Magnesium in PDB 8yfq: Cryo Em Structure of Komagataella Phaffii Rnapii-RAT1-RAI1 Pre- Termination Complex

All present enzymatic activity of Cryo Em Structure of Komagataella Phaffii Rnapii-RAT1-RAI1 Pre- Termination Complex:
2.7.7.6;

The structure of Cryo Em Structure of Komagataella Phaffii Rnapii-RAT1-RAI1 Pre- Termination Complex also contains other interesting chemical elements:

Zinc

(Zn)

8 atoms

The binding sites of Magnesium atom in the Cryo Em Structure of Komagataella Phaffii Rnapii-RAT1-RAI1 Pre- Termination Complex (pdb code 8yfq). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Cryo Em Structure of Komagataella Phaffii Rnapii-RAT1-RAI1 Pre- Termination Complex, PDB code: 8yfq:

Magnesium binding site 1 out of 1 in the Cryo Em Structure of Komagataella Phaffii Rnapii-RAT1-RAI1 Pre- Termination Complex


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 Komagataella Phaffii Rnapii-RAT1-RAI1 Pre- Termination Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1803 b:26.5 occ:1.00 OD1 A:ASP482 2.1 26.2 1.0 OD1 A:ASP484 2.4 25.1 1.0 OD1 A:ASP486 2.5 27.6 1.0 O3' P:U22 2.8 76.5 1.0 CG A:ASP482 2.9 26.2 1.0 OD2 A:ASP482 3.0 26.2 1.0 CG A:ASP484 3.1 25.1 1.0 OD2 A:ASP484 3.2 25.1 1.0 CG A:ASP486 3.2 27.6 1.0 OD2 A:ASP486 3.4 27.6 1.0 C3' P:U22 3.8 76.5 1.0 CB A:ASP482 4.3 26.2 1.0 N A:ASP482 4.5 26.2 1.0 CB A:ASP484 4.6 25.1 1.0 CB A:ASP486 4.6 27.6 1.0 C4' P:U22 4.8 76.5 1.0 CA A:ASP482 4.8 26.2 1.0 O A:ASP482 4.8 26.2 1.0 N A:ASP484 4.8 25.1 1.0 C A:ASP482 4.8 26.2 1.0 O2' P:U22 4.8 76.5 1.0 C2' P:U22 4.9 76.5 1.0 N A:ASP486 4.9 27.6 1.0 NH2 A:ARG447 5.0 26.0 1.0

T.Yanagisawa, Y.Murayama, H.Ehara, M.Goto, M.Aoki, S.I.Sekine. Structural Basis of Eukaryotic Transcription Termination By the RAT1 Exonuclease Complex. Nat Commun V. 15 7854 2024.
ISSN: ESSN 2041-1723
PubMed: 39245712
DOI: 10.1038/S41467-024-52157-0