Copper in PDB 9buo: Cryoem Structure of Dpor in the Presence of Adp-ALF3

All present enzymatic activity of Cryoem Structure of Dpor in the Presence of Adp-ALF3:
1.3.7.7;

The structure of Cryoem Structure of Dpor in the Presence of Adp-ALF3 also contains other interesting chemical elements:

Magnesium	(Mg)	2 atoms
Iron	(Fe)	16 atoms

The binding sites of Copper atom in the Cryoem Structure of Dpor in the Presence of Adp-ALF3 (pdb code 9buo). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 2 binding sites of Copper where determined in the Cryoem Structure of Dpor in the Presence of Adp-ALF3, PDB code: 9buo:
Jump to Copper binding site number: 1; 2;

Copper binding site 1 out of 2 in the Cryoem Structure of Dpor in the Presence of Adp-ALF3


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of Cryoem Structure of Dpor in the Presence of Adp-ALF3 within 5.0Å range: probe atom residue distance (Å) B Occ B:Cu601 b:119.5 occ:1.00 CU D:CU601 1.2 142.6 1.0 CE B:MET408 2.4 74.5 1.0 NE2 B:HIS404 2.8 42.9 1.0 SD D:MET408 3.0 72.9 1.0 NE2 D:HIS404 3.2 56.5 1.0 CE1 B:HIS404 3.5 42.9 1.0 CE D:MET408 3.7 72.9 1.0 SD B:MET408 3.9 74.5 1.0 CD2 B:HIS404 3.9 42.9 1.0 CE1 D:HIS404 4.0 56.5 1.0 CD2 D:HIS404 4.3 56.5 1.0 CG D:MET408 4.6 72.9 1.0 ND1 B:HIS404 4.7 42.9 1.0 CG B:HIS404 5.0 42.9 1.0

Copper binding site 2 out of 2 in the Cryoem Structure of Dpor in the Presence of Adp-ALF3


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of Cryoem Structure of Dpor in the Presence of Adp-ALF3 within 5.0Å range: probe atom residue distance (Å) B Occ D:Cu601 b:142.6 occ:1.00 CU B:CU601 1.2 119.5 1.0 SD D:MET408 2.4 72.9 1.0 CE B:MET408 2.5 74.5 1.0 CE D:MET408 2.7 72.9 1.0 SD B:MET408 3.6 74.5 1.0 NE2 D:HIS404 3.8 56.5 1.0 NE2 B:HIS404 3.9 42.9 1.0 CG D:MET408 4.0 72.9 1.0 CE1 D:HIS404 4.4 56.5 1.0 CE1 B:HIS404 4.5 42.9 1.0 CD2 D:HIS404 4.8 56.5 1.0

R.Kashyap, N.Walsh, J.Deveryshetty, M.Tokmina-Lukaszewska, K.Zhao, Y.J.Gan, B.M.Hoffman, R.Sarangi, B.Bothner, B.Bennett, E.Antony. Cryo-Em Captures the Coordination of Asymmetric Electron Transfer Through A Di-Copper Site in Dpor. Nat Commun V. 16 3866 2025.
ISSN: ESSN 2041-1723
PubMed: 40274796
DOI: 10.1038/S41467-025-59158-7