Magnesium in PDB 9g2m: Cryo-Em Structure of Irtab in Outward-Occluded State in Lmng in Complex with Adp-Vanadate

The structure of Cryo-Em Structure of Irtab in Outward-Occluded State in Lmng in Complex with Adp-Vanadate also contains other interesting chemical elements:

Vanadium	(V)	2 atoms
Zinc	(Zn)	1 atom

The binding sites of Magnesium atom in the Cryo-Em Structure of Irtab in Outward-Occluded State in Lmng in Complex with Adp-Vanadate (pdb code 9g2m). 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 in Lmng in Complex with Adp-Vanadate, PDB code: 9g2m:
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 in Lmng in Complex with Adp-Vanadate


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 in Lmng in Complex with Adp-Vanadate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1002 b:27.2 occ:1.00 OE1 A:GLN735 2.0 64.5 1.0 O2G A:AOV1001 2.1 59.9 1.0 OG A:SER694 2.2 47.1 1.0 O2B A:AOV1001 2.5 65.1 1.0 HG A:SER694 2.7 48.1 1.0 CD A:GLN735 2.8 66.8 1.0 HE22 A:GLN735 3.0 60.7 1.0 VG A:AOV1001 3.1 85.6 1.0 O1G A:AOV1001 3.1 51.3 1.0 HB2 A:SER694 3.1 47.4 1.0 CB A:SER694 3.1 43.2 1.0 NE2 A:GLN735 3.2 62.2 1.0 H B:GLY470 3.4 57.9 1.0 HB3 A:SER694 3.4 47.2 1.0 O3B A:AOV1001 3.5 65.3 1.0 PB A:AOV1001 3.6 72.3 1.0 HB2 A:GLN735 3.6 60.5 1.0 CG A:GLN735 4.0 64.5 1.0 HB3 A:GLN735 4.0 60.5 1.0 HE21 A:GLN735 4.0 61.0 1.0 OD1 A:ASP814 4.1 64.3 1.0 CB A:GLN735 4.1 59.3 1.0 N B:GLY470 4.2 54.5 1.0 OD2 A:ASP814 4.2 60.4 1.0 H A:SER694 4.2 48.4 1.0 HB2 B:SER469 4.3 55.5 1.0 O4G A:AOV1001 4.3 62.8 1.0 HA3 B:GLY470 4.4 57.9 1.0 CA A:SER694 4.5 38.6 1.0 HG3 A:GLN735 4.5 61.2 1.0 HA B:SER469 4.5 55.8 1.0 CG A:ASP814 4.6 62.5 1.0 O3A A:AOV1001 4.6 57.9 1.0 O1A A:AOV1001 4.6 44.1 1.0 HG2 A:GLN735 4.6 61.4 1.0 O1B A:AOV1001 4.7 56.2 1.0 N A:SER694 4.7 41.9 1.0 HA A:SER694 4.7 47.2 1.0 CA B:GLY470 4.9 55.4 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of Irtab in Outward-Occluded State in Lmng in Complex with Adp-Vanadate


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 in Lmng in Complex with Adp-Vanadate within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg602 b:42.0 occ:1.00 OE1 B:GLN412 1.9 61.0 1.0 OG1 B:THR371 2.0 71.8 1.0 O2B B:AOV601 2.3 70.9 1.0 HG1 B:THR371 2.4 64.0 1.0 CD B:GLN412 2.5 60.9 1.0 HE22 B:GLN412 2.6 62.6 1.0 O1G B:AOV601 2.8 68.5 1.0 NE2 B:GLN412 2.8 63.3 1.0 CB B:THR371 3.1 64.5 1.0 HB B:THR371 3.2 64.0 1.0 HG21 B:THR371 3.2 62.6 1.0 O2G B:AOV601 3.3 66.8 1.0 O3B B:AOV601 3.3 60.1 1.0 PB B:AOV601 3.3 67.7 1.0 VG B:AOV601 3.4 78.4 1.0 HE21 B:GLN412 3.6 63.2 1.0 HB2 B:GLN412 3.6 63.2 1.0 CG2 B:THR371 3.7 58.6 1.0 CG B:GLN412 3.8 59.7 1.0 OD1 B:ASP492 4.0 66.2 1.0 OD2 B:ASP492 4.1 73.3 1.0 CB B:GLN412 4.1 62.4 1.0 H B:THR371 4.1 65.5 1.0 HG3 B:GLN412 4.2 62.9 1.0 O3A B:AOV601 4.2 57.9 1.0 H A:GLY792 4.2 54.6 1.0 HB3 B:GLN412 4.2 62.9 1.0 HB2 A:SER791 4.3 55.1 1.0 HG23 B:THR371 4.3 62.9 1.0 CA B:THR371 4.3 52.3 1.0 HG22 B:THR371 4.4 62.6 1.0 OE2 B:GLU493 4.4 77.3 1.0 CG B:ASP492 4.5 70.5 1.0 HG2 B:GLN412 4.5 62.5 1.0 HA B:THR371 4.6 61.1 1.0 N B:THR371 4.6 60.3 1.0 O1B B:AOV601 4.6 68.5 1.0 O1A B:AOV601 4.7 53.8 1.0 HG3 B:GLU493 4.9 72.2 1.0 HG3 B:LYS370 4.9 68.9 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