Magnesium in PDB 9g2z: Cryo-Em Structure of Irtab in Outward-Occluded State Under Turnover Conditions in Lmng

The structure of Cryo-Em Structure of Irtab in Outward-Occluded State Under Turnover Conditions in Lmng also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Magnesium atom in the Cryo-Em Structure of Irtab in Outward-Occluded State Under Turnover Conditions in Lmng (pdb code 9g2z). 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 Irtab in Outward-Occluded State Under Turnover Conditions in Lmng, PDB code: 9g2z:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Cryo-Em Structure of Irtab in Outward-Occluded State Under Turnover Conditions in Lmng


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 Irtab in Outward-Occluded State Under Turnover Conditions in Lmng within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1002 b:14.3 occ:1.00 OG A:SER694 2.0 30.0 1.0 O2B A:ATP1001 2.2 39.3 1.0 O2G A:ATP1001 2.2 38.0 1.0 OE1 A:GLN735 2.3 48.1 1.0 HG A:SER694 2.5 30.9 1.0 HB2 A:SER694 3.1 31.7 1.0 CB A:SER694 3.1 28.4 1.0 HE22 A:GLN735 3.1 43.4 1.0 O3B A:ATP1001 3.2 34.0 1.0 CD A:GLN735 3.2 44.0 1.0 PG A:ATP1001 3.3 42.4 1.0 PB A:ATP1001 3.3 27.7 1.0 H B:GLY470 3.4 25.5 1.0 NE2 A:GLN735 3.5 40.6 1.0 HB3 A:SER694 3.6 30.3 1.0 H A:SER694 3.7 32.2 1.0 HB2 B:SER469 4.0 23.8 1.0 O1G A:ATP1001 4.0 43.2 1.0 O3A A:ATP1001 4.1 28.7 1.0 O1A A:ATP1001 4.1 29.9 1.0 HG3 A:LYS693 4.2 38.3 1.0 N B:GLY470 4.2 28.8 1.0 HG2 A:LYS693 4.2 37.7 1.0 CA A:SER694 4.2 24.9 1.0 N A:SER694 4.2 28.3 1.0 OD1 A:ASP814 4.3 45.2 1.0 HA3 B:GLY470 4.3 25.2 1.0 HE21 A:GLN735 4.4 43.3 1.0 O1B A:ATP1001 4.5 24.4 1.0 O3G A:ATP1001 4.5 27.6 1.0 OD2 A:ASP814 4.5 44.7 1.0 PA A:ATP1001 4.5 26.7 1.0 HA A:SER694 4.6 30.9 1.0 CG A:GLN735 4.6 44.4 1.0 CG A:LYS693 4.7 41.3 1.0 HB3 A:GLN735 4.7 43.4 1.0 HA B:SER469 4.8 23.5 1.0 H B:GLY471 4.8 26.7 1.0 CA B:GLY470 4.8 22.5 1.0 HB2 A:GLN735 4.8 43.5 1.0 CG A:ASP814 4.8 45.0 1.0 HD2 A:LYS693 4.9 38.2 1.0 CB B:SER469 4.9 18.4 1.0 HG2 A:GLN735 4.9 44.2 1.0 HZ1 A:LYS693 5.0 37.6 1.0 OE1 A:GLU815 5.0 48.8 1.0 HZ2 A:LYS693 5.0 37.0 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of Irtab in Outward-Occluded State Under Turnover Conditions in Lmng


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 Irtab in Outward-Occluded State Under Turnover Conditions in Lmng within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg602 b:22.1 occ:1.00 HE22 B:GLN412 1.6 33.3 1.0 O2G B:ATP601 2.0 45.0 1.0 HG1 B:THR371 2.0 35.0 1.0 O2B B:ATP601 2.0 46.0 1.0 OG1 B:THR371 2.3 38.6 1.0 NE2 B:GLN412 2.3 34.9 1.0 HE21 B:GLN412 2.7 33.1 1.0 HB B:THR371 2.9 35.1 1.0 CB B:THR371 3.1 32.3 1.0 PG B:ATP601 3.1 59.1 1.0 PB B:ATP601 3.1 37.4 1.0 O3B B:ATP601 3.2 45.8 1.0 CD B:GLN412 3.2 32.7 1.0 HB2 A:SER791 3.4 42.2 1.0 OE1 B:GLN412 3.4 35.3 1.0 O1A B:ATP601 3.5 37.7 1.0 H B:THR371 3.5 37.2 1.0 H A:GLY792 3.6 41.6 1.0 HG22 B:THR371 3.8 33.4 1.0 O3A B:ATP601 3.9 40.8 1.0 O1G B:ATP601 4.0 46.9 1.0 CG2 B:THR371 4.1 28.6 1.0 N B:THR371 4.1 35.1 1.0 PA B:ATP601 4.2 35.4 1.0 CA B:THR371 4.2 23.7 1.0 O3G B:ATP601 4.2 48.4 1.0 HB2 B:GLN412 4.3 33.0 1.0 O1B B:ATP601 4.3 43.0 1.0 CB A:SER791 4.4 41.2 1.0 N A:GLY792 4.4 38.9 1.0 CG B:GLN412 4.5 27.6 1.0 OD2 B:ASP492 4.6 40.9 1.0 HA B:THR371 4.6 33.0 1.0 HB2 B:LYS370 4.6 43.3 1.0 OD1 B:ASP492 4.6 42.1 1.0 HG21 B:THR371 4.6 33.7 1.0 HB3 A:SER791 4.6 42.6 1.0 HB3 B:GLN412 4.7 33.1 1.0 CB B:GLN412 4.7 31.2 1.0 HA3 A:GLY792 4.7 41.7 1.0 HG23 B:THR371 4.8 33.4 1.0 H A:GLY793 4.8 45.6 1.0 O2A B:ATP601 4.8 44.6 1.0 HG A:SER791 4.9 41.1 1.0 HA A:SER791 4.9 42.5 1.0 HG3 B:GLU493 4.9 43.8 1.0 HG3 B:GLN412 5.0 32.6 1.0 HE2 B:LYS370 5.0 42.9 1.0

I.Gonda, S.Sorrentino, L.Galazzo, N.P.Lichti, F.M.Arnold, A.R.Mehdipour, E.Bordignon, M.A.Seeger. The Mycobacterial Abc Transporter Irtab Employs A Membrane-Facing Crevice For Siderophore-Mediated Iron Uptake Nature 2024.
ISSN: ESSN 1476-4687
DOI: 10.1038/S41467-024-55136-7