Iron in PDB 4my7: Frog M Ferritin Iron-Loaded Under Anaerobic Environment

All present enzymatic activity of Frog M Ferritin Iron-Loaded Under Anaerobic Environment:
1.16.3.1;

The structure of Frog M Ferritin Iron-Loaded Under Anaerobic Environment, PDB code: 4my7 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)	41.11 / 1.48
Space group	F 4 3 2
Cell size a, b, c (Å), α, β, γ (°)	183.830, 183.830, 183.830, 90.00, 90.00, 90.00
R / Rfree (%)	17.4 / 19.5

The structure of Frog M Ferritin Iron-Loaded Under Anaerobic Environment also contains other interesting chemical elements:

Magnesium	(Mg)	8 atoms
Chlorine	(Cl)	6 atoms

The binding sites of Iron atom in the Frog M Ferritin Iron-Loaded Under Anaerobic Environment (pdb code 4my7). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 5 binding sites of Iron where determined in the Frog M Ferritin Iron-Loaded Under Anaerobic Environment, PDB code: 4my7:
Jump to Iron binding site number: 1; 2; 3; 4; 5;

Iron binding site 1 out of 5 in the Frog M Ferritin Iron-Loaded Under Anaerobic Environment


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Frog M Ferritin Iron-Loaded Under Anaerobic Environment within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe201 b:10.7 occ:0.90 O A:HOH635 2.0 14.3 1.0 OE1 A:GLU23 2.0 10.6 1.0 OE1 A:GLU58 2.1 13.8 1.0 ND1 A:HIS61 2.2 11.6 1.0 O A:HOH636 2.2 12.7 1.0 CD A:GLU23 3.0 10.3 1.0 CE1 A:HIS61 3.0 11.8 1.0 CD A:GLU58 3.1 13.4 1.0 CG A:HIS61 3.2 11.4 1.0 OE2 A:GLU23 3.3 10.9 1.0 OE2 A:GLU58 3.5 13.9 1.0 CB A:HIS61 3.6 11.0 1.0 FE A:FE2202 3.6 13.7 0.5 CG1 A:VAL106 4.0 9.4 1.0 OE1 A:GLN137 4.1 13.9 1.0 NE2 A:HIS61 4.2 11.8 1.0 O A:HOH369 4.3 15.6 1.0 CD2 A:HIS61 4.3 11.7 1.0 CG A:GLU23 4.4 9.9 1.0 CG A:GLU58 4.4 12.8 1.0 CA A:GLU58 4.4 12.0 1.0 CB A:GLU58 4.6 12.1 1.0 O A:HOH630 4.6 25.3 1.0 CB A:GLU23 4.7 9.2 1.0 CD A:GLN137 4.9 12.8 1.0 CA A:GLU23 4.9 8.7 1.0

Iron binding site 2 out of 5 in the Frog M Ferritin Iron-Loaded Under Anaerobic Environment


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Frog M Ferritin Iron-Loaded Under Anaerobic Environment within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe202 b:13.7 occ:0.50 OE2 A:GLU58 1.8 13.9 1.0 O A:HOH635 2.1 14.3 1.0 OE2 A:GLU103 2.1 10.3 0.5 OE1 A:GLU103 2.2 12.1 0.5 O A:HOH630 2.3 25.3 1.0 OE1 A:GLU103 2.4 10.3 0.5 OE2 A:GLU103 2.4 12.3 0.5 CD A:GLU103 2.5 10.5 0.5 CD A:GLU103 2.6 11.9 0.5 CD A:GLU58 2.9 13.4 1.0 O A:HOH639 3.1 14.2 0.5 FE A:FE2203 3.3 13.3 0.4 OE1 A:GLU58 3.3 13.8 1.0 FE A:FE2201 3.6 10.7 0.9 OE1 A:GLN137 3.7 13.9 1.0 CG A:GLU103 4.0 10.3 0.5 NE2 A:GLN137 4.1 13.4 1.0 CG A:GLU103 4.1 11.4 0.5 CG A:GLU58 4.1 12.8 1.0 CE1 A:HIS61 4.3 11.8 1.0 CD A:GLN137 4.3 12.8 1.0 CE2 A:TYR30 4.4 12.7 1.0 ND1 A:HIS61 4.5 11.6 1.0 OH A:TYR30 4.7 15.4 1.0 OD2 A:ASP140 4.7 13.7 0.7 OE1 A:GLU57 4.8 17.0 0.6 O A:HOH636 4.8 12.7 1.0 CB A:GLU103 4.8 10.3 0.5 CB A:GLU103 4.9 10.9 0.5 ND1 A:HIS54 4.9 16.9 0.8

