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Iron in PDB 4ml5: One Minute Iron Loaded Frog M Ferritin Mutant H54Q

Enzymatic activity of One Minute Iron Loaded Frog M Ferritin Mutant H54Q

All present enzymatic activity of One Minute Iron Loaded Frog M Ferritin Mutant H54Q:
1.16.3.1;

Protein crystallography data

The structure of One Minute Iron Loaded Frog M Ferritin Mutant H54Q, PDB code: 4ml5 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) 21.71 / 1.22
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 184.230, 184.230, 184.230, 90.00, 90.00, 90.00
R / Rfree (%) 13.9 / 15.4

Other elements in 4ml5:

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

Magnesium (Mg) 9 atoms
Chlorine (Cl) 16 atoms

Iron Binding Sites:

The binding sites of Iron atom in the One Minute Iron Loaded Frog M Ferritin Mutant H54Q (pdb code 4ml5). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the One Minute Iron Loaded Frog M Ferritin Mutant H54Q, PDB code: 4ml5:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 4ml5

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Iron binding site 1 out of 4 in the One Minute Iron Loaded Frog M Ferritin Mutant H54Q


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of One Minute Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:8.8
occ:0.70
OE1 A:GLU23 2.0 7.9 1.0
OE1 A:GLU58 2.1 9.8 1.0
O A:HOH663 2.1 9.7 1.0
O A:HOH673 2.1 8.6 1.0
ND1 A:HIS61 2.2 9.7 1.0
CD A:GLU23 3.0 7.4 1.0
CD A:GLU58 3.0 9.2 1.0
CE1 A:HIS61 3.1 10.0 1.0
CG A:HIS61 3.2 9.4 1.0
OE2 A:GLU23 3.3 8.1 1.0
OE2 A:GLU58 3.4 10.1 1.0
CB A:HIS61 3.6 8.5 1.0
CG1 A:VAL106 3.9 6.5 1.0
NE2 A:HIS61 4.2 10.5 1.0
OE1 A:GLN137 4.2 7.7 1.0
O A:HOH360 4.2 9.3 1.0
CD2 A:HIS61 4.3 9.8 1.0
CG A:GLU23 4.3 6.8 1.0
CG A:GLU58 4.3 8.4 1.0
CA A:GLU58 4.4 7.9 1.0
CB A:GLU58 4.6 8.0 1.0
CB A:GLU23 4.6 6.1 1.0
O A:HOH649 4.7 13.6 1.0
CA A:GLU23 4.9 5.9 1.0
O A:GLU58 4.9 7.6 1.0
CG2 A:VAL106 4.9 6.5 1.0
CD A:GLN137 4.9 7.2 1.0
CB A:VAL106 5.0 6.4 1.0

Iron binding site 2 out of 4 in 4ml5

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Iron binding site 2 out of 4 in the One Minute Iron Loaded Frog M Ferritin Mutant H54Q


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of One Minute Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe202

b:20.0
occ:0.20
OD1 A:ASP140 2.3 10.8 0.4
OE2 A:GLU136 2.5 11.1 0.7
O A:HOH669 2.6 12.2 1.0
O A:HOH484 2.6 22.7 1.0
OE2 A:GLU57 2.6 12.4 0.3
CG A:ASP140 2.9 9.3 0.4
OD2 A:ASP140 3.2 10.8 0.4
NH1 A:ARG143 3.3 12.8 1.0
O A:HOH388 3.3 15.4 1.0
OD1 A:ASP140 3.4 8.3 0.6
CD A:GLU136 3.4 10.6 0.7
CG A:ASP140 3.5 7.7 0.6
OE1 A:GLU136 3.5 11.5 0.7
CD A:GLU57 3.6 11.1 0.3
OD2 A:ASP140 3.9 8.5 0.6
OE1 A:GLU57 3.9 11.8 0.7
O A:HOH437 4.0 17.3 1.0
CB A:ASP140 4.0 7.6 0.6
OE1 A:GLU57 4.1 12.2 0.3
O A:HOH637 4.1 36.9 1.0
OE1 A:GLN54 4.2 11.6 0.5
CB A:ASP140 4.2 8.3 0.4
CZ A:ARG143 4.2 12.4 1.0
FE A:FE2204 4.2 5.8 0.3
FE A:FE2203 4.4 10.2 0.2
CD A:GLU57 4.4 10.6 0.7
OE2 A:GLU57 4.5 11.2 0.7
O A:HOH649 4.5 13.6 1.0
CG A:GLU57 4.8 10.5 0.3
O A:HOH425 4.8 20.9 1.0
NE A:ARG143 4.8 11.5 1.0
CA A:ASP140 4.8 7.2 0.5
CG A:GLU136 4.8 10.5 1.0
CA A:ASP140 4.9 7.4 0.5
NE2 A:GLN54 4.9 8.3 0.5

