Magnesium in PDB 9cc3: Human Mitochondrial LONP1 Stall State + Casein

All present enzymatic activity of Human Mitochondrial LONP1 Stall State + Casein:
3.4.21.53;

The binding sites of Magnesium atom in the Human Mitochondrial LONP1 Stall State + Casein (pdb code 9cc3). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the Human Mitochondrial LONP1 Stall State + Casein, PDB code: 9cc3:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the Human Mitochondrial LONP1 Stall State + Casein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human Mitochondrial LONP1 Stall State + Casein within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1002 b:79.2 occ:1.00 O2B B:ADP1001 2.1 80.5 1.0 OG1 B:THR530 2.1 70.0 1.0 O1B B:ADP1001 2.2 80.5 1.0 PB B:ADP1001 2.5 80.5 1.0 O2A B:ADP1001 2.7 80.5 1.0 CB B:THR530 2.9 70.0 1.0 PA B:ADP1001 3.2 80.5 1.0 O3A B:ADP1001 3.3 80.5 1.0 O1A B:ADP1001 3.4 80.5 1.0 N B:THR530 3.7 70.0 1.0 CA B:THR530 3.9 70.0 1.0 O3B B:ADP1001 4.0 80.5 1.0 CG2 B:THR530 4.0 70.0 1.0 NH2 C:ARG652 4.4 76.3 1.0 NH2 B:ARG710 4.5 77.3 1.0 O5' B:ADP1001 4.8 80.5 1.0 OD2 C:ASP612 4.8 75.9 1.0 C B:LYS529 4.8 72.2 1.0 C B:THR530 4.9 70.0 1.0 N B:LYS529 4.9 72.2 1.0

Magnesium binding site 2 out of 4 in the Human Mitochondrial LONP1 Stall State + Casein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human Mitochondrial LONP1 Stall State + Casein within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg1002 b:72.6 occ:1.00 O2B C:ADP1001 2.2 75.9 1.0 OG1 C:THR530 2.3 70.5 1.0 O1B C:ADP1001 2.4 75.9 1.0 PB C:ADP1001 2.7 75.9 1.0 CB C:THR530 3.5 70.5 1.0 O2A C:ADP1001 3.6 75.9 1.0 O3B C:ADP1001 3.8 75.9 1.0 O3A C:ADP1001 3.9 75.9 1.0 NH2 D:ARG652 4.0 78.6 1.0 N C:THR530 4.1 70.5 1.0 PA C:ADP1001 4.1 75.9 1.0 O1A C:ADP1001 4.4 75.9 1.0 CA C:THR530 4.4 70.5 1.0 OE2 C:GLU591 4.5 73.8 1.0 CG2 C:THR530 4.5 70.5 1.0 NH2 C:ARG710 4.6 75.2 1.0 CG2 C:THR638 4.8 69.0 1.0 OD1 C:ASP590 4.8 68.8 1.0 OD2 C:ASP590 4.9 68.8 1.0 NZ C:LYS529 4.9 69.7 1.0 CE C:LYS529 4.9 69.7 1.0

Magnesium binding site 3 out of 4 in the Human Mitochondrial LONP1 Stall State + Casein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Human Mitochondrial LONP1 Stall State + Casein within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1002 b:75.2 occ:1.00 OE2 D:GLU591 2.4 80.3 1.0 OD2 D:ASP590 2.5 75.0 1.0 CG D:ASP590 3.5 75.0 1.0 NH2 D:ARG546 3.6 68.5 1.0 CD D:GLU591 3.6 80.3 1.0 CG D:GLU591 4.1 80.3 1.0 CB D:ASP590 4.1 75.0 1.0 OD1 D:ASP590 4.4 75.0 1.0 NE2 E:GLN615 4.5 77.7 1.0 OE1 D:GLU591 4.6 80.3 1.0 CZ D:ARG546 4.7 68.5 1.0 NH1 D:ARG546 4.9 68.5 1.0 OD2 E:ASP612 4.9 79.6 1.0

Magnesium binding site 4 out of 4 in the Human Mitochondrial LONP1 Stall State + Casein


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Human Mitochondrial LONP1 Stall State + Casein within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg1002 b:69.8 occ:1.00 O3B E:ADP1001 2.1 60.5 1.0 O2A E:ADP1001 2.1 60.5 1.0 O3A E:ADP1001 2.3 60.5 1.0 PB E:ADP1001 2.4 60.5 1.0 PA E:ADP1001 2.6 60.5 1.0 O2B E:ADP1001 2.7 60.5 1.0 O1A E:ADP1001 3.6 60.5 1.0 NH1 E:ARG710 3.6 64.2 1.0 O1B E:ADP1001 3.9 60.5 1.0 O5' E:ADP1001 3.9 60.5 1.0 OG1 E:THR530 4.0 58.3 1.0 NH2 E:ARG710 4.0 64.2 1.0 CZ E:ARG710 4.2 64.2 1.0 N E:GLY526 4.4 59.1 1.0 CA E:GLY526 4.5 59.1 1.0 CB E:THR530 4.6 58.3 1.0 C5' E:ADP1001 4.6 60.5 1.0

J.T.Mindrebo, G.C.Lander. Structural and Mechanistic Studies on Human LONP1 Redefine the Hand-Over-Hand Translocation Mechanism. Biorxiv 2024.
ISSN: ISSN 2692-8205
PubMed: 38979310
DOI: 10.1101/2024.06.24.600538