Iron in PDB 7c9r: Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970

The structure of Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970 also contains other interesting chemical elements:

Magnesium	(Mg)	37 atoms
Calcium	(Ca)	17 atoms

The binding sites of Iron atom in the Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970 (pdb code 7c9r). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 5 binding sites of Iron where determined in the Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970, PDB code: 7c9r:
Jump to Iron binding site number: 1; 2; 3; 4; 5;

Iron binding site 1 out of 5 in the Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970 within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe401 b:43.8 occ:1.00 FE C:HEM401 0.0 43.8 1.0 ND C:HEM401 1.9 46.6 1.0 NA C:HEM401 2.0 55.6 1.0 NC C:HEM401 2.1 41.6 1.0 NB C:HEM401 2.1 55.4 1.0 NE2 C:HIS111 2.5 37.2 1.0 SD C:MET94 2.8 41.1 1.0 C1D C:HEM401 2.9 44.5 1.0 C4D C:HEM401 2.9 49.6 1.0 C4C C:HEM401 3.0 41.0 1.0 C1A C:HEM401 3.0 53.3 1.0 C4A C:HEM401 3.1 50.2 1.0 C1B C:HEM401 3.1 58.0 1.0 C4B C:HEM401 3.1 56.7 1.0 C1C C:HEM401 3.1 48.6 1.0 CE1 C:HIS111 3.3 42.2 1.0 CHD C:HEM401 3.3 40.0 1.0 CHA C:HEM401 3.4 48.9 1.0 CHB C:HEM401 3.5 53.6 1.0 CHC C:HEM401 3.5 49.3 1.0 CD2 C:HIS111 3.7 45.0 1.0 CG C:MET94 3.8 42.7 1.0 CE C:MET94 3.9 38.5 1.0 C3D C:HEM401 4.1 41.4 1.0 C2D C:HEM401 4.1 42.4 1.0 C2A C:HEM401 4.2 51.1 1.0 C3A C:HEM401 4.2 50.4 1.0 C3C C:HEM401 4.2 46.2 1.0 C2B C:HEM401 4.3 57.2 1.0 C2C C:HEM401 4.3 50.5 1.0 C3B C:HEM401 4.3 54.0 1.0 ND1 C:HIS111 4.5 54.9 1.0 CB C:MET94 4.6 39.2 1.0 CG C:HIS111 4.7 48.6 1.0

Iron binding site 2 out of 5 in the Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970 within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe402 b:25.4 occ:1.00 FE C:HEM402 0.0 25.4 1.0 ND C:HEM402 1.9 36.1 1.0 NA C:HEM402 2.0 39.4 1.0 NC C:HEM402 2.1 28.1 1.0 NB C:HEM402 2.1 27.1 1.0 NE2 C:HIS156 2.4 14.5 1.0 C4D C:HEM402 2.9 35.9 1.0 SD C:MET130 2.9 45.9 1.0 C1D C:HEM402 3.0 30.7 1.0 C1A C:HEM402 3.0 40.0 1.0 C1B C:HEM402 3.0 28.6 1.0 C4B C:HEM402 3.1 28.8 1.0 C4A C:HEM402 3.1 38.6 1.0 C4C C:HEM402 3.1 26.4 1.0 C1C C:HEM402 3.1 26.2 1.0 CHA C:HEM402 3.3 36.1 1.0 CE1 C:HIS156 3.4 25.2 1.0 CD2 C:HIS156 3.4 22.5 1.0 CHD C:HEM402 3.4 25.6 1.0 CHB C:HEM402 3.5 30.7 1.0 CHC C:HEM402 3.5 26.7 1.0 CG C:MET130 3.5 37.5 1.0 CE C:MET130 3.9 46.4 1.0 C3D C:HEM402 4.1 38.2 1.0 C2A C:HEM402 4.2 39.8 1.0 C2D C:HEM402 4.2 30.3 1.0 C3A C:HEM402 4.2 33.9 1.0 C2C C:HEM402 4.2 24.0 1.0 CB C:MET130 4.2 27.9 1.0 C2B C:HEM402 4.2 36.1 1.0 C3C C:HEM402 4.3 23.1 1.0 C3B C:HEM402 4.3 36.5 1.0 ND1 C:HIS156 4.5 28.9 1.0 CG C:HIS156 4.5 29.5 1.0

Iron binding site 3 out of 5 in the Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970 within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe403 b:9.4 occ:1.00 FE C:HEM403 0.0 9.4 1.0 ND C:HEM403 1.9 13.6 1.0 NA C:HEM403 2.0 12.8 1.0 NC C:HEM403 2.0 10.0 1.0 NB C:HEM403 2.1 13.4 1.0 NE2 C:HIS251 2.4 6.8 1.0 SD C:MET236 2.7 9.2 1.0 C1D C:HEM403 2.9 12.5 1.0 C4D C:HEM403 2.9 14.8 1.0 C4C C:HEM403 3.0 11.7 1.0 C1A C:HEM403 3.0 14.0 1.0 C1B C:HEM403 3.0 14.4 1.0 C4A C:HEM403 3.0 13.0 1.0 C4B C:HEM403 3.1 12.0 1.0 CD2 C:HIS251 3.1 8.5 1.0 C1C C:HEM403 3.1 10.9 1.0 CHA C:HEM403 3.4 14.2 1.0 CHD C:HEM403 3.4 11.7 1.0 CG C:MET236 3.5 9.5 1.0 CE1 C:HIS251 3.5 13.3 1.0 CHB C:HEM403 3.5 12.3 1.0 CHC C:HEM403 3.5 10.1 1.0 CE C:MET236 3.8 9.7 1.0 C2D C:HEM403 4.2 12.5 1.0 C3D C:HEM403 4.2 13.2 1.0 C2A C:HEM403 4.2 14.6 1.0 C3A C:HEM403 4.2 14.5 1.0 C3C C:HEM403 4.2 12.8 1.0 C3B C:HEM403 4.2 13.7 1.0 C2B C:HEM403 4.3 14.5 1.0 C2C C:HEM403 4.3 11.2 1.0 CB C:MET236 4.3 9.4 1.0 CG C:HIS251 4.4 13.6 1.0 ND1 C:HIS251 4.5 22.2 1.0

