Magnesium in PDB 8qbl: Retron-ECO1 Filament with Inactive Effector (E106A, 2 Segments)

The binding sites of Magnesium atom in the Retron-ECO1 Filament with Inactive Effector (E106A, 2 Segments) (pdb code 8qbl). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Retron-ECO1 Filament with Inactive Effector (E106A, 2 Segments), PDB code: 8qbl:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in the Retron-ECO1 Filament with Inactive Effector (E106A, 2 Segments)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Retron-ECO1 Filament with Inactive Effector (E106A, 2 Segments) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:120.0 occ:1.00 OP1 B:DG85 2.3 94.7 1.0 OD2 A:ASP198 3.0 116.8 1.0 NZ A:LYS231 3.3 146.2 1.0 P B:DG85 3.8 122.7 1.0 CG A:ASP198 3.9 116.8 1.0 OD1 A:ASP198 4.0 119.0 1.0 OD2 A:ASP119 4.1 103.9 1.0 OD1 A:ASP119 4.4 99.8 1.0 CE A:LYS231 4.4 144.8 1.0 O5' B:DG85 4.5 101.6 1.0 C5' B:DG85 4.6 89.6 1.0 O3' B:DA84 4.6 87.0 1.0 OD1 A:ASN117 4.6 86.5 1.0 CG A:ASP119 4.6 102.5 1.0 OP1 C:G69 4.7 161.1 1.0 OP2 B:DG85 4.8 104.4 1.0

Magnesium binding site 2 out of 5 in the Retron-ECO1 Filament with Inactive Effector (E106A, 2 Segments)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Retron-ECO1 Filament with Inactive Effector (E106A, 2 Segments) within 5.0Å range: probe atom residue distance (Å) B Occ L:Mg101 b:148.7 occ:1.00 OP1 L:DG85 2.3 148.7 1.0 P L:DG85 3.7 160.5 1.0 OD1 K:ASN117 4.0 135.3 1.0 C5' L:DG85 4.2 144.4 1.0 CB K:ASP198 4.2 155.1 1.0 O3' L:DA84 4.2 141.2 1.0 ND2 K:ASN117 4.2 138.4 1.0 OD2 K:ASP119 4.2 171.7 1.0 O5' L:DG85 4.3 149.9 1.0 OD1 K:ASP119 4.4 179.4 1.0 CG K:ASN117 4.4 136.2 1.0 CG K:ASP198 4.5 157.4 1.0 N K:THR244 4.6 140.4 1.0 CA K:THR244 4.6 140.9 1.0 CG K:ASP119 4.8 174.8 1.0 CG2 K:THR244 4.8 137.9 1.0 OP2 L:DG85 4.8 145.4 1.0 OD2 K:ASP198 4.8 158.3 1.0 OD1 K:ASP198 5.0 158.8 1.0

Magnesium binding site 3 out of 5 in the Retron-ECO1 Filament with Inactive Effector (E106A, 2 Segments)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Retron-ECO1 Filament with Inactive Effector (E106A, 2 Segments) within 5.0Å range: probe atom residue distance (Å) B Occ U:Mg401 b:101.1 occ:1.00 OP1 V:DG85 2.6 105.0 1.0 OD2 U:ASP119 3.2 108.6 1.0 OD1 U:ASP119 3.6 113.9 1.0 CG U:ASP119 3.8 110.3 1.0 P V:DG85 4.1 131.1 1.0 OD1 U:ASN117 4.2 82.9 1.0 CB U:ASP198 4.3 93.0 1.0 C5' V:DG85 4.6 100.9 1.0 O5' V:DG85 4.6 113.7 1.0 CG U:ASN117 4.8 89.6 1.0 ND2 U:ASN117 5.0 94.6 1.0 O3' V:DA84 5.0 93.9 1.0

Magnesium binding site 4 out of 5 in the Retron-ECO1 Filament with Inactive Effector (E106A, 2 Segments)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Retron-ECO1 Filament with Inactive Effector (E106A, 2 Segments) within 5.0Å range: probe atom residue distance (Å) B Occ Q:Mg101 b:143.5 occ:1.00 OP1 Q:DG85 2.4 133.1 1.0 P Q:DG85 3.7 150.4 1.0 O3' Q:DA84 3.9 133.9 1.0 CA P:THR244 4.1 136.6 1.0 N P:THR244 4.2 136.6 1.0 OP2 Q:DG85 4.6 132.8 1.0 N P:GLY245 4.7 156.6 1.0 O5' Q:DG85 4.7 130.9 1.0 C5' Q:DG85 4.8 121.4 1.0 C P:THR244 4.9 139.2 1.0 ND2 P:ASN117 5.0 147.5 1.0

Magnesium binding site 5 out of 5 in the Retron-ECO1 Filament with Inactive Effector (E106A, 2 Segments)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Retron-ECO1 Filament with Inactive Effector (E106A, 2 Segments) within 5.0Å range: probe atom residue distance (Å) B Occ a:Mg101 b:171.3 occ:1.00 OP1 a:DG85 2.4 283.1 1.0 P a:DG85 3.8 284.5 1.0 O5' a:DG85 4.5 283.3 1.0 C5' a:DG85 4.5 282.0 1.0 O3' a:DA84 4.7 271.9 1.0 OP2 a:DG85 4.8 283.5 1.0

A.Carabias, S.Camara-Wilpert, M.R.Mestre, B.Lopez-Mendez, I.A.Hendriks, R.Zhao, T.Pape, A.Fuglsang, S.H.Luk, M.L.Nielsen, R.Pinilla-Redondo, G.Montoya. Retron-ECO1 Assembles Nad + -Hydrolyzing Filaments That Provide Immunity Against Bacteriophages. Mol.Cell 2024.
ISSN: ISSN 1097-2765
PubMed: 38788717
DOI: 10.1016/J.MOLCEL.2024.05.001