Iron binding site 3 out of 5 in the Frog M Ferritin Iron-Loaded Under Anaerobic Environment


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Frog M Ferritin Iron-Loaded Under Anaerobic Environment within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe203 b:13.3 occ:0.40 O A:HOH639 2.0 14.2 0.5 OE1 A:GLU57 2.0 17.0 0.6 ND1 A:HIS54 2.1 16.9 0.8 O A:HOH630 2.1 25.3 1.0 OD2 A:ASP140 2.2 13.7 0.7 CE1 A:HIS54 2.5 16.9 0.8 OE2 A:GLU103 2.6 12.3 0.5 CD A:GLU57 3.1 16.3 0.6 FE A:FE2202 3.3 13.7 0.5 CG A:HIS54 3.4 15.9 0.8 CG A:ASP140 3.4 12.5 0.7 OE2 A:GLU103 3.6 10.3 0.5 OE1 A:GLU103 3.7 10.3 0.5 FE A:FE2204 3.7 9.1 0.2 OE2 A:GLU58 3.7 13.9 1.0 NE2 A:HIS54 3.8 17.3 0.8 CD A:GLU103 3.8 11.9 0.5 CG A:GLU57 3.8 15.3 0.6 CD A:GLU103 3.8 10.5 0.5 O A:HOH624 4.1 27.3 1.0 OE2 A:GLU57 4.1 17.2 0.6 OE2 A:GLU136 4.1 16.8 0.8 CB A:ASP140 4.1 11.6 1.0 CB A:HIS54 4.2 14.5 1.0 CD2 A:HIS54 4.2 16.8 0.8 OE1 A:GLU103 4.3 12.1 0.5 OH A:TYR30 4.4 15.4 1.0 OD1 A:ASP140 4.4 13.2 0.7 CE2 A:TYR30 4.4 12.7 1.0 CA A:HIS54 4.5 13.2 1.0 CZ A:TYR30 4.6 13.3 1.0 O A:HOH562 4.7 38.7 1.0 CD A:GLU58 4.7 13.4 1.0 O A:HIS54 4.8 12.1 1.0 CG A:GLU103 4.9 10.3 0.5 CG A:GLU103 4.9 11.4 0.5 O A:HOH635 5.0 14.3 1.0

Iron binding site 4 out of 5 in the Frog M Ferritin Iron-Loaded Under Anaerobic Environment


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Frog M Ferritin Iron-Loaded Under Anaerobic Environment within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe204 b:9.1 occ:0.25 O A:HOH617 1.9 29.9 1.0 O A:HOH624 1.9 27.3 1.0 OD1 A:ASP140 2.2 13.2 0.7 OE2 A:GLU136 2.2 16.8 0.8 OD2 A:ASP140 2.3 13.7 0.7 CG A:ASP140 2.6 12.5 0.7 OE2 A:GLU57 2.6 17.2 0.6 OE1 A:GLU57 2.7 17.0 0.6 CD A:GLU57 3.0 16.3 0.6 CD A:GLU136 3.2 16.6 0.8 OE1 A:GLU136 3.5 17.7 0.8 FE A:FE2203 3.7 13.3 0.4 O A:HOH630 3.9 25.3 1.0 O A:HOH517 4.0 36.4 1.0 CB A:ASP140 4.1 11.6 1.0 O A:HOH562 4.1 38.7 1.0 CE1 A:HIS54 4.2 16.9 0.8 O A:HOH366 4.3 18.3 1.0 CG A:GLU57 4.5 15.3 0.6 CG A:GLU136 4.6 15.8 0.8 O A:HOH397 4.6 23.0 1.0 ND1 A:HIS54 4.6 16.9 0.8 O A:HOH567 4.7 46.3 1.0 CA A:ASP140 4.9 10.5 1.0 O A:GLU136 4.9 12.2 1.0 NE2 A:HIS54 4.9 17.3 0.8

Iron binding site 5 out of 5 in the Frog M Ferritin Iron-Loaded Under Anaerobic Environment


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Frog M Ferritin Iron-Loaded Under Anaerobic Environment within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe205 b:13.5 occ:0.20 CL A:CL217 2.0 12.6 0.2 NE2 A:HIS169 2.4 14.4 1.0 O A:HOH443 2.4 14.1 0.2 CE1 A:HIS169 3.1 14.6 1.0 CD2 A:HIS169 3.5 14.3 1.0 ND1 A:HIS169 4.3 14.5 1.0 CG A:HIS169 4.6 14.2 1.0

S.Mangani, F.Di Pisa, C.Pozzi, P.Turano, D.Lalli. Crystallographic Snapshots of Iron in Frog M Ferritin To Be Published.