Iron in PDB 5oba: Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif

All present enzymatic activity of Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif:
1.16.3.1;

The structure of Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif, PDB code: 5oba was solved by P.Baiocco, M.C.Trabuco, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.48 / 2.85
Space group	I 2 2 2 1
Cell size a, b, c (Å), α, β, γ (°)	237.306, 237.468, 237.527, 90.00, 90.00, 90.00
R / Rfree (%)	13.7 / 17

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 32;

Binding sites:

The binding sites of Iron atom in the Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif (pdb code 5oba). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 32 binding sites of Iron where determined in the Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif, PDB code: 5oba:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Iron binding site 1 out of 32 in the Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe201 b:85.1 occ:0.80 OE1 A:GLU134 2.3 67.3 1.0 OE1 B:GLU134 2.6 61.3 1.0 OE1 C:GLU134 2.8 66.2 1.0 O A:HOH301 3.2 31.0 1.0 OE2 B:GLU134 3.2 59.8 1.0 CD A:GLU134 3.2 66.4 1.0 CD B:GLU134 3.3 61.4 1.0 OE2 A:GLU134 3.3 68.3 1.0 OE2 C:GLU134 3.5 64.5 1.0 CD C:GLU134 3.5 63.8 1.0 CG A:GLU134 4.6 64.0 1.0 OD1 C:ASP131 4.7 62.7 1.0 CG B:GLU134 4.7 61.5 1.0 OD1 A:ASP131 4.8 61.6 1.0 CA A:ASP131 5.0 60.8 1.0 CG C:GLU134 5.0 62.4 1.0

Iron binding site 2 out of 32 in the Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe202 b:76.4 occ:0.80 OE2 A:GLU62 2.3 58.1 1.0 OE2 A:GLU27 2.5 51.9 1.0 CD A:GLU62 2.9 58.2 1.0 OE1 A:GLU62 3.0 57.8 1.0 ND1 A:HIS65 3.0 66.3 1.0 CD A:GLU27 3.1 51.9 1.0 OE1 A:GLU27 3.2 52.1 1.0 OE1 A:GLN141 3.3 53.6 1.0 CG A:HIS65 3.4 65.0 1.0 CE1 A:HIS65 3.7 66.9 1.0 CB A:HIS65 3.7 62.7 1.0 CG1 A:VAL110 4.2 53.6 1.0 CD2 A:HIS65 4.2 66.2 1.0 NE2 A:HIS65 4.3 66.9 1.0 CG A:GLU62 4.4 57.9 1.0 CG A:GLU27 4.4 51.3 1.0 CD A:GLN141 4.6 53.4 1.0 CD2 A:TYR137 4.7 57.0 1.0 CA A:GLU62 4.7 57.5 1.0 CB A:GLU27 4.8 50.8 1.0 CB A:GLU62 4.9 57.5 1.0 OE2 A:GLU140 5.0 68.8 1.0 CE2 A:TYR137 5.0 56.7 1.0 OE1 A:GLU107 5.0 57.6 1.0

Iron binding site 3 out of 32 in the Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe201 b:81.0 occ:0.75 OE2 B:GLU27 2.2 55.3 1.0 OE2 B:GLU62 2.2 62.3 1.0 CD B:GLU62 2.9 63.4 1.0 OE1 B:GLU62 3.0 64.3 1.0 ND1 B:HIS65 3.0 68.6 1.0 OE1 B:GLN141 3.0 62.4 1.0 CD B:GLU27 3.1 55.7 1.0 OE1 B:GLU27 3.2 55.1 1.0 CG B:HIS65 3.8 66.9 1.0 CE1 B:HIS65 3.9 68.8 1.0 CB B:HIS65 4.0 65.6 1.0 CG1 B:VAL110 4.2 65.5 1.0 CD B:GLN141 4.3 62.5 1.0 CG B:GLU62 4.3 63.0 1.0 CG B:GLU27 4.5 55.7 1.0 OE1 B:GLU107 4.6 69.3 1.0 CA B:GLU62 4.6 61.9 1.0 CB B:GLU62 4.8 61.9 1.0 CD2 B:HIS65 4.9 67.3 1.0 CB B:GLU27 4.9 55.8 1.0 NE2 B:HIS65 4.9 68.3 1.0

