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Sodium in PDB 6pd9: Crystal Structure of Myst Acetyltransferase Domain in Complex with Inhibitor 60

Enzymatic activity of Crystal Structure of Myst Acetyltransferase Domain in Complex with Inhibitor 60

All present enzymatic activity of Crystal Structure of Myst Acetyltransferase Domain in Complex with Inhibitor 60:
2.3.1.48;

Protein crystallography data

The structure of Crystal Structure of Myst Acetyltransferase Domain in Complex with Inhibitor 60, PDB code: 6pd9 was solved by S.J.Hermans, M.W.Parker, T.Thomas, J.B.Baell, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.15 / 2.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 46.150, 57.706, 121.715, 90.00, 90.00, 90.00
R / Rfree (%) 21.2 / 26.7

Other elements in 6pd9:

The structure of Crystal Structure of Myst Acetyltransferase Domain in Complex with Inhibitor 60 also contains other interesting chemical elements:

Fluorine (F) 1 atom
Zinc (Zn) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Myst Acetyltransferase Domain in Complex with Inhibitor 60 (pdb code 6pd9). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of Myst Acetyltransferase Domain in Complex with Inhibitor 60, PDB code: 6pd9:

Sodium binding site 1 out of 1 in 6pd9

Go back to Sodium Binding Sites List in 6pd9
Sodium binding site 1 out of 1 in the Crystal Structure of Myst Acetyltransferase Domain in Complex with Inhibitor 60


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Myst Acetyltransferase Domain in Complex with Inhibitor 60 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na802

b:29.1
occ:1.00
 O A:HOH906 2.9 34.0 1.0
O A:HOH902 3.3 27.2 1.0
N A:ASP520 3.3 31.7 1.0
CA A:ILE519 3.8 29.1 1.0
CG2 A:ILE519 4.0 30.2 1.0
C A:ILE519 4.1 32.9 1.0
CB A:ASP520 4.1 31.4 1.0
OD2 A:ASP520 4.1 39.3 1.0
CG A:ASP520 4.2 37.3 1.0
CA A:ASP520 4.3 34.8 1.0
O A:GLU518 4.3 39.5 1.0
CB A:ILE519 4.5 29.3 1.0
O A:ASP520 4.6 36.3 1.0
N A:ILE519 4.9 30.9 1.0
OD1 A:ASP520 4.9 40.4 1.0
C A:ASP520 5.0 36.0 1.0

Reference:

D.L.Priebbenow, D.J.Leaver, N.Nguyen, B.Cleary, H.R.Lagiakos, J.Sanchez, L.Xue, F.Huang, Y.Sun, P.Mujumdar, R.Mudududdla, S.Varghese, S.Teguh, S.A.Charman, K.L.White, D.M.Shackleford, K.Katneni, M.Cuellar, J.M.Strasser, J.L.Dahlin, M.A.Walters, I.P.Street, B.J.Monahan, K.E.Jarman, H.Jousset Sabroux, H.Falk, M.C.Chung, S.J.Hermans, N.L.Downer, M.W.Parker, A.K.Voss, T.Thomas, J.B.Baell. Discovery of Acylsulfonohydrazide-Derived Inhibitors of the Lysine Acetyltransferase, KAT6A, As Potent Senescence-Inducing Anti-Cancer Agents. J.Med.Chem. 2020.
ISSN: ISSN 0022-2623
PubMed: 32118427
DOI: 10.1021/ACS.JMEDCHEM.9B02071
Page generated: Tue Oct 8 12:42:42 2024

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