Iron in PDB 5t7h: Crystal Structure of Dimeric Yeast Iso-1-Cytochrome C with CYMAL6

The structure of Crystal Structure of Dimeric Yeast Iso-1-Cytochrome C with CYMAL6, PDB code: 5t7h was solved by L.Mcclelland, T.C.Mou, S.R.Sprang, B.E.Bowler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	7.98 / 2.00
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	50.351, 56.122, 56.127, 75.65, 63.37, 63.36
R / Rfree (%)	19.8 / 24.8

The binding sites of Iron atom in the Crystal Structure of Dimeric Yeast Iso-1-Cytochrome C with CYMAL6 (pdb code 5t7h). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Crystal Structure of Dimeric Yeast Iso-1-Cytochrome C with CYMAL6, PDB code: 5t7h:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in the Crystal Structure of Dimeric Yeast Iso-1-Cytochrome C with CYMAL6


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Crystal Structure of Dimeric Yeast Iso-1-Cytochrome C with CYMAL6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe205 b:22.5 occ:1.00 FE A:HEM205 0.0 22.5 1.0 NE2 A:HIS18 1.9 23.3 1.0 NC A:HEM205 2.0 21.6 1.0 NB A:HEM205 2.1 23.2 1.0 NA A:HEM205 2.1 25.2 1.0 ND A:HEM205 2.1 22.2 1.0 O A:HOH342 2.3 25.3 1.0 CE1 A:HIS18 2.9 23.8 1.0 CD2 A:HIS18 2.9 23.0 1.0 C4C A:HEM205 3.0 26.8 1.0 C1B A:HEM205 3.0 25.6 1.0 C4A A:HEM205 3.0 25.1 1.0 C1D A:HEM205 3.1 23.9 1.0 C4B A:HEM205 3.1 26.1 1.0 C1A A:HEM205 3.1 24.2 1.0 C1C A:HEM205 3.1 23.8 1.0 C4D A:HEM205 3.1 24.5 1.0 CHD A:HEM205 3.4 25.2 1.0 CHB A:HEM205 3.4 24.8 1.0 CHA A:HEM205 3.5 21.6 1.0 CHC A:HEM205 3.5 25.1 1.0 ND1 A:HIS18 4.0 20.6 1.0 CG A:HIS18 4.1 22.1 1.0 C3C A:HEM205 4.3 24.4 1.0 C2B A:HEM205 4.3 26.2 1.0 C3A A:HEM205 4.3 26.5 1.0 C3B A:HEM205 4.3 23.0 1.0 C2C A:HEM205 4.3 25.4 1.0 C2A A:HEM205 4.3 28.0 1.0 O A:HOH361 4.3 34.2 1.0 C2D A:HEM205 4.3 24.3 1.0 OH A:TYR67 4.4 25.5 1.0 C3D A:HEM205 4.4 22.9 1.0 O D:PHE82 4.6 30.5 1.0

Iron binding site 2 out of 4 in the Crystal Structure of Dimeric Yeast Iso-1-Cytochrome C with CYMAL6


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Crystal Structure of Dimeric Yeast Iso-1-Cytochrome C with CYMAL6 within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe205 b:22.5 occ:1.00 FE B:HEM205 0.0 22.5 1.0 NE2 B:HIS18 2.0 23.7 1.0 NA B:HEM205 2.0 24.2 1.0 NC B:HEM205 2.1 22.6 1.0 NB B:HEM205 2.1 23.9 1.0 ND B:HEM205 2.1 20.7 1.0 O B:HOH348 2.2 24.5 1.0 CE1 B:HIS18 2.9 22.2 1.0 CD2 B:HIS18 3.0 22.5 1.0 C4A B:HEM205 3.0 25.0 1.0 C1A B:HEM205 3.0 24.9 1.0 C4C B:HEM205 3.0 25.9 1.0 C1B B:HEM205 3.1 25.7 1.0 C1D B:HEM205 3.1 24.4 1.0 C4D B:HEM205 3.1 25.0 1.0 C4B B:HEM205 3.1 26.0 1.0 C1C B:HEM205 3.1 25.4 1.0 CHD B:HEM205 3.4 24.0 1.0 CHB B:HEM205 3.4 22.6 1.0 CHA B:HEM205 3.4 24.0 1.0 CHC B:HEM205 3.5 25.1 1.0 ND1 B:HIS18 4.0 19.5 1.0 CG B:HIS18 4.1 19.8 1.0 C3A B:HEM205 4.2 27.4 1.0 C2A B:HEM205 4.3 24.5 1.0 C2B B:HEM205 4.3 25.6 1.0 C3C B:HEM205 4.3 25.3 1.0 C2D B:HEM205 4.3 22.9 1.0 C3D B:HEM205 4.3 21.9 1.0 C3B B:HEM205 4.3 25.3 1.0 C2C B:HEM205 4.3 26.0 1.0 OH B:TYR67 4.4 26.7 1.0 O B:HOH365 4.4 36.2 1.0 O C:PHE82 4.6 30.6 1.0

