Atomistry » Magnesium » PDB 3s8c-3si7 » 3sh6
Atomistry »
  Magnesium »
    PDB 3s8c-3si7 »
      3sh6 »

Magnesium in PDB 3sh6: Frog M-Ferritin, D122R Mutant, with Magnesium

Enzymatic activity of Frog M-Ferritin, D122R Mutant, with Magnesium

All present enzymatic activity of Frog M-Ferritin, D122R Mutant, with Magnesium:
1.16.3.1;

Protein crystallography data

The structure of Frog M-Ferritin, D122R Mutant, with Magnesium, PDB code: 3sh6 was solved by T.Tosha, H.L.Ng, T.Alber, E.C.Theil, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 52.93 / 1.40
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 183.374, 183.374, 183.374, 90.00, 90.00, 90.00
R / Rfree (%) 16.6 / 19.2

Other elements in 3sh6:

The structure of Frog M-Ferritin, D122R Mutant, with Magnesium also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Frog M-Ferritin, D122R Mutant, with Magnesium (pdb code 3sh6). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 7 binding sites of Magnesium where determined in the Frog M-Ferritin, D122R Mutant, with Magnesium, PDB code: 3sh6:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7;

Magnesium binding site 1 out of 7 in 3sh6

Go back to Magnesium Binding Sites List in 3sh6
Magnesium binding site 1 out of 7 in the Frog M-Ferritin, D122R Mutant, with Magnesium


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Frog M-Ferritin, D122R Mutant, with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg176

b:28.2
occ:1.00
 OE1 A:GLU103 1.9 23.9 1.0
O A:HOH249 2.0 33.4 1.0
O A:HOH282 2.1 31.3 1.0
O A:HOH291 2.1 36.2 1.0
OE1 A:GLN137 2.3 35.0 1.0
OD2 A:ASP140 2.4 32.9 1.0
CD A:GLU103 2.8 19.2 1.0
OE2 A:GLU103 3.0 29.6 1.0
CD A:GLN137 3.3 30.6 1.0
CG A:ASP140 3.5 23.8 1.0
NE2 A:GLN137 3.5 22.8 1.0
CB A:ASP140 3.7 18.0 1.0
OE2 A:GLU58 3.7 30.1 1.0
OE1 A:GLU58 4.0 25.3 1.0
CD A:GLU58 4.1 22.0 1.0
O A:HOH319 4.2 37.9 1.0
CG A:GLU103 4.2 14.4 1.0
MG A:MG184 4.2 46.7 1.0
O A:HOH267 4.3 37.1 1.0
OD1 A:ASP140 4.6 27.8 1.0
CE1 A:HIS54 4.7 18.5 0.5
CG A:GLN137 4.7 27.8 1.0
CA A:GLN137 4.7 20.7 1.0
ND1 A:HIS54 4.7 21.4 0.5
MG A:MG180 4.8 46.9 1.0
CB A:GLU103 4.8 13.2 1.0

Magnesium binding site 2 out of 7 in 3sh6

Go back to Magnesium Binding Sites List in 3sh6
Magnesium binding site 2 out of 7 in the Frog M-Ferritin, D122R Mutant, with Magnesium


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Frog M-Ferritin, D122R Mutant, with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg177

b:15.2
occ:0.50
 O A:HOH317 2.0 16.6 0.5
O A:HOH316 2.1 15.5 0.5
O A:HOH224 4.2 17.4 1.0
NZ A:LYS82 4.6 22.9 1.0
CE A:LYS83 4.7 13.8 0.5
O A:HOH277 4.7 29.9 1.0
CD A:LYS82 4.7 16.5 1.0
CE A:LYS83 4.9 10.8 0.5

Magnesium binding site 3 out of 7 in 3sh6

Go back to Magnesium Binding Sites List in 3sh6
Magnesium binding site 3 out of 7 in the Frog M-Ferritin, D122R Mutant, with Magnesium


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Frog M-Ferritin, D122R Mutant, with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg178

b:20.6
occ:0.50
 O A:HOH199 3.0 16.6 1.0

Magnesium binding site 4 out of 7 in 3sh6

Go back to Magnesium Binding Sites List in 3sh6
Magnesium binding site 4 out of 7 in the Frog M-Ferritin, D122R Mutant, with Magnesium


