Magnesium in PDB 6xl9: Cryo-Em Structure of Ecmrr-Rnap-Promoter Initial Transcribing Complex with 3-Nt Rna Transcript (Ecmrr-Rpitc-3NT)

All present enzymatic activity of Cryo-Em Structure of Ecmrr-Rnap-Promoter Initial Transcribing Complex with 3-Nt Rna Transcript (Ecmrr-Rpitc-3NT):
2.7.7.6;

The structure of Cryo-Em Structure of Ecmrr-Rnap-Promoter Initial Transcribing Complex with 3-Nt Rna Transcript (Ecmrr-Rpitc-3NT) also contains other interesting chemical elements:

Antimony	(Sb)	3 atoms
Zinc	(Zn)	2 atoms

The binding sites of Magnesium atom in the Cryo-Em Structure of Ecmrr-Rnap-Promoter Initial Transcribing Complex with 3-Nt Rna Transcript (Ecmrr-Rpitc-3NT) (pdb code 6xl9). 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 Ecmrr-Rnap-Promoter Initial Transcribing Complex with 3-Nt Rna Transcript (Ecmrr-Rpitc-3NT), PDB code: 6xl9:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Cryo-Em Structure of Ecmrr-Rnap-Promoter Initial Transcribing Complex with 3-Nt Rna Transcript (Ecmrr-Rpitc-3NT)


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 Ecmrr-Rnap-Promoter Initial Transcribing Complex with 3-Nt Rna Transcript (Ecmrr-Rpitc-3NT) within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1503 b:64.6 occ:1.00 OD1 D:ASP464 2.0 63.1 1.0 OD1 D:ASP460 2.1 63.1 1.0 OD1 D:ASP462 2.1 62.8 1.0 OD2 D:ASP464 2.2 63.1 1.0 CG D:ASP464 2.4 63.1 1.0 O3' R:G3 2.6 69.8 1.0 CG D:ASP462 3.3 62.8 1.0 CG D:ASP460 3.3 63.1 1.0 OD2 D:ASP462 3.7 62.8 1.0 O D:ASP460 3.8 63.1 1.0 C3' R:G3 3.8 69.8 1.0 O2' R:G3 3.8 69.8 1.0 CB D:ASP464 3.9 63.1 1.0 OD2 D:ASP460 3.9 63.1 1.0 N D:ASP460 4.1 63.1 1.0 C D:ASP460 4.1 63.1 1.0 C4' R:G3 4.3 69.8 1.0 N D:ASP464 4.4 63.1 1.0 CB D:ASP460 4.4 63.1 1.0 N D:ASP462 4.4 62.8 1.0 CA D:ASP460 4.4 63.1 1.0 C2' R:G3 4.4 69.8 1.0 CB D:ASP462 4.5 62.8 1.0 CA D:ASP464 4.6 63.1 1.0 CA D:ASP462 4.8 62.8 1.0 C D:ASP462 4.9 62.8 1.0 N D:PHE461 4.9 59.7 1.0 NH2 D:ARG425 4.9 60.2 1.0 N D:GLY463 4.9 62.5 1.0 C5' R:G3 4.9 69.8 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of Ecmrr-Rnap-Promoter Initial Transcribing Complex with 3-Nt Rna Transcript (Ecmrr-Rpitc-3NT)


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 Ecmrr-Rnap-Promoter Initial Transcribing Complex with 3-Nt Rna Transcript (Ecmrr-Rpitc-3NT) within 5.0Å range: probe atom residue distance (Å) B Occ R:Mg101 b:78.0 occ:1.00 N7 R:GTP1 2.1 89.3 1.0 O3B R:GTP1 2.5 89.3 1.0 C8 R:GTP1 2.8 89.3 1.0 O2B R:GTP1 3.2 89.3 1.0 C5 R:GTP1 3.3 89.3 1.0 PB R:GTP1 3.4 89.3 1.0 PG R:GTP1 3.4 89.3 1.0 O1G R:GTP1 3.5 89.3 1.0 O2G R:GTP1 3.6 89.3 1.0 O6 R:GTP1 3.8 89.3 1.0 O3A R:GTP1 3.9 89.3 1.0 C6 R:GTP1 4.0 89.3 1.0 N9 R:GTP1 4.1 89.3 1.0 C4 R:GTP1 4.3 89.3 1.0 O6 T:DG16 4.6 76.5 1.0 O1B R:GTP1 4.7 89.3 1.0 O3G R:GTP1 4.8 89.3 1.0 N1 T:DG16 4.8 76.5 1.0 C6 T:DG16 5.0 76.5 1.0

Y.Yang, C.Liu, W.Shi, D.G.Schatz, Y.Hu, B.Liu. Structural Visualization of Bacterial Multidrug-Activated Transcription To Be Published.