Iron binding site 3 out of 4 in the Crystal Structure of Dimeric Yeast Iso-1-Cytochrome C with CYMAL6


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Crystal Structure of Dimeric Yeast Iso-1-Cytochrome C with CYMAL6 within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe204 b:23.5 occ:1.00 FE C:HEM204 0.0 23.5 1.0 NC C:HEM204 2.0 22.6 1.0 NE2 C:HIS18 2.0 24.6 1.0 NA C:HEM204 2.1 23.4 1.0 NB C:HEM204 2.1 22.9 1.0 ND C:HEM204 2.1 23.1 1.0 O B:HOH351 2.4 26.9 1.0 CD2 C:HIS18 2.9 22.8 1.0 C4C C:HEM204 3.0 26.1 1.0 C1D C:HEM204 3.0 23.0 1.0 C1B C:HEM204 3.1 25.0 1.0 C4A C:HEM204 3.1 25.5 1.0 CE1 C:HIS18 3.1 22.5 1.0 C1C C:HEM204 3.1 24.4 1.0 C1A C:HEM204 3.1 22.4 1.0 C4B C:HEM204 3.1 25.8 1.0 C4D C:HEM204 3.1 24.6 1.0 CHD C:HEM204 3.3 23.8 1.0 CHB C:HEM204 3.4 21.1 1.0 CHA C:HEM204 3.5 23.5 1.0 CHC C:HEM204 3.5 24.9 1.0 CG C:HIS18 4.1 20.4 1.0 ND1 C:HIS18 4.1 22.4 1.0 C3C C:HEM204 4.2 26.3 1.0 C2C C:HEM204 4.3 25.8 1.0 C2B C:HEM204 4.3 26.3 1.0 C3A C:HEM204 4.3 28.2 1.0 C2A C:HEM204 4.3 25.2 1.0 C3B C:HEM204 4.3 24.1 1.0 C2D C:HEM204 4.3 24.5 1.0 O C:HOH365 4.3 34.1 1.0 C3D C:HEM204 4.3 22.4 1.0 OH C:TYR67 4.5 29.4 1.0 O B:PHE82 4.5 29.4 1.0

Iron binding site 4 out of 4 in the Crystal Structure of Dimeric Yeast Iso-1-Cytochrome C with CYMAL6


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Crystal Structure of Dimeric Yeast Iso-1-Cytochrome C with CYMAL6 within 5.0Å range: probe atom residue distance (Å) B Occ D:Fe203 b:22.9 occ:1.00 FE D:HEM203 0.0 22.9 1.0 NE2 D:HIS18 2.0 24.9 1.0 NB D:HEM203 2.1 24.4 1.0 NC D:HEM203 2.1 23.5 1.0 NA D:HEM203 2.1 23.1 1.0 ND D:HEM203 2.1 20.9 1.0 O A:HOH352 2.3 25.8 1.0 CE1 D:HIS18 2.9 24.1 1.0 CD2 D:HIS18 3.0 22.6 1.0 C1B D:HEM203 3.1 24.0 1.0 C4C D:HEM203 3.1 29.5 1.0 C4A D:HEM203 3.1 25.6 1.0 C1D D:HEM203 3.1 24.5 1.0 C4B D:HEM203 3.1 27.0 1.0 C4D D:HEM203 3.1 23.7 1.0 C1C D:HEM203 3.1 25.0 1.0 C1A D:HEM203 3.1 21.5 1.0 CHD D:HEM203 3.4 26.3 1.0 CHB D:HEM203 3.4 23.8 1.0 CHC D:HEM203 3.5 24.6 1.0 CHA D:HEM203 3.5 24.7 1.0 ND1 D:HIS18 4.0 22.4 1.0 CG D:HIS18 4.1 20.8 1.0 C2B D:HEM203 4.3 26.3 1.0 C3A D:HEM203 4.3 27.0 1.0 C3B D:HEM203 4.3 25.9 1.0 C3C D:HEM203 4.3 25.4 1.0 C2A D:HEM203 4.3 26.1 1.0 C2D D:HEM203 4.3 23.1 1.0 C2C D:HEM203 4.3 27.2 1.0 C3D D:HEM203 4.3 23.8 1.0 O D:HOH366 4.5 34.5 1.0 OH D:TYR67 4.5 27.4 1.0 O A:PHE82 4.6 30.1 1.0

L.J.Mcclelland, H.B.Steele, F.G.Whitby, T.C.Mou, D.Holley, J.B.Ross, S.R.Sprang, B.E.Bowler. Cytochrome C Can Form A Well-Defined Binding Pocket For Hydrocarbons. J. Am. Chem. Soc. V. 138 16770 2016.
ISSN: ESSN 1520-5126
PubMed: 27990813
DOI: 10.1021/JACS.6B10745