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Frog M-Ferritin, D122R Mutant, with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg179

b:25.2
occ:1.00
 O A:HOH315 2.1 29.9 1.0
O A:VAL1 4.6 29.5 1.0
N A:GLN3 5.0 15.6 1.0
CB A:GLN3 5.0 15.2 1.0

Magnesium binding site 5 out of 7 in 3sh6

Go back to Magnesium Binding Sites List in 3sh6
Magnesium binding site 5 out of 7 in the Frog M-Ferritin, D122R Mutant, with Magnesium


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Frog M-Ferritin, D122R Mutant, with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg180

b:46.9
occ:1.00
 O A:HOH281 2.0 33.6 1.0
O A:HOH319 2.1 37.9 1.0
O A:HOH318 2.1 31.2 1.0
OE2 A:GLU136 2.6 47.9 1.0
OD1 A:ASP140 2.6 27.8 1.0
OD2 A:ASP140 2.8 32.9 1.0
CG A:GLU136 2.9 36.6 1.0
CG A:ASP140 2.9 23.8 1.0
OE2 A:GLU57 3.0 34.7 0.5
CD A:GLU136 3.1 42.9 1.0
CD A:GLU57 3.2 23.6 0.5
OE1 A:GLU57 3.3 26.6 0.5
OE1 A:GLU57 3.8 31.3 0.5
O A:GLU136 4.0 22.9 1.0
CB A:GLU136 4.2 30.1 1.0
OE1 A:GLU136 4.4 49.1 1.0
O A:HOH291 4.4 36.2 1.0
CG A:GLU57 4.4 18.7 0.5
CB A:ASP140 4.4 18.0 1.0
C A:GLU136 4.5 24.4 1.0
NH2 A:ARG143 4.6 24.6 0.2
NE2 A:HIS54 4.6 26.6 0.5
CA A:GLU136 4.7 26.6 1.0
MG A:MG176 4.8 28.2 1.0
O A:HOH282 4.8 31.3 1.0
O A:HOH267 4.9 37.1 1.0
CD2 A:HIS54 4.9 17.1 0.5

Magnesium binding site 6 out of 7 in 3sh6

Go back to Magnesium Binding Sites List in 3sh6
Magnesium binding site 6 out of 7 in the Frog M-Ferritin, D122R Mutant, with Magnesium


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Frog M-Ferritin, D122R Mutant, with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg184

b:46.7
occ:1.00
 O A:HOH291 2.7 36.2 1.0
OE2 A:GLU23 2.7 30.4 1.0
O A:HOH267 2.8 37.1 1.0
ND1 A:HIS61 3.2 31.3 1.0
O A:HOH249 3.3 33.4 1.0
OE1 A:GLU58 3.4 25.3 1.0
O A:HOH313 3.4 54.0 1.0
OE1 A:GLN137 3.6 35.0 1.0
CD A:GLU23 3.6 19.6 1.0
CE1 A:HIS61 3.8 32.2 1.0
OE1 A:GLU23 3.8 23.8 1.0
OE2 A:GLU58 3.8 30.1 1.0
CD2 A:TYR133 3.8 24.7 1.0
CD A:GLU58 4.0 22.0 1.0
CG1 A:VAL106 4.1 19.6 1.0
CG A:HIS61 4.1 20.6 1.0
CD A:GLN137 4.1 30.6 1.0
MG A:MG176 4.2 28.2 1.0
CD1 A:LEU110 4.4 24.6 1.0
CB A:HIS61 4.5 16.9 1.0
CE2 A:TYR133 4.5 23.7 1.0
NE2 A:GLN137 4.6 22.8 1.0
NE2 A:HIS61 4.7 31.1 1.0
CG A:TYR133 4.8 23.5 1.0
CB A:TYR133 4.9 23.3 1.0
CD2 A:HIS61 4.9 30.6 1.0
O A:TYR133 5.0 25.1 1.0
CG A:GLU23 5.0 17.7 1.0

Magnesium binding site 7 out of 7 in 3sh6

Go back to Magnesium Binding Sites List in 3sh6
Magnesium binding site 7 out of 7 in the Frog M-Ferritin, D122R Mutant, with Magnesium


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Frog M-Ferritin, D122R Mutant, with Magnesium within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg185

b:33.1
occ:0.33
 O A:HOH300 1.9 34.0 1.0
O A:HOH273 2.2 43.9 1.0
OE2 A:GLU130 3.8 31.5 1.0
OE1 A:GLU130 4.5 37.5 1.0
CD A:GLU130 4.6 33.3 1.0

Reference:

T.Tosha, H.L.Ng, T.Alber, E.C.Theil. Frog M-Ferritin, D122R Mutant, with Magnesium To Be Published.
Page generated: Thu Aug 15 10:57:30 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy