Sodium in PDB 5l81: Crystal Structure of the pH Domain of Murine Kindlin-3

The structure of Crystal Structure of the pH Domain of Murine Kindlin-3, PDB code: 5l81 was solved by T.Ni, K.Harlos, R.J.C.Gilbert, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	31.73 / 2.23
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	132.040, 36.190, 52.690, 90.00, 90.00, 90.00
R / Rfree (%)	21.9 / 27.1

The binding sites of Sodium atom in the Crystal Structure of the pH Domain of Murine Kindlin-3 (pdb code 5l81). 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 the pH Domain of Murine Kindlin-3, PDB code: 5l81:

Sodium binding site 1 out of 1 in the Crystal Structure of the pH Domain of Murine Kindlin-3


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 the pH Domain of Murine Kindlin-3 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na501 b:13.1 occ:0.00 CD B:PRO361 2.9 81.0 1.0 O B:GLU430 3.0 94.0 1.0 CG B:ARG362 3.4 99.9 1.0 N B:PRO361 3.4 85.3 1.0 N B:ARG362 3.5 72.9 1.0 N B:GLU430 3.6 77.0 1.0 CG B:PRO361 3.6 75.7 1.0 CB B:PRO361 3.8 73.6 1.0 NE B:ARG360 3.9 0.6 1.0 C B:GLU430 4.0 80.0 1.0 CA B:PRO361 4.0 72.9 1.0 NH2 B:ARG360 4.1 0.5 1.0 CD B:ARG362 4.1 0.7 1.0 NE B:ARG362 4.1 0.6 1.0 C B:ARG360 4.1 0.9 1.0 C B:PRO361 4.1 71.8 1.0 CB B:ARG362 4.1 99.7 1.0 CA B:GLU430 4.2 71.7 1.0 CA B:ARG362 4.4 72.2 1.0 CA B:ARG360 4.4 99.5 1.0 CZ B:ARG360 4.4 0.9 1.0 CB B:GLU430 4.4 88.8 1.0 CB B:ARG360 4.6 0.5 1.0 CA B:SER429 4.6 65.2 1.0 C B:SER429 4.6 74.8 1.0 CB B:SER429 4.7 76.9 1.0 CD B:ARG360 4.9 1.0 1.0 O B:ARG360 5.0 0.1 1.0 OG B:SER429 5.0 0.4 1.0 CZ B:ARG362 5.0 0.6 1.0

T.Ni, A.C.Kalli, F.B.Naughton, L.A.Yates, O.Naneh, M.Kozorog, G.Anderluh, M.S.Sansom, R.J.Gilbert. Structure and Lipid-Binding Properties of the Kindlin-3 Pleckstrin Homology Domain. Biochem. J. V. 474 539 2017.
ISSN: ESSN 1470-8728
PubMed: 27974389
DOI: 10.1042/BCJ20160791