Magnesium in PDB 7z9m: E.Coli Gyrase Holocomplex with 217 Bp Dna and Albi-1 (Site Aa)

All present enzymatic activity of E.Coli Gyrase Holocomplex with 217 Bp Dna and Albi-1 (Site Aa):
5.6.2.2;

The binding sites of Magnesium atom in the E.Coli Gyrase Holocomplex with 217 Bp Dna and Albi-1 (Site Aa) (pdb code 7z9m). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the E.Coli Gyrase Holocomplex with 217 Bp Dna and Albi-1 (Site Aa), PDB code: 7z9m:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the E.Coli Gyrase Holocomplex with 217 Bp Dna and Albi-1 (Site Aa)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of E.Coli Gyrase Holocomplex with 217 Bp Dna and Albi-1 (Site Aa) within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg901 b:71.7 occ:1.00 O B:HOH1002 1.8 84.4 1.0 O E:HOH101 1.9 50.0 1.0 O B:HOH1003 2.0 78.0 1.0 O B:HOH1001 2.0 71.8 1.0 O B:HOH1004 2.0 54.3 1.0 OD2 B:ASP500 2.1 68.9 1.0 CG B:ASP500 3.2 68.9 1.0 OD1 B:ASP500 3.7 68.9 1.0 OD2 B:ASP498 3.8 71.6 1.0 H5' E:DT14 4.1 80.1 1.0 OP1 E:DT14 4.4 80.1 1.0 CG B:ASP498 4.4 71.6 1.0 CB B:ASP500 4.4 68.9 1.0 O B:LYS740 4.5 74.1 1.0 HB3 B:ASP500 4.5 68.9 1.0 HB2 B:ASP502 4.5 66.4 1.0 HB3 B:ASP498 4.6 71.6 1.0 OD2 B:ASP502 4.6 66.4 1.0 HB2 B:ASP500 4.6 68.9 1.0 CB B:ASP498 5.0 71.6 1.0 HA3 B:GLY741 5.0 73.8 1.0

Magnesium binding site 2 out of 2 in the E.Coli Gyrase Holocomplex with 217 Bp Dna and Albi-1 (Site Aa)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of E.Coli Gyrase Holocomplex with 217 Bp Dna and Albi-1 (Site Aa) within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg901 b:78.3 occ:1.00 O D:HOH1003 1.7 75.0 1.0 O A:HOH1001 1.9 67.0 1.0 O D:HOH1004 1.9 65.6 1.0 O D:HOH1002 1.9 86.6 1.0 O D:HOH1001 2.0 73.2 1.0 OD2 D:ASP500 2.0 69.7 1.0 CG D:ASP500 3.2 69.7 1.0 OD2 D:ASP498 3.7 68.8 1.0 OD1 D:ASP500 3.8 69.7 1.0 H5' F:DA14 3.9 80.1 1.0 O D:LYS740 4.2 71.8 1.0 OP1 F:DA14 4.3 80.1 1.0 CB D:ASP500 4.4 69.7 1.0 CG D:ASP498 4.4 68.8 1.0 HB3 D:ASP500 4.4 69.7 1.0 HB2 D:ASP500 4.5 69.7 1.0 HG2 D:LYS740 4.7 71.8 1.0 HB2 D:ASP502 4.7 67.0 1.0 OD1 D:ASP498 4.8 68.8 1.0 C5' F:DA14 4.9 80.1 1.0 HB3 D:ASP498 5.0 68.8 1.0 N4 A:IL1901 5.0 60.9 1.0

E.Michalczyk, K.Hommernick, I.Behroz, M.Kulike, Z.Pakosz-Stepien, L.Mazurek, M.Seidel, M.Kunert, K.Santos, H.Von Moeller, B.Loll, J.B.Weston, A.Mainz, J.G.Heddle, R.D.Sussmuth, D.Ghilarov. Molecular Mechanism of Topoisomerase Poisoning By the Peptide Antibiotic Albicidin. Nat Catal V. 6 52 2023.
ISSN: ESSN 2520-1158
PubMed: 36741192
DOI: 10.1038/S41929-022-00904-1