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Iron in PDB 4mjy: Sixty Minutes Iron Loaded Frog M Ferritin Mutant H54Q

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

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

Protein crystallography data

The structure of Sixty Minutes Iron Loaded Frog M Ferritin Mutant H54Q, PDB code: 4mjy 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) 29.06 / 1.40
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 183.790, 183.790, 183.790, 90.00, 90.00, 90.00
R / Rfree (%) 17.6 / 18.5

Other elements in 4mjy:

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

Magnesium (Mg) 3 atoms
Chlorine (Cl) 5 atoms

Iron Binding Sites:

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

Iron binding site 1 out of 8 in 4mjy

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Iron binding site 1 out of 8 in the Sixty Minutes 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 Sixty Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe201

b:14.0
occ:0.60
 OE1 A:GLU23 2.0 11.3 1.0
OE1 A:GLU58 2.0 17.7 0.9
O A:HOH480 2.1 26.1 1.0
ND1 A:HIS61 2.2 13.5 1.0
O A:HOH383 2.3 13.6 1.0
CD A:GLU23 2.9 10.8 1.0
CD A:GLU58 3.1 16.5 0.9
CE1 A:HIS61 3.1 13.8 1.0
OE2 A:GLU23 3.1 11.7 1.0
CG A:HIS61 3.3 13.0 1.0
OE2 A:GLU58 3.5 18.1 0.9
FE A:FE2202 3.6 14.6 0.4
CB A:HIS61 3.6 12.2 1.0
OE1 A:GLN137 3.9 15.9 0.9
CG1 A:VAL106 4.1 9.5 1.0
NE2 A:HIS61 4.2 14.1 1.0
CG A:GLU23 4.3 10.1 1.0
O A:HOH619 4.3 18.6 1.0
CA A:GLU58 4.3 12.9 1.0
CG A:GLU58 4.3 15.2 1.0
CD2 A:HIS61 4.3 13.5 1.0
O A:HOH393 4.4 16.5 1.0
CB A:GLU58 4.5 13.6 1.0
CB A:GLU23 4.7 9.1 1.0
CD A:GLN137 4.8 14.5 0.9
O A:GLU58 4.9 11.9 1.0

Iron binding site 2 out of 8 in 4mjy

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Iron binding site 2 out of 8 in the Sixty Minutes 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 Sixty Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe202

b:14.6
occ:0.40
 O A:HOH619 1.8 18.6 1.0
OE2 A:GLU58 1.8 18.1 0.9
O A:HOH480 2.0 26.1 1.0
O A:HOH620 2.2 25.3 1.0
OE2 A:GLU103 2.4 13.9 1.0
OE1 A:GLU103 2.6 14.5 1.0
CD A:GLU58 2.8 16.5 0.9
CD A:GLU103 2.9 13.2 1.0
OE1 A:GLU58 3.3 17.7 0.9
FE A:FE2201 3.6 14.0 0.6
OE1 A:GLN137 3.7 15.9 0.9
OD2 A:ASP140 3.7 15.6 0.8
FE A:FE2203 3.8 17.9 0.3
OE2 A:GLU57 3.9 15.7 0.5
CG A:GLU58 4.1 15.2 1.0
CE1 A:HIS61 4.3 13.8 1.0
CG A:GLU103 4.4 12.0 1.0
NE2 A:GLN137 4.4 15.3 0.9
CD A:GLN137 4.4 14.5 0.9
CE2 A:TYR30 4.5 10.5 1.0
ND1 A:HIS61 4.5 13.5 1.0
OE1 A:GLU136 4.6 20.6 0.8
OE1 A:GLN54 4.7 18.2 0.8
O A:HOH383 4.7 13.6 1.0
OH A:TYR30 4.8 12.2 1.0
CG A:ASP140 4.8 13.9 0.8
CD A:GLU57 4.8 15.2 0.5

Iron binding site 3 out of 8 in 4mjy

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Iron binding site 3 out of 8 in the Sixty Minutes 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 Sixty Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe203

