Magnesium in PDB 7o6a: Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment

Enzymatic activity of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment

All present enzymatic activity of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment:
1.16.3.1;

Protein crystallography data

The structure of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment, PDB code: 7o6a was solved by C.Pozzi, S.Ciambellotti, G.Tassone, P.Turano, S.Mangani, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 106.04 / 1.40
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 183.675, 183.675, 183.675, 90, 90, 90
R / Rfree (%) 13.2 / 16.3

Other elements in 7o6a:

The structure of Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment also contains other interesting chemical elements:

Chlorine (Cl) 6 atoms
Iron (Fe) 9 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment (pdb code 7o6a). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment, PDB code: 7o6a:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in 7o6a

Go back to Magnesium Binding Sites List in 7o6a
Magnesium binding site 1 out of 3 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment


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 Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg210

b:17.5
occ:0.50
 O A:HOH369 1.8 33.7 1.0
O A:HOH600 2.0 38.1 1.0
O A:HOH593 2.0 37.9 1.0
O A:HOH662 2.0 28.7 0.5
O A:HOH659 2.1 25.8 0.5
O A:HOH396 2.3 21.7 1.0
O A:HOH655 4.2 38.2 0.5
O A:HOH627 4.2 36.3 0.5
O A:HOH671 4.2 37.2 0.5
OD1 A:ASN25 4.3 13.2 1.0
O A:HOH647 4.4 29.0 0.6
O A:ARG22 4.4 12.4 1.0
O A:HOH610 4.4 24.0 1.0
O A:HOH571 4.5 28.9 1.0
O A:HOH665 4.5 35.7 0.5
O A:HOH380 4.7 28.5 1.0
CB A:LEU26 4.9 12.8 1.0
O A:HOH620 5.0 31.9 1.0
O A:HOH641 5.0 28.7 1.0

Magnesium binding site 2 out of 3 in 7o6a

Go back to Magnesium Binding Sites List in 7o6a
Magnesium binding site 2 out of 3 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment


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 Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg211

b:22.2
occ:0.60
 O A:HOH384 2.0 22.6 0.6
O A:HOH413 2.0 31.2 1.0
O A:HOH430 2.0 22.2 0.6
O A:HOH550 2.1 28.5 0.6
O A:HOH639 3.7 24.8 0.5
OG A:SER42 3.9 15.1 0.5
OD1 A:ASN49 4.1 22.9 0.8
OG A:SER52 4.2 15.5 1.0
CB A:ASN49 4.3 14.6 1.0
O A:ASN49 4.4 14.0 1.0
O A:HOH554 4.4 31.8 0.5
CG A:ASN49 4.4 23.6 0.8
CB A:SER52 4.5 14.2 1.0
CA A:ASN49 4.7 13.5 1.0
O A:HOH459 4.8 33.1 1.0
CG A:ARG53 4.8 19.9 0.5
NH1 A:ARG53 4.8 25.7 0.3
CB A:SER42 4.8 14.8 0.5
NH2 A:ARG53 4.9 25.9 0.3

Magnesium binding site 3 out of 3 in 7o6a

Go back to Magnesium Binding Sites List in 7o6a
Magnesium binding site 3 out of 3 in the Crystal Structure of Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment


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 Human Mitochondrial Ferritin (Hmtf) Fe(II)-Loaded For 5 Minutes Under Anaerobic Environment within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg212

b:24.5
occ:0.40
 O A:HOH309 2.3 36.8 1.0
O A:HOH540 2.4 29.2 0.5
OE2 A:GLU101 4.0 16.5 0.4
OE1 A:GLU101 4.1 17.1 0.4
O A:HOH621 4.1 24.6 0.5
O A:HOH509 4.2 30.3 0.5
CD A:GLU101 4.4 16.0 0.4
O A:HOH538 4.5 26.6 0.5
OE2 A:GLU101 5.0 21.1 0.6

Reference:

S.Ciambellotti, A.Pratesi, G.Tassone, P.Turano, S.Mangani, C.Pozzi. Iron Binding in the Ferroxidase Site of Human Mitochondrial Ferritin. Chemistry 2021.
ISSN: ISSN 0947-6539
PubMed: 34343376
DOI: 10.1002/CHEM.202102270
Page generated: Thu Oct 3 02:34:58 2024

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