Magnesium in PDB 2gk6: Structural and Functional Insights Into the Human UPF1 Helicase Core

The structure of Structural and Functional Insights Into the Human UPF1 Helicase Core, PDB code: 2gk6 was solved by Z.Cheng, D.Muhlrad, R.Parker, H.Song, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.40
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	63.284, 67.836, 87.250, 114.41, 90.13, 110.22
R / Rfree (%)	23.5 / 27.2

The binding sites of Magnesium atom in the Structural and Functional Insights Into the Human UPF1 Helicase Core (pdb code 2gk6). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structural and Functional Insights Into the Human UPF1 Helicase Core, PDB code: 2gk6:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structural and Functional Insights Into the Human UPF1 Helicase Core


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structural and Functional Insights Into the Human UPF1 Helicase Core within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1000 b:55.2 occ:1.00 O1B A:ADP1001 2.3 43.2 1.0 O A:HOH84 2.3 42.4 1.0 OG1 A:THR499 2.5 21.1 1.0 PB A:ADP1001 3.4 42.0 1.0 O2B A:ADP1001 3.5 44.0 1.0 OE1 A:GLU637 3.6 24.5 1.0 CB A:THR499 3.8 20.4 1.0 OD2 A:ASP636 4.2 22.2 1.0 OE1 A:GLN529 4.2 26.2 1.0 O3A A:ADP1001 4.3 45.2 1.0 O2A A:ADP1001 4.4 43.4 1.0 O A:HOH43 4.4 22.4 1.0 N A:THR499 4.5 19.6 1.0 CE A:LYS498 4.5 18.2 1.0 O3B A:ADP1001 4.6 43.6 1.0 CB A:LYS498 4.6 19.4 1.0 CG2 A:THR499 4.6 21.1 1.0 CA A:THR499 4.7 20.0 1.0 CD A:GLU637 4.7 23.5 1.0 PA A:ADP1001 4.8 45.6 1.0 O2 A:PO4990 4.8 41.4 1.0 OD1 A:ASP636 4.9 20.2 1.0 CG A:ASP636 5.0 18.7 1.0

Magnesium binding site 2 out of 2 in the Structural and Functional Insights Into the Human UPF1 Helicase Core


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structural and Functional Insights Into the Human UPF1 Helicase Core within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg2000 b:50.3 occ:1.00 O1B B:ADP1820 2.1 44.6 1.0 OG1 B:THR499 2.2 23.1 1.0 O B:HOH39 2.4 34.2 1.0 PB B:ADP1820 3.3 42.6 1.0 O2B B:ADP1820 3.5 45.0 1.0 CB B:THR499 3.6 21.9 1.0 OE1 B:GLU637 3.9 25.1 1.0 OD2 B:ASP636 4.0 20.6 1.0 N B:THR499 4.1 21.1 1.0 OE1 B:GLN529 4.2 28.0 1.0 O2A B:ADP1820 4.2 46.1 1.0 O3A B:ADP1820 4.2 45.9 1.0 O B:HOH60 4.4 24.9 1.0 CB B:LYS498 4.4 20.9 1.0 O3B B:ADP1820 4.4 44.2 1.0 CA B:THR499 4.4 21.7 1.0 CG2 B:THR499 4.5 22.6 1.0 PA B:ADP1820 4.6 46.7 1.0 CE B:LYS498 4.7 19.2 1.0 O1A B:ADP1820 4.7 47.2 1.0 CD B:GLU637 4.9 23.8 1.0 CG B:ASP636 4.9 18.9 1.0 O B:HOH40 4.9 65.3 1.0 C B:LYS498 5.0 20.9 1.0 OD1 B:ASP636 5.0 18.4 1.0

Z.Cheng, D.Muhlrad, M.K.Lim, R.Parker, H.Song. Structural and Functional Insights Into the Human UPF1 Helicase Core Embo J. V. 26 253 2007.
ISSN: ISSN 0261-4189
PubMed: 17159905
DOI: 10.1038/SJ.EMBOJ.7601464