Sodium in PDB 4jt9: Crystal Structure of Human SIRT3 with Elt Inhibitor 3 [14-(4-{2- [(Methylsulfonyl)Amino]Ethyl}Piperidin-1-Yl)Thieno[3,2-D]Pyrimidine- 6-Carboxamide]

The structure of Crystal Structure of Human SIRT3 with Elt Inhibitor 3 [14-(4-{2- [(Methylsulfonyl)Amino]Ethyl}Piperidin-1-Yl)Thieno[3,2-D]Pyrimidine- 6-Carboxamide], PDB code: 4jt9 was solved by H.Dai, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.43 / 2.24
Space group	P 65
Cell size a, b, c (Å), α, β, γ (°)	120.464, 120.464, 44.468, 90.00, 90.00, 120.00
R / Rfree (%)	19.7 / 24.7

The structure of Crystal Structure of Human SIRT3 with Elt Inhibitor 3 [14-(4-{2- [(Methylsulfonyl)Amino]Ethyl}Piperidin-1-Yl)Thieno[3,2-D]Pyrimidine- 6-Carboxamide] also contains other interesting chemical elements:

Zinc

(Zn)

1 atom

The binding sites of Sodium atom in the Crystal Structure of Human SIRT3 with Elt Inhibitor 3 [14-(4-{2- [(Methylsulfonyl)Amino]Ethyl}Piperidin-1-Yl)Thieno[3,2-D]Pyrimidine- 6-Carboxamide] (pdb code 4jt9). 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 Human SIRT3 with Elt Inhibitor 3 [14-(4-{2- [(Methylsulfonyl)Amino]Ethyl}Piperidin-1-Yl)Thieno[3,2-D]Pyrimidine- 6-Carboxamide], PDB code: 4jt9:

Sodium binding site 1 out of 1 in the Crystal Structure of Human SIRT3 with Elt Inhibitor 3 [14-(4-{2- [(Methylsulfonyl)Amino]Ethyl}Piperidin-1-Yl)Thieno[3,2-D]Pyrimidine- 6-Carboxamide]


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 Human SIRT3 with Elt Inhibitor 3 [14-(4-{2- [(Methylsulfonyl)Amino]Ethyl}Piperidin-1-Yl)Thieno[3,2-D]Pyrimidine- 6-Carboxamide] within 5.0Å range: probe atom residue distance (Å) B Occ A:Na405 b:37.6 occ:1.00 O A:HOH653 2.1 52.0 1.0 NE2 A:HIS187 2.8 42.9 1.0 O A:HOH629 2.8 45.6 1.0 O A:HOH628 2.8 47.2 1.0 CD2 A:HIS187 3.5 40.9 1.0 CE1 A:HIS187 3.8 43.3 1.0 CG A:HIS187 4.7 38.7 1.0 CB A:ASN188 4.7 31.0 1.0 ND1 A:HIS187 4.8 41.6 1.0 ND2 A:ASN188 4.9 30.1 1.0

J.S.Disch, G.Evindar, C.H.Chiu, C.A.Blum, H.Dai, L.Jin, E.Schuman, K.E.Lind, S.L.Belyanskaya, J.Deng, F.Coppo, L.Aquilani, T.L.Graybill, J.W.Cuozzo, S.Lavu, C.Mao, G.P.Vlasuk, R.B.Perni. Discovery of Thieno[3,2-D]Pyrimidine-6-Carboxamides As Potent Inhibitors of SIRT1, SIRT2, and SIRT3. J.Med.Chem. V. 56 3666 2013.
ISSN: ISSN 0022-2623
PubMed: 23570514
DOI: 10.1021/JM400204K