Iron in PDB 7vzr: Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form)

The structure of Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form) also contains other interesting chemical elements:

Calcium	(Ca)	2 atoms
Magnesium	(Mg)	26 atoms
Zinc	(Zn)	2 atoms

The binding sites of Iron atom in the Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form) (pdb code 7vzr). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 6 binding sites of Iron where determined in the Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form), PDB code: 7vzr:
Jump to Iron binding site number: 1; 2; 3; 4; 5; 6;

Iron binding site 1 out of 6 in the Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form) within 5.0Å range: probe atom residue distance (Å) B Occ C:Fe301 b:35.6 occ:1.00 FE C:HEC301 0.0 35.6 1.0 NC C:HEC301 2.1 31.1 1.0 NB C:HEC301 2.2 34.9 1.0 NA C:HEC301 2.2 32.6 1.0 NE2 C:HIS129 2.2 4.0 1.0 ND C:HEC301 2.2 35.5 1.0 SD C:MET174 2.9 30.0 1.0 C4C C:HEC301 3.0 35.2 1.0 C1C C:HEC301 3.0 34.4 1.0 C4B C:HEC301 3.0 35.7 1.0 CE1 C:HIS129 3.1 4.0 1.0 C1B C:HEC301 3.1 36.9 1.0 C4A C:HEC301 3.1 36.6 1.0 CD2 C:HIS129 3.1 4.0 1.0 C1D C:HEC301 3.1 28.4 1.0 C4D C:HEC301 3.2 34.0 1.0 C1A C:HEC301 3.2 39.9 1.0 CHD C:HEC301 3.3 30.9 1.0 CHC C:HEC301 3.3 38.1 1.0 CHB C:HEC301 3.4 33.5 1.0 CHA C:HEC301 3.5 40.1 1.0 CG C:MET174 3.6 30.0 1.0 CE C:MET174 3.9 30.0 1.0 C3C C:HEC301 4.1 36.1 1.0 ND1 C:HIS129 4.2 4.0 1.0 CB C:MET174 4.2 30.0 1.0 C2C C:HEC301 4.2 34.3 1.0 C3B C:HEC301 4.2 30.6 1.0 CG C:HIS129 4.2 4.0 1.0 C2B C:HEC301 4.3 37.2 1.0 C2D C:HEC301 4.5 41.8 1.0 C2A C:HEC301 4.5 43.7 1.0 C3D C:HEC301 4.5 39.0 1.0 C3A C:HEC301 4.5 33.5 1.0 CA C:MET174 4.7 30.0 1.0 CZ C:PHE143 4.9 4.0 1.0

Iron binding site 2 out of 6 in the Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form) within 5.0Å range: probe atom residue distance (Å) B Occ a:Fe917 b:38.6 occ:1.00 FE1 a:SF4917 0.0 38.6 1.0 S4 a:SF4917 2.2 38.6 1.0 S2 a:SF4917 2.3 38.6 1.0 S3 a:SF4917 2.3 38.6 1.0 SG A:CYS705 2.3 4.0 1.0 FE4 a:SF4917 2.7 38.6 1.0 FE2 a:SF4917 2.7 38.6 1.0 FE3 a:SF4917 2.7 38.6 1.0 CD2 a:LEU834 3.8 4.0 1.0 S1 a:SF4917 3.9 38.6 1.0 CB A:CYS705 3.9 4.0 1.0 CD1 a:LEU834 3.9 4.0 1.0 SG a:CYS705 4.3 4.0 1.0 CG A:LYS796 4.3 4.0 1.0 SG a:CYS696 4.4 4.0 1.0 SG A:CYS696 4.5 4.0 1.0 CG a:LEU834 4.5 4.0 1.0 N A:CYS705 4.7 4.0 1.0 CA A:CYS705 4.7 4.0 1.0 CD A:LYS796 4.7 4.0 1.0 CB A:CYS696 4.9 4.0 1.0 CE A:LYS796 4.9 4.0 1.0

Iron binding site 3 out of 6 in the Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form) within 5.0Å range: probe atom residue distance (Å) B Occ a:Fe917 b:38.6 occ:1.00 FE2 a:SF4917 0.0 38.6 1.0 SG a:CYS705 2.2 4.0 1.0 S1 a:SF4917 2.3 38.6 1.0 S3 a:SF4917 2.3 38.6 1.0 S4 a:SF4917 2.3 38.6 1.0 FE4 a:SF4917 2.7 38.6 1.0 FE1 a:SF4917 2.7 38.6 1.0 FE3 a:SF4917 2.7 38.6 1.0 CD1 A:LEU834 3.7 4.0 1.0 CD2 A:LEU834 3.7 4.0 1.0 CB a:CYS705 3.8 4.0 1.0 S2 a:SF4917 3.9 38.6 1.0 SG A:CYS696 3.9 4.0 1.0 SG A:CYS705 4.4 4.0 1.0 CG A:LEU834 4.4 4.0 1.0 CG a:LYS796 4.6 4.0 1.0 CD a:LYS796 4.7 4.0 1.0 N a:CYS705 4.8 4.0 1.0 CA a:CYS705 4.9 4.0 1.0 SG a:CYS696 4.9 4.0 1.0 CG A:LYS796 5.0 4.0 1.0

Iron binding site 4 out of 6 in the Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form) within 5.0Å range: probe atom residue distance (Å) B Occ a:Fe917 b:38.6 occ:1.00 FE3 a:SF4917 0.0 38.6 1.0 S2 a:SF4917 2.2 38.6 1.0 S1 a:SF4917 2.3 38.6 1.0 S4 a:SF4917 2.3 38.6 1.0 SG a:CYS696 2.3 4.0 1.0 FE4 a:SF4917 2.7 38.6 1.0 FE1 a:SF4917 2.7 38.6 1.0 FE2 a:SF4917 2.7 38.6 1.0 CB a:CYS696 3.1 4.0 1.0 SG a:CYS705 3.7 4.0 1.0 O a:GLY698 3.8 4.0 1.0 S3 a:SF4917 3.9 38.6 1.0 SG A:CYS696 4.3 4.0 1.0 C a:GLY698 4.3 4.0 1.0 N a:GLY698 4.3 4.0 1.0 CB a:CYS705 4.4 4.0 1.0 CD1 a:LEU834 4.4 4.0 1.0 CA a:GLY698 4.6 4.0 1.0 CA a:CYS696 4.6 4.0 1.0 CA A:GLY698 4.8 4.0 1.0 C A:GLY698 4.9 4.0 1.0 N A:PRO699 4.9 4.0 1.0 SG A:CYS705 4.9 4.0 1.0 CA a:CYS705 5.0 4.0 1.0

Iron binding site 5 out of 6 in the Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 5 of Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form) within 5.0Å range: probe atom residue distance (Å) B Occ a:Fe917 b:38.6 occ:1.00 FE4 a:SF4917 0.0 38.6 1.0 SG A:CYS696 1.9 4.0 1.0 S1 a:SF4917 2.3 38.6 1.0 S2 a:SF4917 2.3 38.6 1.0 S3 a:SF4917 2.3 38.6 1.0 FE3 a:SF4917 2.7 38.6 1.0 FE2 a:SF4917 2.7 38.6 1.0 FE1 a:SF4917 2.7 38.6 1.0 CB A:CYS696 2.9 4.0 1.0 S4 a:SF4917 3.8 38.6 1.0 SG A:CYS705 3.9 4.0 1.0 O a:GLY698 4.1 4.0 1.0 N A:GLY698 4.2 4.0 1.0 CA A:GLY698 4.2 4.0 1.0 CA A:CYS696 4.4 4.0 1.0 CD1 A:LEU834 4.5 4.0 1.0 C a:GLY698 4.5 4.0 1.0 CB A:CYS705 4.6 4.0 1.0 C A:GLY698 4.6 4.0 1.0 SG a:CYS696 4.7 4.0 1.0 SG a:CYS705 4.7 4.0 1.0 CA A:CYS705 4.7 4.0 1.0 N a:PRO699 4.8 4.0 1.0 N A:CYS705 4.8 4.0 1.0 O A:GLY698 4.8 4.0 1.0 O A:PRO695 4.9 4.0 1.0 N A:ILE697 4.9 4.0 1.0 C A:CYS696 4.9 4.0 1.0

Iron binding site 6 out of 6 in the Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 6 of Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C (the Smaller Form) within 5.0Å range: probe atom residue distance (Å) B Occ c:Fe202 b:35.6 occ:1.00 FE c:HEC202 0.0 35.6 1.0 NC c:HEC202 2.1 31.1 1.0 NA c:HEC202 2.1 32.6 1.0 NB c:HEC202 2.2 34.9 1.0 ND c:HEC202 2.2 35.5 1.0 NE2 c:HIS93 2.3 4.0 1.0 SD c:MET134 2.4 4.0 1.0 C4A c:HEC202 3.0 36.6 1.0 C1A c:HEC202 3.0 39.9 1.0 C4C c:HEC202 3.0 35.2 1.0 C4D c:HEC202 3.0 34.0 1.0 CE1 c:HIS93 3.0 4.0 1.0 C1B c:HEC202 3.0 36.9 1.0 C4B c:HEC202 3.1 35.7 1.0 C1D c:HEC202 3.1 28.4 1.0 C1C c:HEC202 3.2 34.4 1.0 CHA c:HEC202 3.2 40.1 1.0 CHB c:HEC202 3.3 33.5 1.0 CE c:MET134 3.3 4.0 1.0 CHD c:HEC202 3.3 30.9 1.0 CD2 c:HIS93 3.4 4.0 1.0 CG c:MET134 3.5 4.0 1.0 CHC c:HEC202 3.5 38.1 1.0 CB c:MET134 4.0 4.0 1.0 ND1 c:HIS93 4.2 4.0 1.0 C3C c:HEC202 4.2 36.1 1.0 C3A c:HEC202 4.2 33.5 1.0 C3D c:HEC202 4.3 39.0 1.0 C2A c:HEC202 4.3 43.7 1.0 C3B c:HEC202 4.3 30.6 1.0 C2B c:HEC202 4.3 37.2 1.0 C2D c:HEC202 4.4 41.8 1.0 CA c:MET134 4.4 4.0 1.0 CG c:HIS93 4.4 4.0 1.0 C2C c:HEC202 4.4 34.3 1.0 CD c:PRO135 5.0 4.0 1.0

S.Dong, G.Huang, C.Wang, J.Wang, S.F.Sui, X.Qin. Structure of the Acidobacteria Homodimeric Reaction Center Bound with Cytochrome C Nat Commun V. 13 7745 2022.
ISSN: ESSN 2041-1723
DOI: 10.1038/S41467-022-35460-6