Magnesium in PDB 8yfr: Cryo Em Structure of Komagataella Phaffii RAT1-RAI1 Complex Bound Within the Rnapii Cleft

All present enzymatic activity of Cryo Em Structure of Komagataella Phaffii RAT1-RAI1 Complex Bound Within the Rnapii Cleft:
2.7.7.6;

The structure of Cryo Em Structure of Komagataella Phaffii RAT1-RAI1 Complex Bound Within the Rnapii Cleft also contains other interesting chemical elements:

Zinc

(Zn)

8 atoms

The binding sites of Magnesium atom in the Cryo Em Structure of Komagataella Phaffii RAT1-RAI1 Complex Bound Within the Rnapii Cleft (pdb code 8yfr). 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 RAT1-RAI1 Complex Bound Within the Rnapii Cleft, PDB code: 8yfr:

Magnesium binding site 1 out of 1 in the Cryo Em Structure of Komagataella Phaffii RAT1-RAI1 Complex Bound Within the Rnapii Cleft


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 RAT1-RAI1 Complex Bound Within the Rnapii Cleft within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1803 b:102.0 occ:1.00 OD1 A:ASP484 2.1 89.2 1.0 OD1 A:ASP482 2.1 91.0 1.0 OD1 A:ASP486 2.2 92.1 1.0 OD2 A:ASP486 2.5 92.1 1.0 CG A:ASP486 2.6 92.1 1.0 OD2 A:ASP484 2.7 89.2 1.0 CG A:ASP484 2.7 89.2 1.0 CG A:ASP482 2.9 91.0 1.0 OD2 A:ASP482 3.2 91.0 1.0 CB A:ASP486 4.0 92.1 1.0 O A:ASP482 4.1 91.0 1.0 CB A:ASP484 4.2 89.2 1.0 CB A:ASP482 4.3 91.0 1.0 N A:ASP482 4.4 91.0 1.0 C A:ASP482 4.5 91.0 1.0 N A:ASP486 4.6 92.1 1.0 N A:ASP484 4.6 89.2 1.0 CA A:ASP482 4.6 91.0 1.0 CA A:ASP486 4.7 92.1 1.0 CA A:ASP484 4.8 89.2 1.0 C A:ASP484 4.9 89.2 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