Sodium in PDB 3wpc: Crystal Structure of Horse TLR9 in Complex with Agonistic DNA1668_12MER

The structure of Crystal Structure of Horse TLR9 in Complex with Agonistic DNA1668_12MER, PDB code: 3wpc was solved by U.Ohto, H.Tanji, T.Shimizu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.49 / 1.60
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	68.762, 81.624, 81.519, 87.50, 83.50, 85.98
R / Rfree (%)	18.4 / 22

The binding sites of Sodium atom in the Crystal Structure of Horse TLR9 in Complex with Agonistic DNA1668_12MER (pdb code 3wpc). 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 Horse TLR9 in Complex with Agonistic DNA1668_12MER, PDB code: 3wpc:

Sodium binding site 1 out of 1 in the Crystal Structure of Horse TLR9 in Complex with Agonistic DNA1668_12MER


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 Horse TLR9 in Complex with Agonistic DNA1668_12MER within 5.0Å range: probe atom residue distance (Å) B Occ B:Na910 b:33.2 occ:1.00 O B:HOH1253 2.0 32.9 1.0 O B:HOH1252 2.3 30.5 1.0 O B:HOH1256 2.5 36.1 1.0 O B:HOH1254 2.5 28.4 1.0 O B:HOH1255 2.5 27.9 1.0 OG1 B:THR598 2.9 23.8 1.0 O B:ALA572 4.0 20.7 1.0 CA B:PRO575 4.0 21.4 1.0 N B:THR598 4.2 18.0 1.0 CB B:THR598 4.2 19.5 1.0 O B:PRO575 4.4 19.1 1.0 CB B:PRO575 4.5 22.9 1.0 O B:HOH1251 4.5 27.9 1.0 CG2 B:THR598 4.6 27.8 1.0 CA B:THR598 4.7 17.2 1.0 C B:PRO575 4.8 21.7 1.0 O B:HOH1250 4.8 26.1 1.0 OG B:SER599 4.8 15.8 1.0 N B:PRO575 4.9 19.3 1.0 N B:SER599 4.9 16.7 1.0 O B:LEU574 4.9 14.5 1.0

U.Ohto, T.Shibata, H.Tanji, H.Ishida, E.Krayukhina, S.Uchiyama, K.Miyake, T.Shimizu. Structural Basis of Cpg and Inhibitory Dna Recognition By Toll-Like Receptor 9 Nature 2015.
ISSN: ESSN 1476-4687
DOI: 10.1038/NATURE14138