Iron in PDB 1dxr: Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex)

The structure of Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex), PDB code: 1dxr was solved by C.R.D.Lancaster, M.Bibikova, P.Sabatino, D.Oesterhelt, H.Michel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 2.00
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	223.500, 223.500, 113.600, 90.00, 90.00, 90.00
R / Rfree (%)	19.4 / 21.8

The structure of Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex) also contains other interesting chemical elements:

Magnesium

(Mg)

4 atoms

The binding sites of Iron atom in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex) (pdb code 1dxr). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 5 binding sites of Iron where determined in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex), PDB code: 1dxr:
Jump to Iron binding site number: 1; 2; 3; 4; 5;

Iron binding site 1 out of 5 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex) within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe401 b:30.9 occ:1.00 FE C:HEC401 0.0 30.9 1.0 NE2 C:HIS91 1.9 30.7 1.0 NC C:HEC401 2.0 30.3 1.0 ND C:HEC401 2.0 31.2 1.0 NA C:HEC401 2.0 31.6 1.0 NB C:HEC401 2.1 30.9 1.0 SD C:MET74 2.2 30.9 1.0 CE1 C:HIS91 2.9 30.5 1.0 C4C C:HEC401 3.0 30.5 1.0 CD2 C:HIS91 3.0 30.9 1.0 C1D C:HEC401 3.0 31.2 1.0 C1C C:HEC401 3.0 30.3 1.0 C4A C:HEC401 3.1 32.0 1.0 C1A C:HEC401 3.1 32.2 1.0 C4D C:HEC401 3.1 31.4 1.0 C1B C:HEC401 3.1 31.0 1.0 C4B C:HEC401 3.1 30.5 1.0 CHD C:HEC401 3.4 30.8 1.0 CHB C:HEC401 3.4 31.5 1.0 CHA C:HEC401 3.4 31.8 1.0 CHC C:HEC401 3.5 30.1 1.0 CE C:MET74 3.5 29.8 1.0 CG C:MET74 3.5 28.8 1.0 ND1 C:HIS91 4.1 31.2 1.0 CG C:HIS91 4.1 31.7 1.0 C3C C:HEC401 4.2 30.2 1.0 C2C C:HEC401 4.2 30.1 1.0 CB C:MET74 4.3 28.0 1.0 C2D C:HEC401 4.3 31.5 1.0 C3D C:HEC401 4.3 31.3 1.0 C2A C:HEC401 4.3 33.0 1.0 C3A C:HEC401 4.3 32.3 1.0 C2B C:HEC401 4.3 31.1 1.0 C3B C:HEC401 4.3 30.4 1.0

Iron binding site 2 out of 5 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex) within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe402 b:23.1 occ:1.00 FE C:HEC402 0.0 23.1 1.0 NE2 C:HIS136 2.0 25.5 1.0 ND C:HEC402 2.0 26.4 1.0 NB C:HEC402 2.0 25.9 1.0 NC C:HEC402 2.0 25.6 1.0 NA C:HEC402 2.0 26.6 1.0 SD C:MET110 2.2 27.0 1.0 CE1 C:HIS136 2.9 25.4 1.0 C1D C:HEC402 3.0 26.4 1.0 C1B C:HEC402 3.1 26.0 1.0 C4C C:HEC402 3.1 24.8 1.0 CD2 C:HIS136 3.1 24.9 1.0 C4A C:HEC402 3.1 26.3 1.0 C4D C:HEC402 3.1 26.8 1.0 C4B C:HEC402 3.1 25.9 1.0 C1A C:HEC402 3.1 26.6 1.0 C1C C:HEC402 3.1 24.9 1.0 CHD C:HEC402 3.4 25.4 1.0 CHB C:HEC402 3.4 25.8 1.0 CHA C:HEC402 3.5 26.6 1.0 CHC C:HEC402 3.5 25.2 1.0 CE C:MET110 3.5 24.5 1.0 CG C:MET110 3.5 25.6 1.0 ND1 C:HIS136 4.1 24.8 1.0 CB C:MET110 4.2 26.5 1.0 CG C:HIS136 4.2 24.8 1.0 C2D C:HEC402 4.3 26.6 1.0 C3D C:HEC402 4.3 27.1 1.0 C3C C:HEC402 4.3 24.5 1.0 C2B C:HEC402 4.3 25.8 1.0 C3A C:HEC402 4.3 26.6 1.0 C2C C:HEC402 4.3 24.4 1.0 C3B C:HEC402 4.3 25.5 1.0 C2A C:HEC402 4.3 26.8 1.0

