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Magnesium in PDB 4lqv: Thrirty Minutes Iron Loaded Frog M Ferritin

Enzymatic activity of Thrirty Minutes Iron Loaded Frog M Ferritin

All present enzymatic activity of Thrirty Minutes Iron Loaded Frog M Ferritin:
1.16.3.1;

Protein crystallography data

The structure of Thrirty Minutes Iron Loaded Frog M Ferritin, PDB code: 4lqv was solved by S.Mangani, F.Di Pisa, C.Pozzi, P.Turano, D.Lalli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.23 / 1.54
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 184.084, 184.084, 184.084, 90.00, 90.00, 90.00
R / Rfree (%) 16.8 / 19.3

Other elements in 4lqv:

The structure of Thrirty Minutes Iron Loaded Frog M Ferritin also contains other interesting chemical elements:

Iron (Fe) 3 atoms
Chlorine (Cl) 5 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Thrirty Minutes Iron Loaded Frog M Ferritin (pdb code 4lqv). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Thrirty Minutes Iron Loaded Frog M Ferritin, PDB code: 4lqv:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in 4lqv

Go back to Magnesium Binding Sites List in 4lqv
Magnesium binding site 1 out of 6 in the Thrirty Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Thrirty Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg204

b:15.6
occ:0.80
 O A:HOH656 2.0 17.3 0.8
O A:HOH452 2.1 14.2 0.8
O A:HOH640 2.1 18.7 0.8
O A:HOH483 2.1 10.9 0.8
OG A:SER10 2.1 10.8 1.0
O A:HOH667 2.1 17.9 0.8
CB A:SER10 3.2 9.7 1.0
CA A:SER10 3.9 9.2 1.0
O A:SER10 4.1 8.9 1.0
OE1 A:GLU13 4.2 8.2 1.0
O A:HOH487 4.3 34.2 1.0
O A:HOH344 4.3 15.4 1.0
C A:SER10 4.3 9.1 1.0
O A:HOH358 4.4 12.4 1.0
O A:HOH571 4.4 33.8 1.0
O A:HOH553 4.5 34.5 1.0
CD A:GLU13 4.7 7.8 1.0

Magnesium binding site 2 out of 6 in 4lqv

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Magnesium binding site 2 out of 6 in the Thrirty Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Thrirty Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg205

b:5.7
occ:0.33
 O A:HOH505 1.8 26.9 1.0
O A:HOH562 1.9 25.4 1.0
OD1 A:ASP127 3.8 11.4 1.0
OG A:SER131 4.0 11.1 0.6
OE1 A:GLU130 4.1 10.5 1.0
O A:HOH647 4.2 31.9 1.0
CB A:GLU130 4.7 9.9 1.0
CG A:ASP127 4.9 10.9 1.0
O A:HOH493 4.9 13.4 0.7
CD A:GLU130 4.9 10.1 1.0

Magnesium binding site 3 out of 6 in 4lqv

Go back to Magnesium Binding Sites List in 4lqv
Magnesium binding site 3 out of 6 in the Thrirty Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Thrirty Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg206

b:11.2
occ:0.70
 O A:HOH431 2.0 15.4 0.7
O A:HOH493 2.1 13.4 0.7
O A:HOH509 2.1 17.5 0.7
O A:HOH666 2.1 12.0 0.7
O A:HOH655 2.1 14.8 0.7
O A:HOH641 2.1 17.0 0.7
OD2 A:ASP127 4.1 11.6 1.0
O A:HOH529 4.2 32.0 1.0
O A:HOH477 4.3 26.6 1.0
OD1 A:ASP127 4.4 11.4 1.0
CG A:ASP127 4.7 10.9 1.0
OG A:SER131 4.8 11.1 0.6
O A:HOH541 4.9 30.0 1.0
O A:HOH647 4.9 31.9 1.0
OG A:SER131 5.0 11.7 0.4

Magnesium binding site 4 out of 6 in 4lqv

Go back to Magnesium Binding Sites List in 4lqv
Magnesium binding site 4 out of 6 in the Thrirty Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Thrirty Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg207

b:6.1
occ:0.33
 O A:HOH355 2.0 10.2 1.0
O A:HOH320 2.1 8.2 1.0
OE2 A:GLU130 3.8 10.0 1.0
O A:HOH361 4.2 11.0 1.0
OE1 A:GLU130 4.3 10.5 1.0
O A:HOH342 4.3 13.6 1.0
CD A:GLU130 4.5 10.1 1.0

Magnesium binding site 5 out of 6 in 4lqv

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Magnesium binding site 5 out of 6 in the Thrirty Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Thrirty Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg208

b:6.1
occ:0.50
 O A:HOH343 1.9 13.5 1.0
O A:HOH430 1.9 10.8 1.0
O A:HOH398 2.0 6.9 0.5
O A:HOH410 2.2 9.6 0.5
O A:HOH339 4.0 12.2 1.0
CD A:LYS82 4.1 8.2 0.5
NZ A:LYS82 4.3 8.3 0.5
CE A:LYS82 4.4 8.3 0.5
CD A:LYS82 4.7 8.0 0.5
CE A:LYS83 4.7 8.3 0.5
CE A:LYS82 4.8 8.2 0.5
O A:HOH390 4.8 18.4 1.0
CE A:LYS83 4.9 8.5 0.5

Magnesium binding site 6 out of 6 in 4lqv

Go back to Magnesium Binding Sites List in 4lqv
Magnesium binding site 6 out of 6 in the Thrirty Minutes Iron Loaded Frog M Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Thrirty Minutes Iron Loaded Frog M Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg209

b:13.8
occ:0.60
 O A:HOH611 1.9 16.5 0.4
O A:HOH597 2.0 15.4 0.6
O A:HOH603 2.1 26.0 0.6
O A:HOH622 2.2 27.2 0.6
O A:HOH596 2.2 7.5 0.6
O A:HOH673 2.3 28.7 0.6
O A:HOH445 4.0 21.9 1.0
OD1 A:ASN21 4.3 6.8 1.0
O A:HOH405 4.4 20.5 1.0
O A:HOH482 4.5 14.4 1.0
O A:ARG18 4.5 8.1 1.0
O A:HOH423 4.6 22.1 1.0
O A:HOH407 4.8 16.8 1.0
CB A:LEU22 4.9 7.8 1.0
O A:HOH427 5.0 20.9 1.0

Reference:

S.Mangani, F.Di Pisa, C.Pozzi, P.Turano, D.Lalli. Crystallographic Snapshots of Iron in Frog M Ferritin To Be Published.
Page generated: Mon Aug 19 20:01:12 2024

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