Magnesium in PDB 3hiy: Minor Editosome-Associated Tutase 1 with Bound Utp and Mg

The structure of Minor Editosome-Associated Tutase 1 with Bound Utp and Mg, PDB code: 3hiy was solved by J.Stagno, H.Luecke, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.71 / 2.30
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	63.093, 103.024, 63.041, 90.00, 111.01, 90.00
R / Rfree (%)	19.8 / 24.8

The binding sites of Magnesium atom in the Minor Editosome-Associated Tutase 1 with Bound Utp and Mg (pdb code 3hiy). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Minor Editosome-Associated Tutase 1 with Bound Utp and Mg, PDB code: 3hiy:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Minor Editosome-Associated Tutase 1 with Bound Utp and Mg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Minor Editosome-Associated Tutase 1 with Bound Utp and Mg within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:29.7 occ:1.00 OD1 A:ASP65 2.0 30.8 1.0 O3G A:UTP501 2.2 39.4 1.0 O1A A:UTP501 2.3 36.5 1.0 O1B A:UTP501 2.3 32.4 1.0 OD2 A:ASP67 2.5 28.7 1.0 CG A:ASP65 3.3 29.1 1.0 PB A:UTP501 3.4 34.1 1.0 PG A:UTP501 3.4 37.5 1.0 CG A:ASP67 3.5 26.2 1.0 O A:ASP65 3.6 25.8 1.0 PA A:UTP501 3.6 37.8 1.0 OG A:SER54 3.6 25.5 1.0 O A:HOH416 3.7 25.8 1.0 O A:HOH424 3.7 31.3 1.0 O3B A:UTP501 3.7 38.9 1.0 OD1 A:ASP67 3.8 26.5 1.0 N A:SER54 3.8 22.6 1.0 OD2 A:ASP65 3.9 30.2 1.0 O3A A:UTP501 3.9 34.1 1.0 O2G A:UTP501 3.9 36.6 1.0 C A:ASP65 4.1 26.8 1.0 C5' A:UTP501 4.1 36.2 1.0 N A:ASP65 4.3 30.0 1.0 CA A:GLY53 4.3 20.6 1.0 O A:HOH395 4.3 24.5 1.0 O5' A:UTP501 4.3 37.0 1.0 CB A:ASP65 4.5 28.3 1.0 CA A:ASP65 4.5 28.0 1.0 CB A:SER54 4.6 23.7 1.0 C A:GLY53 4.6 21.3 1.0 O1G A:UTP501 4.7 37.7 1.0 O2B A:UTP501 4.8 35.6 1.0 O2A A:UTP501 4.8 37.1 1.0 CA A:SER54 4.8 23.6 1.0 CB A:ASP67 4.8 24.8 1.0 N A:ASP67 4.8 24.6 1.0 N A:ALA66 4.9 25.9 1.0 CB A:SER64 5.0 33.6 1.0

Magnesium binding site 2 out of 2 in the Minor Editosome-Associated Tutase 1 with Bound Utp and Mg


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Minor Editosome-Associated Tutase 1 with Bound Utp and Mg within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg402 b:34.8 occ:1.00 O B:HOH457 2.0 36.5 1.0 O1A B:UTP502 2.1 38.7 1.0 O3G B:UTP502 2.1 37.6 1.0 OD1 B:ASP65 2.1 30.6 1.0 O1B B:UTP502 2.2 35.2 1.0 OD2 B:ASP67 2.4 28.3 1.0 PA B:UTP502 3.2 39.5 1.0 PB B:UTP502 3.3 34.0 1.0 CG B:ASP65 3.3 29.1 1.0 CG B:ASP67 3.3 26.1 1.0 O5' B:UTP502 3.4 40.4 1.0 PG B:UTP502 3.4 35.4 1.0 OD1 B:ASP67 3.5 27.1 1.0 O3A B:UTP502 3.6 36.1 1.0 O3B B:UTP502 3.7 37.7 1.0 OD2 B:ASP65 3.7 30.2 1.0 O B:ASP65 3.8 25.6 1.0 OG B:SER54 3.9 25.3 1.0 O B:HOH437 4.0 25.3 1.0 N B:SER54 4.0 22.9 1.0 O B:HOH440 4.1 26.5 1.0 O2G B:UTP502 4.2 33.9 1.0 CA B:GLY53 4.4 20.6 1.0 C B:ASP65 4.4 26.8 1.0 O1G B:UTP502 4.5 34.9 1.0 O2A B:UTP502 4.5 40.9 1.0 N B:ASP65 4.6 30.0 1.0 CB B:ASP65 4.6 28.2 1.0 O2B B:UTP502 4.6 37.0 1.0 CB B:ASP67 4.7 24.8 1.0 C5' B:UTP502 4.7 40.2 1.0 CA B:ASP65 4.7 28.0 1.0 C B:GLY53 4.7 21.4 1.0 CB B:SER54 4.8 23.7 1.0 N B:ASP67 4.9 24.8 1.0

J.Stagno, I.Aphasizheva, J.Bruystens, H.Luecke, R.Aphasizhev. Structure of the Mitochondrial Editosome-Like Complex Associated Tutase 1 Reveals Divergent Mechanisms of Utp Selection and Domain Organization. J.Mol.Biol. V. 399 464 2010.
ISSN: ISSN 0022-2836
PubMed: 20403364
DOI: 10.1016/J.JMB.2010.04.021