Magnesium in PDB 8vct: Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp

The structure of Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Magnesium atom in the Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp (pdb code 8vct). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 6 binding sites of Magnesium where determined in the Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp, PDB code: 8vct:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6;

Magnesium binding site 1 out of 6 in the Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp within 5.0Å range: probe atom residue distance (Å) B Occ G:Mg602 b:24.3 occ:1.00 OG1 G:THR143 2.2 38.2 1.0 CG2 G:THR143 2.5 38.2 1.0 CB G:THR143 2.6 38.2 1.0 CA G:THR143 4.1 38.2 1.0 S1G G:AGS601 4.3 38.2 1.0 N G:THR143 4.8 38.2 1.0 O3B G:AGS601 4.9 38.2 1.0 C G:THR143 5.0 38.2 1.0 NZ G:LYS171 5.0 38.2 1.0

Magnesium binding site 2 out of 6 in the Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp within 5.0Å range: probe atom residue distance (Å) B Occ E:Mg602 b:14.8 occ:1.00 OE2 E:GLU233 2.1 29.8 1.0 OG1 E:THR143 2.1 16.9 1.0 O3B E:ADP601 2.2 27.7 1.0 CD E:GLU233 3.2 29.8 1.0 CB E:THR143 3.3 16.9 1.0 PB E:ADP601 3.5 27.7 1.0 OE1 E:GLU233 3.7 29.8 1.0 CG2 E:THR143 4.0 16.9 1.0 O2B E:ADP601 4.1 27.7 1.0 O1B E:ADP601 4.2 27.7 1.0 CG E:GLU233 4.4 29.8 1.0 N E:THR143 4.5 16.9 1.0 CA E:THR143 4.5 16.9 1.0 O1A E:ADP601 4.7 27.7 1.0 O3A E:ADP601 4.7 27.7 1.0 OD1 E:ASP232 4.8 21.2 1.0 NZ E:LYS142 4.8 21.1 1.0 O2A E:ADP601 4.9 27.7 1.0 PA E:ADP601 5.0 27.7 1.0

Magnesium binding site 3 out of 6 in the Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg602 b:13.7 occ:1.00 OG1 F:THR143 2.6 18.9 1.0 O3B F:ADP601 2.9 38.2 1.0 O2B F:ADP601 3.3 38.2 1.0 PB F:ADP601 3.6 38.2 1.0 CB F:THR143 3.8 18.9 1.0 CG F:GLU233 4.2 32.9 1.0 OE2 F:GLU233 4.4 32.9 1.0 O2A F:ADP601 4.4 38.2 1.0 CG2 F:THR143 4.5 18.9 1.0 OD2 F:ASP232 4.7 24.9 1.0 O1B F:ADP601 4.7 38.2 1.0 O1A F:ADP601 4.7 38.2 1.0 O3A F:ADP601 4.8 38.2 1.0 PA F:ADP601 4.8 38.2 1.0 CD F:GLU233 4.9 32.9 1.0 CA F:THR143 4.9 18.9 1.0 N F:THR143 4.9 18.9 1.0

Magnesium binding site 4 out of 6 in the Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg602 b:44.4 occ:1.00 OG1 C:THR143 2.1 20.7 1.0 CB C:THR143 3.1 20.7 1.0 CG2 C:THR143 3.3 20.7 1.0 O3B C:AGS601 4.1 17.4 1.0 S1G C:AGS601 4.3 17.4 1.0 CA C:THR143 4.4 20.7 1.0 NH2 B:ARG284 4.7 14.4 1.0 PG C:AGS601 4.7 17.4 1.0 O3A C:AGS601 4.9 17.4 1.0 N C:THR143 4.9 20.7 1.0

Magnesium binding site 5 out of 6 in the Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg602 b:15.6 occ:1.00 O1B B:ADP601 2.1 29.3 1.0 PB B:ADP601 3.3 29.3 1.0 OG1 B:THR143 3.3 38.2 1.0 O3B B:ADP601 3.6 29.3 1.0 OD2 B:ASP232 3.9 29.5 1.0 O2B B:ADP601 4.1 29.3 1.0 OD1 B:ASP232 4.3 29.5 1.0 CG B:GLU233 4.3 35.2 1.0 O1A B:ADP601 4.4 29.3 1.0 CG B:ASP232 4.5 29.5 1.0 CB B:THR143 4.5 38.2 1.0 NZ B:LYS142 4.5 20.7 1.0 O3A B:ADP601 4.5 29.3 1.0 OE2 B:GLU233 4.8 35.2 1.0 CD B:GLU233 4.9 35.2 1.0 PA B:ADP601 4.9 29.3 1.0

Magnesium binding site 6 out of 6 in the Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Cyoem Structure of the Tnsc(1-503)-Tnsd(1-318)-Dna Complex in A 6:2:1 Stoichiometry From E. Coli TN7 Bound to Atpgs and Adp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg602 b:19.6 occ:1.00 O2B A:ADP601 2.1 40.1 1.0 O1B A:ADP601 2.3 40.1 1.0 OE2 A:GLU233 2.5 38.2 1.0 PB A:ADP601 2.5 40.1 1.0 OG1 A:THR143 2.9 30.3 1.0 CD A:GLU233 3.4 38.2 1.0 O3B A:ADP601 3.4 40.1 1.0 CG A:GLU233 3.5 38.2 1.0 O3A A:ADP601 3.9 40.1 1.0 NE2 A:GLN235 4.2 43.5 1.0 CB A:THR143 4.2 30.3 1.0 OD1 A:ASP232 4.5 29.1 1.0 OE1 A:GLU233 4.6 38.2 1.0 CG2 A:THR143 4.7 30.3 1.0 CB A:GLU233 4.8 38.2 1.0

Y.Shen, S.S.Krishnan, M.T.Petassi, M.A.Hancock, J.E.Peters, A.Guarne. Assembly of the TN7 Targeting Complex By A Regulated Stepwise Process. Mol.Cell V. 84 2368 2024.
ISSN: ISSN 1097-2765
PubMed: 38834067
DOI: 10.1016/J.MOLCEL.2024.05.012