Iron binding site 4 out of 32 in the Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe201 b:77.6 occ:0.80 OE2 C:GLU27 2.4 47.1 1.0 OE1 C:GLU62 3.0 59.9 1.0 OE2 C:GLU62 3.0 60.0 1.0 OE1 C:GLU27 3.1 46.6 1.0 OE1 C:GLN141 3.1 56.9 1.0 CD C:GLU27 3.1 46.5 1.0 CD C:GLU62 3.3 59.6 1.0 ND1 C:HIS65 3.3 62.6 1.0 CG C:HIS65 3.5 63.0 1.0 CB C:HIS65 3.8 62.3 1.0 CE1 C:HIS65 3.9 62.7 1.0 CG1 C:VAL110 4.1 61.0 1.0 CD2 C:HIS65 4.3 63.3 1.0 CD C:GLN141 4.4 57.1 1.0 CD2 C:TYR137 4.4 57.2 1.0 NE2 C:HIS65 4.4 63.5 1.0 CE2 C:TYR137 4.6 57.5 1.0 CG C:GLU27 4.6 46.5 1.0 CG C:GLU62 4.7 59.1 1.0

Iron binding site 5 out of 32 in the Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif within 5.0Å range: probe atom residue distance (Å) B Occ D:Fe201 b:94.3 occ:1.00 OE2 D:GLU27 2.5 52.8 1.0 OE2 D:GLU62 2.6 61.4 1.0 ND1 D:HIS65 3.1 60.8 1.0 CD D:GLU62 3.2 62.5 1.0 CD D:GLU27 3.2 52.8 1.0 OE1 D:GLU62 3.2 62.6 1.0 OE1 D:GLU27 3.3 52.6 1.0 CG D:HIS65 3.5 60.7 1.0 OE1 D:GLN141 3.5 67.8 1.0 CB D:HIS65 3.7 60.7 1.0 CE1 D:HIS65 3.8 60.8 1.0 CG1 D:VAL110 4.3 60.8 1.0 CD2 D:HIS65 4.4 61.1 1.0 CD D:GLN141 4.5 67.2 1.0 NE2 D:HIS65 4.5 61.5 1.0 CG D:GLU62 4.6 61.5 1.0 CG D:GLU27 4.7 52.6 1.0 CA D:GLU62 4.8 61.2 1.0 OE1 D:GLU107 4.8 63.6 1.0 CD2 D:TYR137 4.9 58.0 1.0

Iron binding site 6 out of 32 in the Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif within 5.0Å range: probe atom residue distance (Å) B Occ E:Fe201 b:88.0 occ:0.80 OE2 E:GLU134 2.7 74.7 1.0 OE2 D:GLU134 3.2 69.5 1.0 OE2 F:GLU134 3.4 67.1 1.0 CD E:GLU134 3.4 74.8 1.0 OE1 E:GLU134 3.4 75.6 1.0 OE1 D:GLU134 3.6 71.4 1.0 CD D:GLU134 3.8 69.8 1.0 OE1 F:GLU134 4.0 65.9 1.0 CD F:GLU134 4.1 66.7 1.0 CB D:CYS130 4.8 62.5 1.0 CG E:GLU134 4.9 74.3 1.0

Iron binding site 7 out of 32 in the Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 7 of Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif within 5.0Å range: probe atom residue distance (Å) B Occ E:Fe202 b:53.6 occ:0.50 OE2 E:GLU27 2.4 55.9 1.0 OE2 E:GLU62 2.6 63.6 1.0 OE1 E:GLU62 3.0 64.3 1.0 ND1 E:HIS65 3.0 76.4 1.0 OE1 E:GLU27 3.1 54.8 1.0 CD E:GLU27 3.1 56.5 1.0 CD E:GLU62 3.1 63.6 1.0 OE1 E:GLN141 3.2 64.7 1.0 CG E:HIS65 3.7 75.3 1.0 CE1 E:HIS65 3.7 76.8 1.0 CB E:HIS65 3.9 73.6 1.0 CG1 E:VAL110 4.2 69.0 1.0 CD E:GLN141 4.4 64.7 1.0 OE1 E:GLU107 4.5 76.6 1.0 CG E:GLU62 4.6 63.3 1.0 CD2 E:HIS65 4.6 76.2 1.0 CG E:GLU27 4.6 57.0 1.0 NE2 E:HIS65 4.6 77.2 1.0 CA E:GLU62 5.0 63.3 1.0

