Iron in PDB 2ffn: The E41Q Mutant of Tetraheme Cytochrome C3 From Desulfovibrio Vulgaris Miyazaki F

The structure of The E41Q Mutant of Tetraheme Cytochrome C3 From Desulfovibrio Vulgaris Miyazaki F, PDB code: 2ffn was solved by Y.Higuchi, H.Komori, K.Morita, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 1.80
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	52.058, 67.671, 34.491, 90.00, 90.00, 90.00
R / Rfree (%)	17 / 21.7

The binding sites of Iron atom in the The E41Q Mutant of Tetraheme Cytochrome C3 From Desulfovibrio Vulgaris Miyazaki F (pdb code 2ffn). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the The E41Q Mutant of Tetraheme Cytochrome C3 From Desulfovibrio Vulgaris Miyazaki F, PDB code: 2ffn:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the The E41Q Mutant of Tetraheme Cytochrome C3 From Desulfovibrio Vulgaris Miyazaki F


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of The E41Q Mutant of Tetraheme Cytochrome C3 From Desulfovibrio Vulgaris Miyazaki F within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1004 b:10.9 occ:1.00 FE A:HEM1004 0.0 10.9 1.0 NE2 A:HIS106 2.0 9.4 1.0 NE2 A:HIS70 2.0 10.0 1.0 NB A:HEM1004 2.1 10.0 1.0 NC A:HEM1004 2.1 10.2 1.0 ND A:HEM1004 2.1 8.8 1.0 NA A:HEM1004 2.1 8.8 1.0 CE1 A:HIS70 2.9 10.9 1.0 CD2 A:HIS106 3.0 11.0 1.0 CE1 A:HIS106 3.0 10.8 1.0 C1B A:HEM1004 3.0 11.7 1.0 C4A A:HEM1004 3.1 10.7 1.0 C4D A:HEM1004 3.1 9.2 1.0 C1C A:HEM1004 3.1 10.8 1.0 C4C A:HEM1004 3.1 10.0 1.0 CD2 A:HIS70 3.1 10.4 1.0 C4B A:HEM1004 3.1 11.4 1.0 C1D A:HEM1004 3.1 9.6 1.0 C1A A:HEM1004 3.1 9.3 1.0 CHB A:HEM1004 3.4 10.5 1.0 CHA A:HEM1004 3.4 9.0 1.0 CHC A:HEM1004 3.4 9.8 1.0 CHD A:HEM1004 3.4 10.5 1.0 ND1 A:HIS70 4.1 10.3 1.0 ND1 A:HIS106 4.1 12.2 1.0 CG A:HIS106 4.1 12.5 1.0 CG A:HIS70 4.2 10.9 1.0 C2B A:HEM1004 4.2 12.4 1.0 C2C A:HEM1004 4.2 10.9 1.0 C3D A:HEM1004 4.3 8.1 1.0 C3C A:HEM1004 4.3 10.7 1.0 C3A A:HEM1004 4.3 9.1 1.0 C2A A:HEM1004 4.3 9.1 1.0 C3B A:HEM1004 4.3 11.9 1.0 C2D A:HEM1004 4.3 7.8 1.0 O A:HOH1217 4.7 34.0 1.0 CE2 A:TYR66 4.8 13.7 1.0

Iron binding site 2 out of 4 in the The E41Q Mutant of Tetraheme Cytochrome C3 From Desulfovibrio Vulgaris Miyazaki F


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of The E41Q Mutant of Tetraheme Cytochrome C3 From Desulfovibrio Vulgaris Miyazaki F within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1002 b:11.6 occ:1.00 FE A:HEM1002 0.0 11.6 1.0 NE2 A:HIS52 2.0 10.8 1.0 NE2 A:HIS35 2.0 11.0 1.0 ND A:HEM1002 2.1 12.2 1.0 NA A:HEM1002 2.1 10.3 1.0 NC A:HEM1002 2.1 10.3 1.0 NB A:HEM1002 2.1 11.3 1.0 CE1 A:HIS52 2.9 10.7 1.0 CE1 A:HIS35 2.9 11.2 1.0 CD2 A:HIS52 3.0 8.9 1.0 CD2 A:HIS35 3.0 12.2 1.0 C1D A:HEM1002 3.1 12.5 1.0 C4D A:HEM1002 3.1 11.8 1.0 C4A A:HEM1002 3.1 10.7 1.0 C1C A:HEM1002 3.1 12.6 1.0 C1A A:HEM1002 3.1 9.9 1.0 C4C A:HEM1002 3.1 10.9 1.0 C1B A:HEM1002 3.1 10.0 1.0 C4B A:HEM1002 3.1 10.5 1.0 CHD A:HEM1002 3.4 12.3 1.0 CHB A:HEM1002 3.4 9.6 1.0 CHC A:HEM1002 3.4 9.4 1.0 CHA A:HEM1002 3.4 11.0 1.0 ND1 A:HIS52 4.0 10.0 1.0 ND1 A:HIS35 4.0 10.6 1.0 CG A:HIS52 4.1 10.2 1.0 CG A:HIS35 4.1 9.8 1.0 C3D A:HEM1002 4.2 13.5 1.0 C2D A:HEM1002 4.2 12.3 1.0 C3C A:HEM1002 4.3 11.7 1.0 C2A A:HEM1002 4.3 9.6 1.0 C3A A:HEM1002 4.3 10.3 1.0 C2B A:HEM1002 4.3 10.6 1.0 C2C A:HEM1002 4.3 11.9 1.0 C3B A:HEM1002 4.3 10.0 1.0

