Magnesium in PDB 7rr9: Cryo-Em Structure of Nanodisc Reconstituted ABCD1 in Nucleotide Bound Outward Open Conformation

All present enzymatic activity of Cryo-Em Structure of Nanodisc Reconstituted ABCD1 in Nucleotide Bound Outward Open Conformation:
7.6.2.4;

The binding sites of Magnesium atom in the Cryo-Em Structure of Nanodisc Reconstituted ABCD1 in Nucleotide Bound Outward Open Conformation (pdb code 7rr9). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Cryo-Em Structure of Nanodisc Reconstituted ABCD1 in Nucleotide Bound Outward Open Conformation, PDB code: 7rr9:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Cryo-Em Structure of Nanodisc Reconstituted ABCD1 in Nucleotide Bound Outward Open Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of Nanodisc Reconstituted ABCD1 in Nucleotide Bound Outward Open Conformation within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg803 b:63.5 occ:1.00 O2B A:AGS804 2.1 80.6 1.0 OE1 A:GLN544 2.1 60.3 1.0 S1G A:AGS804 2.5 80.6 1.0 CD A:GLN544 3.0 60.3 1.0 PB A:AGS804 3.3 80.6 1.0 NE2 A:GLN544 3.3 60.3 1.0 O3B A:AGS804 3.4 80.6 1.0 OG A:SER514 3.5 72.6 1.0 PG A:AGS804 3.6 80.6 1.0 CA B:GLY607 3.7 75.3 1.0 N B:GLY607 4.1 75.3 1.0 OG B:SER606 4.2 74.2 1.0 O3A A:AGS804 4.3 80.6 1.0 CG A:GLN544 4.4 60.3 1.0 O1B A:AGS804 4.4 80.6 1.0 O2G A:AGS804 4.6 80.6 1.0 CB A:SER514 4.7 72.6 1.0 O3G A:AGS804 4.7 80.6 1.0 CB A:GLN544 4.7 60.3 1.0 C B:SER606 4.9 74.2 1.0 O2A A:AGS804 4.9 80.6 1.0 OD1 A:ASP629 4.9 69.2 1.0 OD2 A:ASP629 5.0 69.2 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of Nanodisc Reconstituted ABCD1 in Nucleotide Bound Outward Open Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of Nanodisc Reconstituted ABCD1 in Nucleotide Bound Outward Open Conformation within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg801 b:64.4 occ:1.00 O2B B:AGS802 2.1 81.2 1.0 OE1 B:GLN544 2.3 60.3 1.0 S1G B:AGS802 2.5 81.2 1.0 OG B:SER514 3.1 72.6 1.0 CD B:GLN544 3.2 60.3 1.0 PB B:AGS802 3.3 81.2 1.0 O3B B:AGS802 3.4 81.2 1.0 NE2 B:GLN544 3.5 60.3 1.0 PG B:AGS802 3.6 81.2 1.0 CA A:GLY607 4.0 75.3 1.0 OG A:SER606 4.2 74.2 1.0 O3A B:AGS802 4.3 81.2 1.0 CB B:SER514 4.3 72.6 1.0 N A:GLY607 4.3 75.3 1.0 O1B B:AGS802 4.4 81.2 1.0 CG B:GLN544 4.5 60.3 1.0 O2G B:AGS802 4.6 81.2 1.0 OD1 B:ASP629 4.7 69.2 1.0 OD2 B:ASP629 4.7 69.2 1.0 O3G B:AGS802 4.7 81.2 1.0 CB B:GLN544 4.8 60.3 1.0 O2A B:AGS802 4.9 81.2 1.0

L.T.M.Le, J.R.Thompson, P.X.Dang, J.Bhandari, A.Alam. Structures of the Human Peroxisomal Fatty Acid Transporter ABCD1 in A Lipid Environment Commun Biol V. 5 7 2022.
ISSN: ESSN 2399-3642
DOI: 10.1038/S42003-021-02970-W