Iron binding site 3 out of 4 in 4ml5

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Iron binding site 3 out of 4 in the One Minute Iron Loaded Frog M Ferritin Mutant H54Q


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of One Minute Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe203

b:10.2
occ:0.20
OE2 A:GLU57 2.0 11.2 0.7
O A:HOH437 2.0 17.3 1.0
OE2 A:GLU53 2.1 10.9 0.5
O A:HOH546 2.1 20.7 1.0
O A:HOH489 2.2 22.1 1.0
O A:HOH484 2.2 22.7 1.0
CD A:GLU57 3.0 10.6 0.7
OE1 A:GLU57 3.2 12.2 0.3
CD A:GLU53 3.2 10.0 0.5
OE1 A:GLU57 3.4 11.8 0.7
CG A:GLU53 3.5 10.4 0.5
OE2 A:GLU53 3.6 16.9 0.5
CG A:GLU53 3.7 9.2 0.5
CD A:GLU53 4.0 10.1 0.5
O A:HOH532 4.0 21.1 1.0
CD A:GLU57 4.1 11.1 0.3
O A:HOH678 4.2 16.6 1.0
NH1 A:ARG143 4.2 12.8 1.0
O A:HOH637 4.3 36.9 1.0
OE1 A:GLU53 4.3 11.2 0.5
OE2 A:GLU57 4.3 12.4 0.3
CG A:GLU57 4.3 9.9 0.7
FE A:FE2202 4.4 20.0 0.2
O A:HOH454 4.5 18.0 1.0
NH2 A:ARG143 4.5 13.3 1.0
OE1 A:GLN54 4.6 11.6 0.5
CZ A:ARG143 4.8 12.4 1.0
CB A:GLU53 4.9 9.3 0.5
CB A:GLU53 4.9 8.7 0.5

Iron binding site 4 out of 4 in 4ml5

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Iron binding site 4 out of 4 in the One Minute Iron Loaded Frog M Ferritin Mutant H54Q


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of One Minute Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe204

b:5.8
occ:0.30
OD2 A:ASP140 2.0 8.5 0.6
OE1 A:GLN54 2.1 7.1 0.5
O A:HOH589 2.1 10.8 1.0
O A:HOH669 2.1 12.2 1.0
OE2 A:GLU103 2.2 9.4 1.0
O A:HOH649 2.3 13.6 1.0
NE2 A:GLN54 2.6 11.2 0.5
OD2 A:ASP140 2.9 10.8 0.4
CG A:ASP140 3.1 7.7 0.6
CD A:GLN54 3.1 7.8 0.5
CD A:GLU103 3.2 8.5 1.0
CD A:GLN54 3.2 10.2 0.5
OE1 A:GLN54 3.4 11.6 0.5
NE2 A:GLN54 3.5 8.3 0.5
OE1 A:GLU103 3.5 9.2 1.0
CG A:ASP140 3.6 9.3 0.4
CB A:ASP140 3.9 7.6 0.6
OE2 A:GLU58 3.9 10.1 1.0
OD1 A:ASP140 3.9 8.3 0.6
CB A:ASP140 4.0 8.3 0.4
OH A:TYR30 4.1 8.9 1.0
OE2 A:GLU136 4.1 11.1 0.7
FE A:FE2202 4.2 20.0 0.2
CE2 A:TYR30 4.3 6.9 1.0
OE1 A:GLU57 4.4 11.8 0.7
CG A:GLN54 4.4 8.1 0.5
CG A:GLU103 4.4 7.9 1.0
OD1 A:ASP140 4.5 10.8 0.4
CG A:GLN54 4.5 9.5 0.5
CZ A:TYR30 4.5 7.3 1.0
OE2 A:GLU57 4.6 12.4 0.3
CB A:GLN54 4.7 7.7 0.5
CB A:GLN54 4.7 8.5 0.5
O A:HOH663 4.9 9.7 1.0
CD A:GLU57 4.9 11.1 0.3
CD A:GLU58 4.9 9.2 1.0
CG A:GLU57 4.9 10.5 0.3
CA A:GLN54 4.9 7.8 0.5
CA A:GLN54 4.9 8.0 0.5

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 5 06:55:55 2024

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