Magnesium in PDB 8szs: Cat DHX9 Bound to Gdp

The structure of Cat DHX9 Bound to Gdp, PDB code: 8szs was solved by Y.-T.Lee, E.A.Sickmier, P.A.Boriack-Sjodin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.03 / 2.38
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	86.11, 86.11, 347.24, 90, 90, 90
R / Rfree (%)	21.8 / 26.5

The binding sites of Magnesium atom in the Cat DHX9 Bound to Gdp (pdb code 8szs). 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 Cat DHX9 Bound to Gdp, PDB code: 8szs:

Magnesium binding site 1 out of 1 in the Cat DHX9 Bound to Gdp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Cat DHX9 Bound to Gdp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1302 b:39.8 occ:1.00 O A:HOH1429 2.0 37.5 1.0 OG1 A:THR419 2.0 38.1 1.0 O A:HOH1406 2.0 35.1 1.0 O A:HOH1411 2.0 35.1 1.0 O2B A:GDP1301 2.0 41.6 1.0 OE2 A:GLU513 2.0 44.1 1.0 CD A:GLU513 3.1 45.1 1.0 CB A:THR419 3.1 39.5 1.0 PB A:GDP1301 3.3 40.4 1.0 OE1 A:GLU513 3.5 44.8 1.0 O3B A:GDP1301 3.6 41.0 1.0 OD2 A:ASP512 3.9 41.9 1.0 OD1 A:ASP512 3.9 43.6 1.0 N A:THR419 4.0 39.2 1.0 O A:HOH1428 4.0 38.8 1.0 CA A:THR419 4.0 39.3 1.0 O2A A:GDP1301 4.1 43.8 1.0 CG2 A:THR419 4.1 40.2 1.0 O A:SER720 4.1 49.7 1.0 O1B A:GDP1301 4.2 39.0 1.0 CG A:ASP512 4.3 41.8 1.0 O A:THR719 4.3 45.3 1.0 O3A A:GDP1301 4.4 42.2 1.0 CG A:GLU513 4.4 43.9 1.0 O A:HOH1464 4.6 44.0 1.0 NZ A:LYS418 4.7 42.2 1.0 PA A:GDP1301 4.7 41.5 1.0 CE A:LYS418 4.9 42.0 1.0 CA A:SER720 4.9 51.1 1.0 CB A:LYS418 4.9 42.1 1.0 C A:SER720 4.9 50.8 1.0 O A:HOH1422 5.0 52.2 1.0

D.Gotur, A.Case, J.Liu, E.A.Sickmier, N.Holt, K.E.Knockenhauer, S.Yao, Y.T.Lee, R.A.Copeland, S.M.Buker, P.A.Boriack-Sjodin. Development of Assays to Support Identification and Characterization of Modulators of Dexh-Box Helicase DHX9. Slas Discov 2023.
ISSN: ESSN 2472-5560
PubMed: 37625785
DOI: 10.1016/J.SLASD.2023.08.006