Iron binding site 8 out of 32 in the Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 8 of Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif within 5.0Å range: probe atom residue distance (Å) B Occ F:Fe201 b:99.1 occ:1.00 OE2 F:GLU27 2.3 62.9 1.0 OE2 F:GLU62 2.6 67.2 1.0 OE1 F:GLN141 3.1 64.8 1.0 CD F:GLU27 3.1 62.8 1.0 OE1 F:GLU27 3.1 62.9 1.0 ND1 F:HIS65 3.2 73.3 1.0 OE1 F:GLU62 3.2 69.9 1.0 CD F:GLU62 3.2 68.6 1.0 CG F:HIS65 3.7 72.4 1.0 CE1 F:HIS65 3.8 74.2 1.0 CB F:HIS65 3.9 70.7 1.0 CG1 F:VAL110 4.1 66.2 1.0 CD F:GLN141 4.2 64.2 1.0 CD2 F:HIS65 4.5 73.3 1.0 NE2 F:HIS65 4.5 74.7 1.0 CG F:GLU27 4.6 61.9 1.0 CG F:GLU62 4.7 67.7 1.0 OE1 F:GLU140 4.8 74.3 1.0 OE1 F:GLU107 4.9 61.6 1.0 CD2 F:TYR137 4.9 59.4 1.0

Iron binding site 9 out of 32 in the Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 9 of Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif within 5.0Å range: probe atom residue distance (Å) B Occ G:Fe201 b:0.8 occ:0.80 OE1 I:GLU134 2.2 59.5 1.0 OE1 H:GLU134 2.4 67.4 1.0 OE1 G:GLU134 2.5 70.3 1.0 O G:HOH301 2.8 61.4 1.0 CD I:GLU134 3.3 59.4 1.0 CD H:GLU134 3.3 67.9 1.0 CD G:GLU134 3.5 68.5 1.0 OE2 I:GLU134 3.6 59.9 1.0 OE2 H:GLU134 3.6 67.8 1.0 OE2 G:GLU134 3.8 70.1 1.0 CG H:GLU134 4.5 67.7 1.0 CB H:GLU134 4.5 67.7 1.0 OD1 H:ASP131 4.6 56.1 1.0 CG I:GLU134 4.6 59.4 1.0 OD1 G:ASP131 4.6 63.7 1.0 OD1 I:ASP131 4.6 58.4 1.0 CA H:ASP131 4.7 58.4 1.0 CG G:GLU134 4.8 66.3 1.0 O H:HOH301 4.8 43.6 1.0 CA G:ASP131 4.8 62.2 1.0 CB I:GLU134 4.9 58.4 1.0 CB G:GLU134 5.0 64.7 1.0

Iron binding site 10 out of 32 in the Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 10 of Structure of A Modified Mouse H-Chain Ferritin with A Lanthanide Binding Motif within 5.0Å range: probe atom residue distance (Å) B Occ G:Fe202 b:94.0 occ:0.80 OE2 G:GLU27 2.3 55.0 1.0 OE2 G:GLU62 2.4 59.6 1.0 OE1 G:GLN141 2.9 59.5 1.0 OE1 G:GLU27 3.0 53.8 1.0 CD G:GLU27 3.0 54.1 1.0 ND1 G:HIS65 3.1 70.2 1.0 CD G:GLU62 3.3 60.0 1.0 OE1 G:GLU62 3.6 60.2 1.0 CG G:HIS65 3.7 68.3 1.0 CG1 G:VAL110 3.7 65.5 1.0 CB G:HIS65 3.9 65.2 1.0 CE1 G:HIS65 3.9 70.9 1.0 CD G:GLN141 4.1 59.2 1.0 CG G:GLU27 4.5 53.6 1.0 CG G:GLU62 4.7 60.0 1.0 CD2 G:HIS65 4.7 70.0 1.0 NE2 G:HIS65 4.8 71.5 1.0 NE2 G:GLN141 4.8 58.2 1.0 OE1 G:GLU107 4.8 63.2 1.0 CD2 G:TYR137 4.9 58.3 1.0 CB G:VAL110 4.9 65.4 1.0 CA G:GLU62 5.0 60.5 1.0

L.Calisti, M.C.Trabuco, A.Boffi, C.Testi, L.C.Montemiglio, A.Des Georges, I.Benni, A.Ilari, B.Taciak, M.Bialasek, T.Rygiel, M.Krol, P.Baiocco, A.Bonamore. Engineered Ferritin For Lanthanide Binding. Plos One V. 13 01859 2018.
ISSN: ESSN 1932-6203
PubMed: 30102720
DOI: 10.1371/JOURNAL.PONE.0201859