°) 85.963, 98.778, 130.554, 90.00, 90.00, 90.00
R / Rfree (%) 20.489 / 25.05

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate. (pdb code 3zmc). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate., PDB code: 3zmc:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in 3zmc

Go back to Magnesium Binding Sites List in 3zmc
Magnesium binding site 1 out of 5 in the Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1296

b:19.0
occ:1.00
 O2B A:GPP1295 1.8 19.7 1.0
O1A A:GPP1295 2.0 18.3 1.0
OD2 A:ASP89 2.0 15.2 1.0
OD2 A:ASP83 2.1 11.0 1.0
O A:HOH2092 2.1 14.4 1.0
O A:HOH2084 2.2 13.5 1.0
CG A:ASP83 3.0 11.8 1.0
MG A:MG1297 3.1 16.2 1.0
PB A:GPP1295 3.1 19.8 1.0
CG A:ASP89 3.2 14.9 1.0
PA A:GPP1295 3.3 17.1 1.0
OD1 A:ASP83 3.3 11.7 1.0
O3A A:GPP1295 3.5 18.9 1.0
CB A:ASP89 3.7 15.1 1.0
O3B A:GPP1295 3.9 25.0 1.0
NH2 A:ARG94 4.0 17.6 1.0
OD2 A:ASP91 4.2 17.9 1.0
OD1 A:ASP89 4.2 16.9 1.0
O A:HOH2091 4.2 19.2 1.0
O1 A:GPP1295 4.3 21.2 1.0
O A:HOH2217 4.3 25.9 1.0
O1B A:GPP1295 4.3 24.0 1.0
CB A:ASP83 4.3 12.8 1.0
O A:ASP83 4.4 15.2 1.0
O2A A:GPP1295 4.4 19.0 1.0
OD1 A:ASP84 4.4 13.9 1.0
C1 A:GPP1295 4.5 18.3 1.0
C A:ASP83 4.7 13.8 1.0
O A:HOH2082 4.7 18.2 1.0
O A:HOH2083 4.8 13.0 1.0
O A:HOH2085 5.0 16.4 1.0

Magnesium binding site 2 out of 5 in 3zmc

Go back to Magnesium Binding Sites List in 3zmc
Magnesium binding site 2 out of 5 in the Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg1297

b:16.2
occ:1.00
 O1A A:GPP1295 2.0 18.3 1.0
O A:HOH2083 2.0 13.0 1.0
OD1 A:ASP83 2.0 11.7 1.0
O A:HOH2082 2.0 18.2 1.0
O A:HOH2091 2.2 19.2 1.0
OD2 A:ASP89 2.2 15.2 1.0
CG A:ASP83 3.0 11.8 1.0
CG A:ASP89 3.1 14.9 1.0
MG A:MG1296 3.1 19.0 1.0
PA A:GPP1295 3.1 17.1 1.0
OD1 A:ASP89 3.2 16.9 1.0
OD2 A:ASP83 3.3 11.0 1.0
O1 A:GPP1295 3.7 21.2 1.0
O2A A:GPP1295 3.7 19.0 1.0
NE2 A:GLN157 3.9 12.8 1.0
OE1 A:GLN157 4.1 13.7 1.0
O A:HOH2092 4.1 14.4 1.0
OD2 A:ASP160 4.2 17.0 1.0
CB A:ASP83 4.4 12.8 1.0
CB A:ASP89 4.4 15.1 1.0
CD A:GLN157 4.4 11.1 1.0
O2B A:GPP1295 4.4 19.7 1.0
O3A A:GPP1295 4.5 18.9 1.0
C1 A:GPP1295 4.5 18.3 1.0
C2 A:GPP1295 4.6 19.1 1.0
NZ A:LYS180 4.8 28.0 1.0
O A:ASP83 4.8 15.2 1.0
O A:HOH2084 4.9 13.5 1.0

Magnesium binding site 3 out of 5 in 3zmc

Go back to Magnesium Binding Sites List in 3zmc
Magnesium binding site 3 out of 5 in the Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1293