Iron binding site 3 out of 4 in the The E41Q Mutant of Tetraheme Cytochrome C3 From Desulfovibrio Vulgaris Miyazaki F


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of The E41Q Mutant of Tetraheme Cytochrome C3 From Desulfovibrio Vulgaris Miyazaki F within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1001 b:11.9 occ:1.00 FE A:HEM1001 0.0 11.9 1.0 NE2 A:HIS22 2.0 11.0 1.0 NE2 A:HIS34 2.0 10.8 1.0 ND A:HEM1001 2.1 10.6 1.0 NC A:HEM1001 2.1 10.9 1.0 NA A:HEM1001 2.1 12.3 1.0 NB A:HEM1001 2.1 11.7 1.0 CE1 A:HIS34 2.9 10.4 1.0 CD2 A:HIS22 3.0 10.8 1.0 CE1 A:HIS22 3.0 11.7 1.0 C1D A:HEM1001 3.0 10.9 1.0 CD2 A:HIS34 3.1 10.8 1.0 C4D A:HEM1001 3.1 11.9 1.0 C1C A:HEM1001 3.1 11.5 1.0 C4C A:HEM1001 3.1 10.8 1.0 C4A A:HEM1001 3.1 12.2 1.0 C4B A:HEM1001 3.1 12.4 1.0 C1B A:HEM1001 3.1 12.0 1.0 C1A A:HEM1001 3.1 12.4 1.0 CHD A:HEM1001 3.4 11.9 1.0 CHB A:HEM1001 3.4 11.8 1.0 CHA A:HEM1001 3.4 11.9 1.0 CHC A:HEM1001 3.4 10.6 1.0 ND1 A:HIS34 4.0 10.4 1.0 ND1 A:HIS22 4.1 12.6 1.0 CG A:HIS22 4.1 10.4 1.0 CG A:HIS34 4.1 10.7 1.0 C2D A:HEM1001 4.2 11.5 1.0 C3D A:HEM1001 4.2 10.2 1.0 C2C A:HEM1001 4.3 11.3 1.0 C3A A:HEM1001 4.3 12.4 1.0 C3C A:HEM1001 4.3 10.9 1.0 C3B A:HEM1001 4.3 12.9 1.0 C2B A:HEM1001 4.3 12.9 1.0 C2A A:HEM1001 4.3 13.8 1.0 CE2 A:PHE20 4.7 9.8 1.0 CD A:PRO5 4.8 22.9 1.0

Iron binding site 4 out of 4 in the The E41Q Mutant of Tetraheme Cytochrome C3 From Desulfovibrio Vulgaris Miyazaki F


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of The E41Q Mutant of Tetraheme Cytochrome C3 From Desulfovibrio Vulgaris Miyazaki F within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe1003 b:11.8 occ:1.00 FE A:HEM1003 0.0 11.8 1.0 NE2 A:HIS83 2.0 10.7 1.0 NE2 A:HIS25 2.0 11.3 1.0 NC A:HEM1003 2.1 10.7 1.0 ND A:HEM1003 2.1 11.8 1.0 NA A:HEM1003 2.1 10.4 1.0 NB A:HEM1003 2.1 12.2 1.0 CE1 A:HIS83 2.9 10.3 1.0 CD2 A:HIS25 2.9 12.6 1.0 CE1 A:HIS25 3.0 12.3 1.0 CD2 A:HIS83 3.1 10.9 1.0 C1B A:HEM1003 3.1 11.8 1.0 C4A A:HEM1003 3.1 11.0 1.0 C1A A:HEM1003 3.1 11.3 1.0 C1C A:HEM1003 3.1 11.8 1.0 C4D A:HEM1003 3.1 11.5 1.0 C1D A:HEM1003 3.1 11.0 1.0 C4B A:HEM1003 3.1 11.9 1.0 C4C A:HEM1003 3.1 11.2 1.0 CHB A:HEM1003 3.4 11.7 1.0 CHC A:HEM1003 3.4 10.4 1.0 CHA A:HEM1003 3.4 12.6 1.0 CHD A:HEM1003 3.4 10.2 1.0 ND1 A:HIS83 4.0 9.9 1.0 ND1 A:HIS25 4.1 13.0 1.0 CG A:HIS25 4.1 13.0 1.0 CG A:HIS83 4.1 10.4 1.0 C3D A:HEM1003 4.3 13.2 1.0 C2B A:HEM1003 4.3 11.2 1.0 C2A A:HEM1003 4.3 12.4 1.0 C2D A:HEM1003 4.3 10.9 1.0 C3A A:HEM1003 4.3 11.6 1.0 C3C A:HEM1003 4.3 11.3 1.0 C3B A:HEM1003 4.3 12.4 1.0 C2C A:HEM1003 4.3 11.0 1.0 CE1 A:PHE20 5.0 10.4 1.0

N.Yahata, K.Ozawa, Y.Tomimoto, K.Morita, H.Komori, H.Ogata, Y.Higuchi, H.Akutsu. Roles of Charged Residues in pH-Dependent Redox Properties of Cytochrome C3 From Desulfovibrio Vulgaris Miyazaki F Biophysics(Bsj) V. 2 45 2006.
ISSN: ISSN 1349-2942
DOI: 10.2142/BIOPHYSICS.2.45