Atomistry » Magnesium » PDB 1ao0-1bh2 » 1aqf
Atomistry »
  Magnesium »
    PDB 1ao0-1bh2 »
      1aqf »

Magnesium in PDB 1aqf: Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate

Enzymatic activity of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate

All present enzymatic activity of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate:
2.7.1.40;

Protein crystallography data

The structure of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate, PDB code: 1aqf was solved by T.M.Larsen, M.M.Benning, G.E.Wesenberg, I.Rayment, G.H.Reed, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.70
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 144.400, 112.600, 171.200, 90.00, 93.70, 90.00
R / Rfree (%) n/a / n/a

Other elements in 1aqf:

The structure of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate also contains other interesting chemical elements:

Potassium (K) 8 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate (pdb code 1aqf). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate, PDB code: 1aqf:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in 1aqf

Go back to Magnesium Binding Sites List in 1aqf
Magnesium binding site 1 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg534

b:19.4
occ:1.00
 O1 A:PEQ532 2.0 62.7 1.0
O3P A:PEQ532 2.0 76.7 1.0
OD2 A:ASP295 2.1 94.8 1.0
OE2 A:GLU271 2.1 16.9 1.0
O2 A:PEQ532 2.3 75.9 1.0
P A:PEQ532 2.5 87.8 1.0
C1 A:PEQ532 2.7 16.0 1.0
C2 A:PEQ532 2.9 24.4 1.0
CG A:ASP295 3.1 11.7 1.0
O2P A:PEQ532 3.2 76.5 1.0
CD A:GLU271 3.2 30.6 1.0
CB A:ASP295 3.6 37.8 1.0
O2' A:PEQ532 3.9 39.1 1.0
CG A:GLU271 3.9 34.0 1.0
O1P A:PEQ532 3.9 79.1 1.0
OE1 A:GLU271 4.2 30.1 1.0
OD1 A:ASP295 4.3 22.9 1.0
C3 A:PEQ532 4.3 33.3 1.0
CZ A:PHE243 4.5 49.2 1.0
CE1 A:PHE243 4.6 11.6 1.0
N A:ASP295 4.6 16.5 1.0
NZ A:LYS269 4.7 3.1 1.0
CA A:ASP295 4.7 10.2 1.0

Magnesium binding site 2 out of 8 in 1aqf

Go back to Magnesium Binding Sites List in 1aqf
Magnesium binding site 2 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg534

b:49.0
occ:1.00
 OE1 B:GLU271 2.3 0.0 1.0
OD2 B:ASP295 2.3 61.3 1.0
CD B:GLU271 3.1 25.9 1.0
OE2 B:GLU271 3.3 83.2 1.0
CG B:ASP295 3.4 0.0 1.0
CB B:ASP295 4.2 38.0 1.0
OD1 B:ASP295 4.3 66.7 1.0
O3P B:PEQ532 4.4 77.5 0.5
CG B:GLU271 4.5 10.3 1.0
OG B:SER242 4.7 13.6 1.0
O2 B:PEQ532 4.8 34.9 0.5
CB B:SER242 4.9 21.8 1.0
O B:LYS114 5.0 30.4 1.0

Magnesium binding site 3 out of 8 in 1aqf

Go back to Magnesium Binding Sites List in 1aqf
Magnesium binding site 3 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg534

b:42.8
occ:1.00
 OE1 C:GLU271 2.3 74.4 1.0
OD2 C:ASP295 2.4 70.0 1.0
O C:HOH6071 2.9 53.6 1.0
CG C:ASP295 3.3 38.9 1.0
CD C:GLU271 3.4 30.1 1.0
OE2 C:GLU271 4.0 55.7 1.0
CB C:ASP295 4.0 60.3 1.0
OD1 C:ASP295 4.2 99.1 1.0
CG C:GLU271 4.7 8.8 1.0
O3P C:PEQ532 4.7 74.5 0.5
O2P C:PEQ532 4.9 57.3 0.5

