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Magnesium in PDB 4mn9: Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q

Enzymatic activity of Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q

All present enzymatic activity of Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q:
1.16.3.1;

Protein crystallography data

The structure of Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q, PDB code: 4mn9 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) 22.47 / 1.15
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 183.930, 183.930, 183.930, 90.00, 90.00, 90.00
R / Rfree (%) 14.1 / 15.3

Other elements in 4mn9:

The structure of Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q also contains other interesting chemical elements:

Iron (Fe) 6 atoms
Chlorine (Cl) 10 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q (pdb code 4mn9). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q, PDB code: 4mn9:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in 4mn9

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Magnesium binding site 1 out of 8 in the Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg207

b:7.0
occ:0.33
 O A:HOH368 2.0 8.9 1.0
O A:HOH331 2.1 8.5 1.0
OE2 A:GLU130 3.9 8.8 1.0
O A:HOH408 4.2 10.6 1.0
OE1 A:GLU130 4.3 10.4 1.0
O A:HOH356 4.3 12.3 1.0
CD A:GLU130 4.5 9.2 1.0

Magnesium binding site 2 out of 8 in 4mn9

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Magnesium binding site 2 out of 8 in the Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg208

b:9.6
occ:0.25
 O A:HOH509 1.7 16.5 0.8
O A:HOH532 2.1 23.4 0.8
OD1 A:ASP127 3.8 12.2 1.0
O A:HOH503 4.2 26.7 1.0
OG A:SER131 4.2 8.6 0.5
OE1 A:GLU130 4.3 10.4 1.0
O A:HOH419 4.9 14.4 1.0
CG A:ASP127 4.9 10.4 1.0
CB A:GLU130 5.0 8.3 1.0

Magnesium binding site 3 out of 8 in 4mn9

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Magnesium binding site 3 out of 8 in the Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg209

b:11.9
occ:0.80
 O A:HOH453 2.0 16.0 1.0
O A:HOH396 2.1 11.5 0.8
O A:HOH455 2.1 14.1 0.8
O A:HOH448 2.1 17.0 1.0
O A:HOH393 2.1 13.0 0.8
O A:HOH419 2.1 14.4 1.0
O A:SER131 4.2 10.1 1.0
O A:GLU130 4.3 10.2 1.0
O A:HOH513 4.4 22.2 1.0
O A:HOH642 4.4 31.0 1.0
CA A:SER131 4.4 11.7 0.5
CA A:SER131 4.5 8.8 0.5
O A:HOH503 4.7 26.7 1.0
C A:SER131 4.7 8.8 1.0
O A:HOH505 4.7 25.8 1.0
CB A:GLU135 4.7 9.7 1.0
CG A:GLU135 4.9 9.8 1.0
CL A:CL218 5.0 11.5 0.7

Magnesium binding site 4 out of 8 in 4mn9

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Magnesium binding site 4 out of 8 in the Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg210

b:10.2
occ:0.50
 O A:HOH322 2.0 11.2 1.0
O A:HOH345 2.0 12.4 0.5
O A:HOH374 2.1 12.0 0.5
O A:HOH370 2.1 13.6 1.0
O A:HOH337 4.2 11.0 1.0
CD A:LYS82 4.4 8.2 0.5
O A:HOH371 4.4 13.3 1.0
CE A:LYS83 4.5 7.4 0.5
CE A:LYS82 4.6 8.3 0.5
NZ A:LYS82 4.6 7.8 0.5
O A:HOH486 4.7 28.2 1.0
CE A:LYS83 4.8 7.4 0.5
CD A:LYS82 4.9 7.6 0.5

Magnesium binding site 5 out of 8 in 4mn9

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Magnesium binding site 5 out of 8 in the Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg211

b:12.2
occ:0.70
 O A:HOH470 2.0 16.0 0.7
O A:HOH413 2.0 15.0 0.7
O A:HOH385 2.1 11.9 0.7
O A:HOH334 2.1 9.2 0.7
O A:HOH426 2.1 16.0 0.7
OG A:SER10 2.1 10.5 1.0
CB A:SER10 3.2 9.2 1.0
CA A:SER10 3.9 7.8 1.0
O A:SER10 4.1 7.3 1.0
O A:HOH584 4.2 28.0 1.0
OE1 A:GLU13 4.2 8.1 1.0
O A:HOH350 4.2 14.8 1.0
C A:SER10 4.4 7.2 1.0
O A:HOH369 4.4 12.6 1.0
O A:HOH596 4.4 34.4 1.0
O A:HOH545 4.5 30.1 1.0
O A:HOH569 4.6 28.7 1.0
CD A:GLU13 4.6 7.0 1.0

Magnesium binding site 6 out of 8 in 4mn9

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Magnesium binding site 6 out of 8 in the Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg212

b:9.7
occ:0.40
 O A:HOH619 1.9 13.1 0.4
O A:HOH618 2.0 11.6 0.4
O A:HOH611 2.0 11.4 0.4
O A:HOH514 2.0 13.0 0.4
O A:HOH610 2.0 7.2 0.4
O A:HOH478 2.2 13.1 0.4
OD2 A:ASP146 4.0 8.5 1.0
O A:HOH411 4.2 16.9 1.0
O A:HOH343 4.3 11.4 1.0
O A:HOH398 4.3 18.7 1.0
O A:HOH355 4.6 12.4 1.0
O A:HOH492 5.0 25.0 1.0

Magnesium binding site 7 out of 8 in 4mn9

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Magnesium binding site 7 out of 8 in the Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg213

b:17.7
occ:0.70
 O A:HOH512 2.0 18.3 0.7
O A:HOH630 2.1 17.0 0.7
O A:HOH550 2.1 24.9 1.0
O A:HOH375 2.1 15.5 1.0
O A:HOH631 2.2 22.9 0.7
O A:HOH613 2.2 21.0 0.7
O A:HOH386 4.2 14.8 1.0
O A:HOH360 4.5 12.6 1.0
O A:HOH562 4.6 29.8 1.0

Magnesium binding site 8 out of 8 in 4mn9

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Magnesium binding site 8 out of 8 in the Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Fifteen Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg214

b:21.3
occ:0.70
 O A:HOH632 1.8 16.8 0.7
O A:HOH604 2.0 21.9 0.7
O A:HOH344 2.3 11.0 1.0
O A:HOH648 2.3 29.8 0.7
O A:HOH652 2.4 27.5 0.7
O A:HOH566 2.4 27.5 0.7
O A:HOH565 2.7 24.2 0.7
O A:HOH404 4.1 16.8 1.0
OD1 A:ASN21 4.2 6.4 1.0
O A:ARG18 4.4 6.3 1.0
O A:HOH445 4.4 19.2 1.0
O A:HOH510 4.5 13.8 1.0
O A:HOH434 4.7 20.0 1.0
CB A:LEU22 4.9 6.5 1.0
O A:HOH415 4.9 14.0 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 23:15:42 2024

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