Magnesium in PDB 6xlj: Cryo-Em Structure of Ecmrr-Rnap-Promoter Initial Transcribing Complex with 4-Nt Rna Transcript (Ecmrr-Rpitc-4NT)

All present enzymatic activity of Cryo-Em Structure of Ecmrr-Rnap-Promoter Initial Transcribing Complex with 4-Nt Rna Transcript (Ecmrr-Rpitc-4NT):
2.7.7.6;

The structure of Cryo-Em Structure of Ecmrr-Rnap-Promoter Initial Transcribing Complex with 4-Nt Rna Transcript (Ecmrr-Rpitc-4NT) 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 4-Nt Rna Transcript (Ecmrr-Rpitc-4NT) (pdb code 6xlj). 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 4-Nt Rna Transcript (Ecmrr-Rpitc-4NT), PDB code: 6xlj:
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 4-Nt Rna Transcript (Ecmrr-Rpitc-4NT)


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 4-Nt Rna Transcript (Ecmrr-Rpitc-4NT) within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1501 b:62.2 occ:1.00 OD1 D:ASP460 1.9 57.0 1.0 O3' R:G4 1.9 66.7 1.0 OD1 D:ASP464 1.9 57.5 1.0 OD1 D:ASP462 2.1 57.1 1.0 CG D:ASP464 2.7 57.5 1.0 CG D:ASP460 2.7 57.0 1.0 OD2 D:ASP464 2.9 57.5 1.0 O2' R:G4 3.0 66.7 1.0 OD2 D:ASP460 3.0 57.0 1.0 C3' R:G4 3.0 66.7 1.0 CG D:ASP462 3.1 57.1 1.0 OD2 D:ASP462 3.3 57.1 1.0 C2' R:G4 3.5 66.7 1.0 C4' R:G4 3.6 66.7 1.0 O D:ASP460 3.8 57.0 1.0 CB D:ASP464 4.1 57.5 1.0 CB D:ASP460 4.1 57.0 1.0 N D:ASP460 4.3 57.0 1.0 C D:ASP460 4.3 57.0 1.0 C5' R:G4 4.4 66.7 1.0 CB D:ASP462 4.4 57.1 1.0 N D:ASP464 4.5 57.5 1.0 N D:ASP462 4.5 57.1 1.0 CA D:ASP460 4.5 57.0 1.0 CA D:ASP464 4.6 57.5 1.0 O4' R:G4 4.7 66.7 1.0 C1' R:G4 4.7 66.7 1.0 C D:ASP462 4.8 57.1 1.0 CA D:ASP462 4.8 57.1 1.0 NH2 D:ARG425 4.9 54.8 1.0

Magnesium binding site 2 out of 2 in the Cryo-Em Structure of Ecmrr-Rnap-Promoter Initial Transcribing Complex with 4-Nt Rna Transcript (Ecmrr-Rpitc-4NT)


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 4-Nt Rna Transcript (Ecmrr-Rpitc-4NT) within 5.0Å range: probe atom residue distance (Å) B Occ R:Mg101 b:85.9 occ:1.00 N7 R:GTP1 2.3 81.5 1.0 C8 R:GTP1 2.9 81.5 1.0 O2B R:GTP1 3.2 81.5 1.0 O3A R:GTP1 3.4 81.5 1.0 O3G R:GTP1 3.4 81.5 1.0 C5 R:GTP1 3.6 81.5 1.0 PB R:GTP1 3.8 81.5 1.0 O6 R:GTP1 4.1 81.5 1.0 N9 R:GTP1 4.2 81.5 1.0 C6 R:GTP1 4.3 81.5 1.0 C4 R:GTP1 4.5 81.5 1.0 O3B R:GTP1 4.5 81.5 1.0 PG R:GTP1 4.5 81.5 1.0 N1 T:DA17 4.6 86.5 1.0 OD1 F:ASP514 4.6 102.0 1.0 PA R:GTP1 4.7 81.5 1.0 NH2 C:ARG540 4.7 77.2 1.0 O1A R:GTP1 4.8 81.5 1.0 C5 R:C2 4.9 74.9 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.