Magnesium in PDB 7nyw: Cryo-Em Structure of the Mukbef-Matp-Dna Head Module

The binding sites of Magnesium atom in the Cryo-Em Structure of the Mukbef-Matp-Dna Head Module (pdb code 7nyw). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Cryo-Em Structure of the Mukbef-Matp-Dna Head Module, PDB code: 7nyw:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Cryo-Em Structure of the Mukbef-Matp-Dna Head Module


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cryo-Em Structure of the Mukbef-Matp-Dna Head Module within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1501 b:13.0 occ:1.00 HG A:SER41 1.6 36.1 1.0 O2G A:ATP1502 2.1 50.6 1.0 OG A:SER41 2.2 36.1 1.0 O2B A:ATP1502 3.2 50.6 1.0 HG1 B:THR1367 3.3 32.4 1.0 HB2 A:SER41 3.3 36.1 1.0 CB A:SER41 3.3 36.1 1.0 H B:THR1367 3.3 32.4 1.0 OG1 B:THR1367 3.4 32.4 1.0 HG1 A:THR63 3.4 47.2 1.0 PG A:ATP1502 3.4 50.6 1.0 HE21 A:GLN1407 3.5 30.0 1.0 O3B A:ATP1502 3.6 50.6 1.0 HB3 A:SER41 3.7 36.1 1.0 HB B:THR1367 3.8 32.4 1.0 OG1 A:THR63 3.8 47.2 1.0 NE2 A:GLN1407 4.0 30.0 1.0 H A:SER41 4.0 36.1 1.0 HE22 A:GLN1407 4.0 30.0 1.0 PB A:ATP1502 4.0 50.6 1.0 O1A A:ATP1502 4.1 50.6 1.0 N B:THR1367 4.1 32.4 1.0 OD2 A:ASP1406 4.1 40.7 1.0 CB B:THR1367 4.1 32.4 1.0 HA B:SER1366 4.2 50.6 1.0 O3G A:ATP1502 4.3 50.6 1.0 OD1 A:ASP1406 4.4 40.7 1.0 O1G A:ATP1502 4.4 50.6 1.0 CA A:SER41 4.5 36.1 1.0 O3A A:ATP1502 4.5 50.6 1.0 OG B:SER1366 4.6 50.6 1.0 CG A:ASP1406 4.6 40.7 1.0 N A:SER41 4.6 36.1 1.0 CA B:THR1367 4.7 32.4 1.0 HA A:SER41 4.8 36.1 1.0 PA A:ATP1502 4.8 50.6 1.0 HG2 A:GLN1407 4.8 30.0 1.0 H A:THR63 4.9 47.2 1.0 CA B:SER1366 4.9 50.6 1.0 C B:SER1366 5.0 50.6 1.0 HB A:THR63 5.0 47.2 1.0 CD A:GLN1407 5.0 30.0 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of the Mukbef-Matp-Dna Head Module


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Cryo-Em Structure of the Mukbef-Matp-Dna Head Module within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1501 b:14.3 occ:1.00 HG B:SER41 1.6 37.8 1.0 O2B B:ATP1502 2.0 50.6 1.0 OG B:SER41 2.1 37.8 1.0 O2G B:ATP1502 2.4 50.6 1.0 CB B:SER41 3.4 37.8 1.0 PB B:ATP1502 3.4 50.6 1.0 H A:THR1367 3.4 30.9 1.0 HE21 B:GLN1407 3.5 30.0 1.0 HG1 A:THR1367 3.6 30.9 1.0 HB2 B:SER41 3.7 37.8 1.0 PG B:ATP1502 3.7 50.6 1.0 HB3 B:SER41 3.7 37.8 1.0 OD2 B:ASP1406 3.7 32.1 1.0 HG1 B:THR63 3.8 42.0 1.0 OG1 A:THR1367 3.8 30.9 1.0 O3B B:ATP1502 3.8 50.6 1.0 HB A:THR1367 3.8 30.9 1.0 OD1 B:ASP1406 3.9 32.1 1.0 H B:SER41 4.0 37.8 1.0 NE2 B:GLN1407 4.0 30.0 1.0 HE22 B:GLN1407 4.1 30.0 1.0 OG1 B:THR63 4.1 42.0 1.0 CG B:ASP1406 4.2 32.1 1.0 N A:THR1367 4.3 30.9 1.0 O3A B:ATP1502 4.3 50.6 1.0 HB2 A:SER1366 4.3 50.6 1.0 O1A B:ATP1502 4.3 50.6 1.0 CB A:THR1367 4.3 30.9 1.0 O1B B:ATP1502 4.4 50.6 1.0 O3G B:ATP1502 4.4 50.6 1.0 HA A:SER1366 4.5 50.6 1.0 CA B:SER41 4.5 37.8 1.0 N B:SER41 4.5 37.8 1.0 HA B:SER41 4.7 37.8 1.0 HG2 B:GLN1407 4.7 30.0 1.0 O1G B:ATP1502 4.8 50.6 1.0 HE2 B:LYS40 4.9 50.6 1.0 HB2 B:LYS40 4.9 50.6 1.0 PA B:ATP1502 4.9 50.6 1.0 CA A:THR1367 5.0 30.9 1.0 H B:THR63 5.0 42.0 1.0 CD B:GLN1407 5.0 30.0 1.0 CB A:SER1366 5.0 50.6 1.0

F.Buermann, L.F.H.Funke, J.W.Chin, J.Lowe. Dna Entrapment Revealed By the Structure of Bacterial Condensin Mukbef Biorxiv 2021.
DOI: 10.1101/2021.06.29.450292