Magnesium binding site 4 out of 8 in 1aqf

Go back to Magnesium Binding Sites List in 1aqf
Magnesium binding site 4 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg534

b:40.8
occ:1.00
 OD2 D:ASP295 2.3 47.4 1.0
OE2 D:GLU271 2.3 56.0 1.0
CG D:ASP295 3.1 0.0 1.0
CD D:GLU271 3.2 23.3 1.0
OD1 D:ASP295 3.7 31.0 1.0
OE1 D:GLU271 3.9 46.5 1.0
CB D:ASP295 4.1 17.9 1.0
CG D:GLU271 4.3 1.0 1.0
O D:HOH6034 4.8 32.2 1.0
CB D:GLU271 4.8 30.0 1.0
O1 D:PEQ532 4.9 51.0 0.5

Magnesium binding site 5 out of 8 in 1aqf

Go back to Magnesium Binding Sites List in 1aqf
Magnesium binding site 5 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg534

b:82.0
occ:1.00
 OE1 E:GLU271 2.9 52.2 1.0
O2P E:PEQ532 3.1 0.0 0.5
OD2 E:ASP295 3.2 77.6 1.0
O E:LYS114 3.5 72.7 1.0
OE2 E:GLU271 3.6 58.2 1.0
CD E:GLU271 3.6 0.0 1.0
K E:K533 4.1 81.8 1.0
CB E:SER242 4.3 30.6 1.0
CG E:ASP295 4.3 0.0 1.0
P E:PEQ532 4.4 82.4 0.5
OG E:SER242 4.5 0.0 1.0
C E:LYS114 4.6 49.2 1.0
O2 E:PEQ532 4.6 86.3 0.5
O3P E:PEQ532 4.8 58.8 0.5

Magnesium binding site 6 out of 8 in 1aqf

Go back to Magnesium Binding Sites List in 1aqf
Magnesium binding site 6 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg534

b:45.0
occ:1.00
 OD2 F:ASP295 2.2 0.0 1.0
OE2 F:GLU271 2.3 38.4 1.0
CG F:ASP295 3.3 49.3 1.0
CD F:GLU271 3.5 25.1 1.0
OD1 F:ASP295 4.1 83.5 1.0
CB F:ASP295 4.3 24.6 1.0
OE1 F:GLU271 4.4 63.1 1.0
CG F:GLU271 4.5 32.4 1.0
CB F:SER242 4.8 1.0 1.0
O1 F:PEQ532 4.9 55.4 0.5
O3P F:PEQ532 4.9 74.2 0.5
O2P F:PEQ532 4.9 30.0 0.5

Magnesium binding site 7 out of 8 in 1aqf

Go back to Magnesium Binding Sites List in 1aqf
Magnesium binding site 7 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg534

b:52.5
occ:1.00
 OD2 G:ASP295 2.1 77.0 1.0
OE2 G:GLU271 2.9 43.0 1.0
CG G:ASP295 3.2 0.0 1.0
OD1 G:ASP295 3.8 73.8 1.0
CD G:GLU271 3.9 0.0 1.0
CB G:ASP295 4.3 49.9 1.0
OE1 G:GLU271 4.4 17.5 1.0
O1 G:PEQ532 4.9 50.2 0.5
CD1 G:PHE243 4.9 88.6 1.0
ND2 G:ASN209 5.0 39.3 1.0

Magnesium binding site 8 out of 8 in 1aqf

Go back to Magnesium Binding Sites List in 1aqf
Magnesium binding site 8 out of 8 in the Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Pyruvate Kinase From Rabbit Muscle with Mg, K, and L- Phospholactate within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg534

b:64.3
occ:1.00
 OE1 H:GLU271 2.3 35.4 1.0
OD2 H:ASP295 2.4 92.2 1.0
CD H:GLU271 3.3 19.4 1.0
CG H:ASP295 3.5 37.9 1.0
OE2 H:GLU271 3.8 55.3 1.0
CB H:ASP295 4.3 46.4 1.0
O2P H:PEQ532 4.4 90.0 0.5
OD1 H:ASP295 4.5 83.8 1.0
CG H:GLU271 4.6 3.3 1.0

Reference:

T.M.Larsen, M.M.Benning, G.E.Wesenberg, I.Rayment, G.H.Reed. Ligand-Induced Domain Movement in Pyruvate Kinase: Structure of the Enzyme From Rabbit Muscle with MG2+, K+, and L-Phospholactate at 2.7 A Resolution. Arch.Biochem.Biophys. V. 345 199 1997.
ISSN: ISSN 0003-9861
PubMed: 9308890
DOI: 10.1006/ABBI.1997.0257
Page generated: Tue Aug 13 02:07:24 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy