Magnesium in PDB 6pdw: MSP1-Substrate Complex in Closed Conformation

The structure of MSP1-Substrate Complex in Closed Conformation also contains other interesting chemical elements:

Fluorine

(F)

9 atoms

The binding sites of Magnesium atom in the MSP1-Substrate Complex in Closed Conformation (pdb code 6pdw). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 4 binding sites of Magnesium where determined in the MSP1-Substrate Complex in Closed Conformation, PDB code: 6pdw:
Jump to Magnesium binding site number: 1; 2; 3; 4;

Magnesium binding site 1 out of 4 in the MSP1-Substrate Complex in Closed Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of MSP1-Substrate Complex in Closed Conformation within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg503 b:54.3 occ:1.00 OG1 B:THR161 2.0 50.9 1.0 F1 B:BEF502 2.1 54.2 1.0 O2B B:ADP501 2.7 52.9 1.0 CB B:THR161 2.8 50.9 1.0 CG2 B:THR161 3.3 50.9 1.0 O C:ASP242 3.4 51.8 1.0 OD2 B:ASP213 3.4 57.0 1.0 BE B:BEF502 3.5 54.2 1.0 O2A B:ADP501 3.7 52.9 1.0 OD1 B:ASP213 3.8 57.0 1.0 NH1 C:ARG275 4.0 49.8 1.0 CG B:ASP213 4.0 57.0 1.0 PB B:ADP501 4.2 52.9 1.0 CA B:THR161 4.2 50.9 1.0 F3 B:BEF502 4.2 54.2 1.0 C C:ASP242 4.4 51.8 1.0 NH1 C:ARG274 4.4 52.1 1.0 OE2 B:GLU214 4.5 59.9 1.0 N B:THR161 4.6 50.9 1.0 F2 B:BEF502 4.6 54.2 1.0 CA C:GLY243 4.7 49.5 1.0 PA B:ADP501 4.8 52.9 1.0 O3A B:ADP501 4.9 52.9 1.0 O3B B:ADP501 4.9 52.9 1.0

Magnesium binding site 2 out of 4 in the MSP1-Substrate Complex in Closed Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of MSP1-Substrate Complex in Closed Conformation within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg502 b:46.7 occ:1.00 OG1 C:THR161 2.0 36.9 1.0 F1 C:BEF503 2.0 40.8 1.0 O2B C:ADP501 2.6 40.0 1.0 OD1 C:ASP213 3.1 41.5 1.0 OD2 C:ASP213 3.3 41.5 1.0 CB C:THR161 3.3 36.9 1.0 BE C:BEF503 3.4 40.8 1.0 CG C:ASP213 3.6 41.5 1.0 N C:THR161 3.8 36.9 1.0 F3 C:BEF503 3.8 40.8 1.0 PB C:ADP501 3.9 40.0 1.0 CA C:THR161 4.0 36.9 1.0 CB C:LYS160 4.3 38.2 1.0 CG2 C:THR161 4.3 36.9 1.0 OE2 C:GLU214 4.4 47.2 1.0 O1B C:ADP501 4.5 40.0 1.0 NH1 D:ARG275 4.5 38.5 1.0 O2A C:ADP501 4.6 40.0 1.0 CB C:ALA261 4.6 40.9 1.0 CE C:LYS160 4.6 38.2 1.0 F2 C:BEF503 4.6 40.8 1.0 O3B C:ADP501 4.6 40.0 1.0 C C:LYS160 4.7 38.2 1.0

Magnesium binding site 3 out of 4 in the MSP1-Substrate Complex in Closed Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of MSP1-Substrate Complex in Closed Conformation within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg503 b:39.0 occ:1.00 OG1 D:THR161 2.0 39.8 1.0 F3 D:BEF502 2.1 43.4 1.0 O2B D:ADP501 2.8 41.3 1.0 OD2 D:ASP213 2.8 47.0 1.0 CB D:THR161 3.3 39.8 1.0 O E:ASP242 3.3 49.6 1.0 BE D:BEF502 3.4 43.4 1.0 CG D:ASP213 3.7 47.0 1.0 OD1 D:ASP213 3.7 47.0 1.0 CG2 D:THR161 3.9 39.8 1.0 F1 D:BEF502 3.9 43.4 1.0 O2A D:ADP501 4.1 41.3 1.0 PB D:ADP501 4.3 41.3 1.0 NH1 E:ARG275 4.4 47.1 1.0 NH1 E:ARG274 4.4 47.3 1.0 CA D:THR161 4.4 39.8 1.0 C E:ASP242 4.5 49.6 1.0 F2 D:BEF502 4.6 43.4 1.0 CA E:GLY243 4.6 48.4 1.0 N D:THR161 4.6 39.8 1.0 O E:MET238 4.7 51.5 1.0 OE2 D:GLU214 4.8 51.0 1.0

Magnesium binding site 4 out of 4 in the MSP1-Substrate Complex in Closed Conformation


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of MSP1-Substrate Complex in Closed Conformation within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg502 b:58.9 occ:1.00 O3B E:ADP501 2.0 62.6 1.0 OG1 E:THR161 2.6 56.4 1.0 PB E:ADP501 2.9 62.6 1.0 O1B E:ADP501 3.2 62.6 1.0 O3A E:ADP501 3.3 62.6 1.0 CB E:THR161 3.4 56.4 1.0 NH1 F:ARG275 3.5 80.0 1.0 OD2 E:ASP213 3.8 61.9 1.0 CG2 E:THR161 4.0 56.4 1.0 O1A E:ADP501 4.1 62.6 1.0 OD1 E:ASP213 4.1 61.9 1.0 O2B E:ADP501 4.3 62.6 1.0 PA E:ADP501 4.4 62.6 1.0 OD1 F:ASP242 4.4 77.3 1.0 CG E:ASP213 4.4 61.9 1.0 CA F:GLY243 4.7 75.5 1.0 CZ F:ARG275 4.7 80.0 1.0 CA E:THR161 4.7 56.4 1.0 OE2 E:GLU214 4.8 64.7 1.0 O F:ASP242 4.9 77.3 1.0 N E:THR161 5.0 56.4 1.0

L.Wang, A.Myasnikov, X.Pan, P.Walter. Structure of the Aaa Protein MSP1 Reveals Mechanism of Mislocalized Membrane Protein Extraction. Elife V. 9 2020.
ISSN: ESSN 2050-084X
PubMed: 31999255
DOI: 10.7554/ELIFE.54031