b:17.9
occ:0.30
 OE2 A:GLU57 1.7 15.7 0.5
OD2 A:ASP140 1.9 15.6 0.8
OE1 A:GLU57 1.9 15.8 0.5
CD A:GLU57 2.1 15.2 0.5
O A:HOH620 2.2 25.3 1.0
OE2 A:GLU136 2.8 21.0 0.8
CG A:ASP140 2.9 13.9 0.8
OE1 A:GLU57 3.0 16.1 0.5
OD1 A:ASP140 3.2 14.9 0.8
O A:HOH619 3.3 18.6 1.0
FE A:FE2208 3.4 23.4 0.2
OE1 A:GLN54 3.4 18.2 0.8
OE1 A:GLU136 3.5 20.6 0.8
CD A:GLU136 3.5 19.4 0.8
NE2 A:GLN54 3.5 17.0 0.8
CG A:GLU57 3.6 14.7 0.5
CD A:GLN54 3.8 16.2 0.8
FE A:FE2202 3.8 14.6 0.4
CD A:GLU57 4.0 15.4 0.5
CB A:ASP140 4.1 12.5 1.0
CB A:GLU57 4.3 13.9 0.5
O A:HOH610 4.3 38.4 1.0
CB A:GLU57 4.4 13.8 0.5
NH1 A:ARG143 4.4 15.6 0.7
CE1 A:HIS61 4.5 13.8 1.0
OE2 A:GLU58 4.7 18.1 0.9
OE2 A:GLU57 4.7 16.2 0.5
OE2 A:GLU103 4.8 13.9 1.0
CG A:GLU57 4.8 14.6 0.5
O A:HOH398 5.0 19.9 1.0
CG A:GLU136 5.0 18.4 1.0

Iron binding site 4 out of 8 in 4mjy

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Iron binding site 4 out of 8 in the Sixty Minutes 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 Sixty Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe204

b:6.6
occ:0.20
 O A:HOH377 2.2 9.2 0.2
NE2 A:HIS169 2.3 9.2 1.0
CL A:CL213 2.4 7.4 0.2
CE1 A:HIS169 3.1 9.2 1.0
CD2 A:HIS169 3.4 9.2 1.0
ND1 A:HIS169 4.3 9.2 1.0
O A:HOH524 4.4 31.6 1.0
CG A:HIS169 4.4 9.3 1.0

Iron binding site 5 out of 8 in 4mjy

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Iron binding site 5 out of 8 in the Sixty Minutes 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 5 of Sixty Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe205

b:12.7
occ:0.20
 O A:HOH468 1.9 24.2 0.6
O A:HOH470 2.1 19.8 0.6
OD1 A:ASP127 3.8 13.5 1.0
OG A:SER131 4.1 13.1 0.6
OE1 A:GLU130 4.3 12.7 1.0
O A:HOH555 4.8 21.6 0.6
CG A:ASP127 4.9 12.8 1.0

Iron binding site 6 out of 8 in 4mjy

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Iron binding site 6 out of 8 in the Sixty Minutes 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 6 of Sixty Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe206

b:10.3
occ:0.20
 O A:HOH342 2.0 6.0 0.6
O A:HOH329 2.1 5.3 0.6
OE2 A:GLU130 3.9 11.8 1.0
O A:HOH382 4.2 12.6 1.0
OE1 A:GLU130 4.2 12.7 1.0
O A:HOH369 4.3 16.9 1.0
CD A:GLU130 4.5 12.2 1.0

Iron binding site 7 out of 8 in 4mjy

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Iron binding site 7 out of 8 in the Sixty Minutes 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 7 of Sixty Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe207

b:17.1
occ:0.40
 O A:HOH348 2.0 12.9 1.0
O A:HOH621 2.0 11.3 0.4
O A:HOH622 2.2 11.0 0.4
O A:HOH345 2.2 11.5 0.8
OD2 A:ASP80 4.0 7.7 1.0
OD1 A:ASP80 4.1 7.3 1.0
CG A:ASP80 4.5 7.5 1.0
O A:HOH309 4.7 8.4 1.0

Iron binding site 8 out of 8 in 4mjy

Go back to Iron Binding Sites List in 4mjy
Iron binding site 8 out of 8 in the Sixty Minutes 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 8 of Sixty Minutes Iron Loaded Frog M Ferritin Mutant H54Q within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe208

b:23.4
occ:0.20
 OE2 A:GLU136 1.9 21.0 0.8
O A:HOH610 1.9 38.4 1.0
OE1 A:GLU57 2.4 16.1 0.5
OE1 A:GLU57 2.9 15.8 0.5
CD A:GLU136 3.0 19.4 0.8
CD A:GLU57 3.1 15.2 0.5
CD A:GLU57 3.4 15.4 0.5
FE A:FE2203 3.4 17.9 0.3
OE2 A:GLU57 3.4 15.7 0.5
CG A:GLU136 3.6 18.4 1.0
OE2 A:GLU57 3.7 16.2 0.5
OD1 A:ASP140 3.7 14.9 0.8
CG A:GLU57 4.0 14.7 0.5
OE1 A:GLU136 4.0 20.6 0.8
OD2 A:ASP140 4.1 15.6 0.8
O A:HOH633 4.2 41.7 1.0
CG A:ASP140 4.3 13.9 0.8
O A:HOH458 4.6 27.7 1.0
CG A:GLU57 4.7 14.6 0.5
NH1 A:ARG143 4.7 15.6 0.7

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 06:54:22 2024

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