b:17.2
occ:1.00
 O1B B:GPP1292 1.9 24.4 1.0
OD2 B:ASP89 2.0 17.8 1.0
O B:HOH2093 2.1 14.3 1.0
O1A B:GPP1292 2.1 19.9 1.0
O B:HOH2088 2.1 16.6 1.0
OD2 B:ASP83 2.2 16.8 1.0
CG B:ASP83 3.1 15.2 1.0
CG B:ASP89 3.1 18.2 1.0
MG B:MG1294 3.1 14.6 1.0
PB B:GPP1292 3.2 24.2 1.0
PA B:GPP1292 3.3 21.3 1.0
OD1 B:ASP83 3.4 15.8 1.0
CB B:ASP89 3.6 19.6 1.0
O3A B:GPP1292 3.6 21.8 1.0
O B:HOH2194 3.9 18.8 1.0
O2B B:GPP1292 3.9 26.0 1.0
OD2 B:ASP91 4.0 20.2 1.0
NH2 B:ARG94 4.1 19.3 1.0
O B:HOH2092 4.1 14.3 1.0
OD1 B:ASP89 4.1 20.5 1.0
O1 B:GPP1292 4.4 23.4 1.0
O2A B:GPP1292 4.4 19.7 1.0
O3B B:GPP1292 4.4 27.2 1.0
CB B:ASP83 4.4 13.8 1.0
O B:ASP83 4.4 13.3 1.0
OD1 B:ASP84 4.5 15.6 1.0
C1 B:GPP1292 4.5 22.9 1.0
O B:HOH2087 4.7 18.1 1.0
O B:HOH2086 4.8 16.9 1.0
C B:ASP83 4.8 13.1 1.0

Magnesium binding site 4 out of 5 in 3zmc

Go back to Magnesium Binding Sites List in 3zmc
Magnesium binding site 4 out of 5 in the Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1294

b:14.6
occ:1.00
 O B:HOH2087 1.9 18.1 1.0
O1A B:GPP1292 2.0 19.9 1.0
OD1 B:ASP83 2.0 15.8 1.0
OD2 B:ASP89 2.1 17.8 1.0
O B:HOH2086 2.1 16.9 1.0
O B:HOH2092 2.2 14.3 1.0
CG B:ASP89 2.9 18.2 1.0
CG B:ASP83 3.0 15.2 1.0
MG B:MG1293 3.1 17.2 1.0
OD1 B:ASP89 3.2 20.5 1.0
PA B:GPP1292 3.2 21.3 1.0
OD2 B:ASP83 3.4 16.8 1.0
O1 B:GPP1292 3.7 23.4 1.0
O2A B:GPP1292 3.8 19.7 1.0
NE2 B:GLN157 3.9 15.8 1.0
O B:HOH2130 4.0 40.1 1.0
OE1 B:GLN157 4.2 17.8 1.0
O B:HOH2093 4.2 14.3 1.0
C1 B:GPP1292 4.3 22.9 1.0
OD2 B:ASP160 4.3 24.4 1.0
CB B:ASP89 4.3 19.6 1.0
CB B:ASP83 4.4 13.8 1.0
O1B B:GPP1292 4.5 24.4 1.0
CD B:GLN157 4.5 14.4 1.0
O3A B:GPP1292 4.6 21.8 1.0
C2 B:GPP1292 4.7 20.5 1.0
O B:ASP83 4.7 13.3 1.0
NZ B:LYS180 4.7 25.3 1.0
O B:HOH2088 4.9 16.6 1.0

Magnesium binding site 5 out of 5 in 3zmc

Go back to Magnesium Binding Sites List in 3zmc
Magnesium binding site 5 out of 5 in the Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01, with Bound Substrate Molecule Geranyl Pyrophosphate. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1295

b:42.5
occ:1.00
 O B:HOH2164 2.0 26.9 1.0
O B:HOH2197 2.1 34.7 1.0
OD1 B:ASP223 2.2 24.4 1.0
O B:HOH2168 2.2 33.1 1.0
O B:HOH2167 2.3 44.7 1.0
O B:HOH2137 2.7 27.6 1.0
CG B:ASP223 3.2 23.5 1.0
OD2 B:ASP223 3.5 22.5 1.0
OE1 B:GLN219 4.0 25.4 1.0
O B:HOH2169 4.2 39.5 1.0
O B:HOH2170 4.2 36.1 1.0
O B:HOH2142 4.4 29.5 1.0
O B:GLN219 4.4 18.8 1.0
CB B:ASP223 4.5 25.6 1.0
CE1 B:HIS177 4.6 20.0 1.0
N B:ASP223 4.7 22.4 1.0
CA B:ASP223 4.7 24.6 1.0
NE2 B:HIS177 4.8 20.6 1.0
CB B:ASP222 4.9 25.2 1.0

Reference:

J.W.Schmidberger, R.Schnell, G.Schneider. Native Structure of Farnesyl Pyrophosphate Synthase From Pseudomonas Aeruginosa PA01 To Be Published.
Page generated: Thu Aug 15 13:59:03 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy