Zinc in PDB 7a24: Assembly Intermediate of the Plant Mitochondrial Complex I

The structure of Assembly Intermediate of the Plant Mitochondrial Complex I also contains other interesting chemical elements:

Iron

(Fe)

28 atoms

The binding sites of Zinc atom in the Assembly Intermediate of the Plant Mitochondrial Complex I (pdb code 7a24). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Assembly Intermediate of the Plant Mitochondrial Complex I, PDB code: 7a24:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Assembly Intermediate of the Plant Mitochondrial Complex I


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Assembly Intermediate of the Plant Mitochondrial Complex I within 5.0Å range: probe atom residue distance (Å) B Occ P:Zn201 b:35.2 occ:1.00 NE2 P:HIS82 1.9 23.2 1.0 SG P:CYS72 2.3 28.5 1.0 SG P:CYS97 2.3 25.5 1.0 CB P:CYS100 2.7 26.6 1.0 CE1 P:HIS82 2.9 23.2 1.0 CD2 P:HIS82 2.9 23.2 1.0 CB P:CYS97 3.4 25.5 1.0 O P:CYS72 3.5 28.5 1.0 N P:CYS100 3.5 26.6 1.0 CB P:CYS72 3.6 28.5 1.0 CA P:CYS100 3.7 26.6 1.0 ND1 P:HIS82 3.9 23.2 1.0 CG P:HIS82 4.0 23.2 1.0 SG P:CYS100 4.1 26.6 1.0 C P:CYS72 4.3 28.5 1.0 CA P:CYS72 4.5 28.5 1.0 CB P:TYR99 4.5 19.6 1.0 C P:TYR99 4.6 19.6 1.0 C P:CYS100 4.6 26.6 1.0 CA P:CYS97 4.8 25.5 1.0 N P:GLY74 4.8 33.0 1.0

Zinc binding site 2 out of 2 in the Assembly Intermediate of the Plant Mitochondrial Complex I


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Assembly Intermediate of the Plant Mitochondrial Complex I within 5.0Å range: probe atom residue distance (Å) B Occ q:Zn801 b:16.3 occ:1.00 NE2 q:HIS107 2.1 82.2 1.0 O2 q:BCT802 2.2 35.4 1.0 O1 q:BCT802 2.2 44.5 1.0 CD2 q:HIS107 2.4 82.2 1.0 C q:BCT802 2.5 28.5 1.0 NE2 p:HIS130 2.5 78.3 1.0 CE1 q:HIS107 3.3 82.2 1.0 CE1 p:HIS130 3.4 78.3 1.0 CD2 p:HIS130 3.5 78.3 1.0 CG q:HIS107 3.6 82.2 1.0 O3 q:BCT802 3.9 43.3 1.0 ND1 q:HIS107 4.0 82.2 1.0 NH2 q:ARG86 4.1 80.4 1.0 CD2 q:HIS135 4.1 82.8 1.0 O p:GLN101 4.2 83.8 1.0 NE2 q:HIS135 4.2 82.8 1.0 CB p:GLN101 4.2 83.8 1.0 O q:VAL108 4.4 89.3 1.0 CZ q:ARG86 4.5 80.4 1.0 OD2 p:ASP102 4.5 77.2 1.0 ND1 p:HIS130 4.5 78.3 1.0 NH1 q:ARG86 4.6 80.4 1.0 NE2 p:GLN101 4.6 83.8 1.0 CG p:HIS130 4.6 78.3 1.0 CG p:GLN101 4.7 83.8 1.0 CB q:HIS107 4.8 82.2 1.0 C p:GLN101 5.0 83.8 1.0

H.Soufari, C.Parrot, L.Kuhn, F.Waltz, Y.Hashem. Specific Features and Assembly of the Plant Mitochondrial Complex I Revealed By Cryo-Em. Nat Commun V. 11 5195 2020.
ISSN: ESSN 2041-1723
PubMed: 33060577
DOI: 10.1038/S41467-020-18814-W