Iron binding site 4 out of 5 in the Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970 within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe404 b:17.5 occ:1.00 FE C:HEM404 0.0 17.5 1.0 ND C:HEM404 1.9 25.2 1.0 NC C:HEM404 2.0 20.0 1.0 NA C:HEM404 2.0 21.2 1.0 NB C:HEM404 2.1 22.1 1.0 NE2 C:HIS144 2.4 7.8 1.0 NE2 C:HIS311 2.4 15.0 1.0 C4D C:HEM404 2.9 22.9 1.0 C1D C:HEM404 3.0 19.9 1.0 C1A C:HEM404 3.0 19.7 1.0 C4C C:HEM404 3.0 21.5 1.0 C4B C:HEM404 3.0 21.9 1.0 C1C C:HEM404 3.1 21.1 1.0 C1B C:HEM404 3.1 19.5 1.0 C4A C:HEM404 3.1 22.1 1.0 CD2 C:HIS144 3.3 10.5 1.0 CHA C:HEM404 3.3 18.9 1.0 CE1 C:HIS311 3.4 21.1 1.0 CE1 C:HIS144 3.4 12.1 1.0 CHD C:HEM404 3.4 18.0 1.0 CHC C:HEM404 3.5 18.0 1.0 CD2 C:HIS311 3.5 21.4 1.0 CHB C:HEM404 3.5 19.1 1.0 C2D C:HEM404 4.2 17.6 1.0 C3D C:HEM404 4.2 22.5 1.0 C2C C:HEM404 4.2 19.6 1.0 C3C C:HEM404 4.2 19.5 1.0 C2A C:HEM404 4.2 21.7 1.0 C3B C:HEM404 4.3 19.0 1.0 C3A C:HEM404 4.3 20.9 1.0 C2B C:HEM404 4.3 16.9 1.0 ND1 C:HIS144 4.5 16.9 1.0 CG C:HIS144 4.5 15.2 1.0 ND1 C:HIS311 4.5 26.3 1.0 CG C:HIS311 4.6 24.6 1.0 CB C:ALA272 4.8 10.1 1.0

Iron binding site 5 out of 5 in the Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Structure of Photosynthetic LH1-Rc Super-Complex of Thiorhodovibrio Strain 970 within 5.0Å range: probe atom residue distance (Å) B Occ M:Fe401 b:18.5 occ:1.00 OE2 M:GLU234 2.1 14.7 1.0 NE2 L:HIS191 2.2 14.2 1.0 NE2 M:HIS219 2.4 13.5 1.0 NE2 L:HIS231 2.5 10.6 1.0 NE2 M:HIS266 2.6 15.8 1.0 CD M:GLU234 2.8 23.1 1.0 OE1 M:GLU234 2.8 29.4 1.0 CE1 L:HIS191 3.0 13.6 1.0 CD2 L:HIS191 3.4 15.0 1.0 CE1 M:HIS219 3.4 14.3 1.0 CD2 M:HIS219 3.4 14.0 1.0 CE1 L:HIS231 3.4 10.9 1.0 CD2 L:HIS231 3.5 14.3 1.0 CE1 M:HIS266 3.5 16.8 1.0 CD2 M:HIS266 3.6 17.9 1.0 ND1 L:HIS191 4.2 14.5 1.0 CG M:GLU234 4.3 24.6 1.0 CG L:HIS191 4.4 17.4 1.0 ND1 M:HIS219 4.5 12.8 1.0 CG M:HIS219 4.5 13.7 1.0 ND1 L:HIS231 4.6 13.2 1.0 CG L:HIS231 4.6 15.4 1.0 ND1 M:HIS266 4.7 22.6 1.0 CG M:HIS266 4.7 19.1 1.0 CG1 L:ILE195 4.8 18.5 1.0 CG1 M:ILE223 4.9 18.6 1.0

K.Tani, R.Kanno, Y.Makino, M.Hall, M.Takenouchi, M.Imanishi, L.J.Yu, J.Overmann, M.T.Madigan, Y.Kimura, A.Mizoguchi, B.M.Humbel, Z.Y.Wang-Otomo. Cryo-Em Structure of A Ca 2+ -Bound Photosynthetic LH1-Rc Complex Containing Multiple Alpha Beta-Polypeptides. Nat Commun V. 11 4955 2020.
ISSN: ESSN 2041-1723
PubMed: 33009385
DOI: 10.1038/S41467-020-18748-3