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Magnesium in PDB 4zjk: Five Minutes Iron Loaded Human H Ferritin

Enzymatic activity of Five Minutes Iron Loaded Human H Ferritin

All present enzymatic activity of Five Minutes Iron Loaded Human H Ferritin:
1.16.3.1;

Protein crystallography data

The structure of Five Minutes Iron Loaded Human H Ferritin, PDB code: 4zjk was solved by C.Pozzi, F.Di Pisa, S.Mangani, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 31.07 / 1.56
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 183.800, 183.800, 183.800, 90.00, 90.00, 90.00
R / Rfree (%) 16.8 / 19.2

Other elements in 4zjk:

The structure of Five Minutes Iron Loaded Human H Ferritin also contains other interesting chemical elements:

Iron (Fe) 5 atoms
Chlorine (Cl) 14 atoms

Magnesium Binding Sites:

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

Magnesium binding site 1 out of 5 in 4zjk

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Magnesium binding site 1 out of 5 in the Five Minutes Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Five Minutes Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg206

b:14.5
occ:0.50
 O A:HOH329 2.0 15.9 1.0
O A:HOH313 2.0 17.1 0.5
OD2 A:ASP84 4.0 11.5 1.0
OD1 A:ASP84 4.1 10.8 1.0
O A:HOH625 4.5 29.9 1.0
CG A:ASP84 4.5 10.9 1.0
CL A:CL218 4.7 20.8 0.8

Magnesium binding site 2 out of 5 in 4zjk

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Magnesium binding site 2 out of 5 in the Five Minutes Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Five Minutes Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg207

b:15.2
occ:0.50
 O A:HOH332 2.0 21.0 0.5
O A:HOH615 2.1 19.1 0.5
O A:HOH420 2.2 15.8 0.5
O A:HOH315 3.8 36.4 1.0
OD1 A:ASP131 4.1 17.8 1.0
CG2 A:THR135 4.3 16.1 1.0
OG1 A:THR135 4.5 16.7 1.0
OD2 A:ASP131 4.5 16.8 1.0
O A:HOH547 4.7 43.3 1.0
CG A:ASP131 4.8 15.8 1.0
O A:HOH599 4.9 36.9 0.3
CB A:THR135 4.9 15.1 1.0

Magnesium binding site 3 out of 5 in 4zjk

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Magnesium binding site 3 out of 5 in the Five Minutes Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Five Minutes Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg208

b:16.7
occ:0.60
 O A:HOH363 1.9 14.7 0.6
O A:HOH629 2.1 22.5 0.6
O A:HOH570 2.1 22.1 0.6
O A:HOH577 2.2 20.7 0.6
O A:HOH627 2.2 24.6 0.6
O A:HOH396 2.3 9.3 0.6
OD1 A:ASN25 4.2 9.7 1.0
O A:HOH569 4.3 28.5 1.0
CL A:CL215 4.3 24.1 0.6
O A:ARG22 4.4 10.8 1.0
O A:HOH305 4.5 44.8 1.0
O A:HOH372 4.6 23.0 1.0
O A:HOH584 4.7 36.3 1.0
O A:HOH609 4.8 22.7 1.0
CB A:LEU26 4.9 9.9 1.0
CG A:ASN25 5.0 9.2 1.0
CB A:ASN25 5.0 9.2 1.0

Magnesium binding site 4 out of 5 in 4zjk

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Magnesium binding site 4 out of 5 in the Five Minutes Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Five Minutes Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg209

b:22.4
occ:0.25
 O A:HOH327 1.8 21.6 0.8
O A:HOH310 2.0 29.4 0.8
OD2 A:ASP131 3.5 16.8 1.0
O A:HOH599 3.9 36.9 0.3
OG1 A:THR135 4.2 16.7 1.0
O A:HOH420 4.4 15.8 0.5
OE1 A:GLU134 4.5 15.2 1.0
CG A:ASP131 4.6 15.8 1.0

Magnesium binding site 5 out of 5 in 4zjk

Go back to Magnesium Binding Sites List in 4zjk
Magnesium binding site 5 out of 5 in the Five Minutes Iron Loaded Human H Ferritin


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Five Minutes Iron Loaded Human H Ferritin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg210

b:9.6
occ:0.33
 O A:HOH356 2.1 12.7 1.0
O A:HOH542 2.1 13.6 1.0
OE2 A:GLU134 3.8 13.9 1.0
O A:HOH588 4.3 12.7 1.0
OE1 A:GLU134 4.3 15.2 1.0
O A:HOH382 4.3 16.2 1.0
CD A:GLU134 4.5 14.3 1.0

Reference:

C.Pozzi, F.Di Pisa, C.Bernacchioni, S.Ciambellotti, P.Turano, S.Mangani. Iron Binding to Human Heavy-Chain Ferritin. Acta Crystallogr.,Sect.D V. 71 1909 2015.
ISSN: ESSN 1399-0047
PubMed: 26327381
DOI: 10.1107/S1399004715013073
Page generated: Sun Sep 29 00:03:37 2024

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