Sodium in PDB 5ci9: Crystal Structure of Human Tob in Complex with Inhibitor Fragment 6

The structure of Crystal Structure of Human Tob in Complex with Inhibitor Fragment 6, PDB code: 5ci9 was solved by Y.Bai, S.Tashiro, S.Nagatoishi, T.Suzuki, K.Tsumoto, M.Bartlam, T.Yamamoto, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.12 / 2.30
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	65.119, 65.119, 162.945, 90.00, 90.00, 120.00
R / Rfree (%)	21.4 / 26.4

The binding sites of Sodium atom in the Crystal Structure of Human Tob in Complex with Inhibitor Fragment 6 (pdb code 5ci9). 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 Tob in Complex with Inhibitor Fragment 6, PDB code: 5ci9:

Sodium binding site 1 out of 1 in the Crystal Structure of Human Tob in Complex with Inhibitor Fragment 6


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 Tob in Complex with Inhibitor Fragment 6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na403 b:51.2 occ:1.00 O A:HOH505 2.1 71.2 1.0 CG A:ARG23 2.4 95.4 1.0 NH1 A:ARG24 2.8 70.7 1.0 CD A:ARG23 2.8 0.7 1.0 CB A:PRO21 3.5 71.1 1.0 CZ A:ARG24 3.7 79.2 1.0 NH2 A:ARG24 3.7 68.0 1.0 CB A:ARG23 3.9 79.7 1.0 N A:ARG23 4.1 75.9 1.0 CA A:PRO21 4.3 68.8 1.0 NE A:ARG23 4.3 0.2 1.0 C A:PRO21 4.4 65.3 1.0 N A:ARG22 4.4 65.1 1.0 CA A:ARG23 4.5 69.8 1.0 N A:ARG24 4.7 63.3 1.0 CG A:PRO21 4.7 76.7 1.0 O A:PRO21 4.9 63.0 1.0 NE A:ARG24 5.0 85.2 1.0

Y.Bai, S.Tashiro, S.Nagatoishi, T.Suzuki, D.Yan, R.Liu, K.Tsumoto, M.Bartlam, T.Yamamoto. Structural Basis For Inhibition of the Tob-CNOT7 Interaction By A Fragment Screening Approach Protein Cell V. 6 924 2015.
ISSN: ESSN 1674-8018
PubMed: 26518565
DOI: 10.1007/S13238-015-0225-6