Iron binding site 3 out of 5 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex) within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe403 b:20.6 occ:1.00 FE C:HEC403 0.0 20.6 1.0 NE2 C:HIS248 1.9 19.4 1.0 NC C:HEC403 2.0 19.4 1.0 NA C:HEC403 2.0 19.1 1.0 ND C:HEC403 2.0 19.7 1.0 NB C:HEC403 2.0 19.8 1.0 SD C:MET233 2.2 19.9 1.0 CE1 C:HIS248 2.9 18.8 1.0 CD2 C:HIS248 2.9 19.6 1.0 C1C C:HEC403 3.0 19.5 1.0 C4C C:HEC403 3.0 19.6 1.0 C1A C:HEC403 3.0 19.1 1.0 C1D C:HEC403 3.0 19.6 1.0 C4A C:HEC403 3.1 19.1 1.0 C4D C:HEC403 3.1 19.7 1.0 C4B C:HEC403 3.1 19.6 1.0 C1B C:HEC403 3.1 19.6 1.0 CHC C:HEC403 3.4 19.6 1.0 CHD C:HEC403 3.4 19.2 1.0 CHA C:HEC403 3.4 19.1 1.0 CHB C:HEC403 3.5 19.3 1.0 CG C:MET233 3.5 19.1 1.0 CE C:MET233 3.5 18.5 1.0 ND1 C:HIS248 4.0 19.0 1.0 CG C:HIS248 4.1 19.5 1.0 C2C C:HEC403 4.2 19.5 1.0 C3C C:HEC403 4.3 19.6 1.0 C2A C:HEC403 4.3 19.0 1.0 C3A C:HEC403 4.3 18.3 1.0 CB C:MET233 4.3 20.3 1.0 C2D C:HEC403 4.3 19.8 1.0 C3D C:HEC403 4.3 19.9 1.0 C3B C:HEC403 4.3 19.4 1.0 C2B C:HEC403 4.3 18.9 1.0 NE C:ARG264 5.0 17.9 1.0

Iron binding site 4 out of 5 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex) within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe404 b:22.1 occ:1.00 FE C:HEC404 0.0 22.1 1.0 ND C:HEC404 2.0 22.0 1.0 NE2 C:HIS309 2.0 21.7 1.0 NC C:HEC404 2.0 22.1 1.0 NB C:HEC404 2.0 21.6 1.0 NA C:HEC404 2.0 22.4 1.0 NE2 C:HIS124 2.1 23.0 1.0 CE1 C:HIS309 3.0 21.2 1.0 CE1 C:HIS124 3.0 23.0 1.0 C1D C:HEC404 3.0 22.0 1.0 C4C C:HEC404 3.0 22.1 1.0 C1B C:HEC404 3.0 21.9 1.0 C4D C:HEC404 3.0 22.8 1.0 C4A C:HEC404 3.1 21.7 1.0 CD2 C:HIS309 3.1 21.3 1.0 C4B C:HEC404 3.1 21.6 1.0 C1C C:HEC404 3.1 21.9 1.0 C1A C:HEC404 3.1 22.6 1.0 CD2 C:HIS124 3.1 23.6 1.0 CHD C:HEC404 3.4 21.8 1.0 CHB C:HEC404 3.4 21.6 1.0 CHA C:HEC404 3.5 22.1 1.0 CHC C:HEC404 3.5 22.0 1.0 ND1 C:HIS309 4.1 21.3 1.0 ND1 C:HIS124 4.2 23.3 1.0 CG C:HIS309 4.2 21.9 1.0 C2D C:HEC404 4.2 22.5 1.0 C3D C:HEC404 4.2 23.4 1.0 CG C:HIS124 4.3 23.7 1.0 C2B C:HEC404 4.3 21.7 1.0 C3C C:HEC404 4.3 22.3 1.0 C3B C:HEC404 4.3 21.7 1.0 C2C C:HEC404 4.3 21.6 1.0 C3A C:HEC404 4.3 21.5 1.0 C2A C:HEC404 4.3 22.0 1.0 CD C:PRO315 5.0 24.2 1.0 CG C:PRO315 5.0 24.2 1.0

Iron binding site 5 out of 5 in the Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Photosynthetic Reaction Center From Rhodopseudomonas Viridis - His L168 Phe Mutant (Terbutryn Complex) within 5.0Å range: probe atom residue distance (Å) B Occ L:Fe500 b:19.1 occ:1.00 NE2 L:HIS190 2.0 16.8 1.0 OE2 M:GLU232 2.0 19.4 1.0 NE2 M:HIS217 2.1 16.7 1.0 NE2 M:HIS264 2.2 17.5 1.0 NE2 L:HIS230 2.3 22.9 1.0 OE1 M:GLU232 2.4 20.1 1.0 CD M:GLU232 2.5 20.1 1.0 CE1 L:HIS190 2.9 17.3 1.0 CE1 M:HIS217 3.0 16.0 1.0 CE1 M:HIS264 3.1 17.0 1.0 CD2 L:HIS190 3.2 17.1 1.0 CE1 L:HIS230 3.2 22.1 1.0 CD2 M:HIS217 3.2 16.1 1.0 CD2 M:HIS264 3.3 17.0 1.0 CD2 L:HIS230 3.4 22.2 1.0 CG M:GLU232 4.0 19.8 1.0 ND1 L:HIS190 4.1 17.0 1.0 ND1 M:HIS217 4.2 16.4 1.0 CG L:HIS190 4.2 17.1 1.0 ND1 M:HIS264 4.3 17.4 1.0 CG M:HIS217 4.3 16.6 1.0 ND1 L:HIS230 4.4 22.1 1.0 CG M:HIS264 4.4 17.3 1.0 CG L:HIS230 4.5 21.9 1.0 CG1 M:ILE221 4.6 19.0 1.0 CG1 L:ILE194 4.6 21.6 1.0 O M:HOH2083 4.8 18.4 1.0 CB M:GLU232 4.9 20.5 1.0

C.R.Lancaster, M.V.Bibikova, P.Sabatino, D.Oesterhelt, H.Michel. Structural Basis of the Drastically Increased Initial Electron Transfer Rate in the Reaction Center From A Rhodopseudomonas Viridis Mutant Described at 2.00-A Resolution. J. Biol. Chem. V. 275 39364 2000.
ISSN: ISSN 0021-9258
PubMed: 11005826
DOI: 10.1074/JBC.M008225200