Sodium in PDB 6f1d: CUB2 Domain of C1R

All present enzymatic activity of CUB2 Domain of C1R:
3.4.21.41;

The structure of CUB2 Domain of C1R, PDB code: 6f1d was solved by J.O.M.Almitairi, U.Venkatraman Girija, C.M.Furze, X.Simpson-Gray, F.Badakshi, J.E.Marshall, D.A.Mitchell, P.C.E.Moody, R.Wallis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.54 / 1.95
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	44.688, 50.459, 69.209, 90.00, 90.00, 90.00
R / Rfree (%)	17.3 / 20.2

The structure of CUB2 Domain of C1R also contains other interesting chemical elements:

Calcium

(Ca)

1 atom

The binding sites of Sodium atom in the CUB2 Domain of C1R (pdb code 6f1d). 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 CUB2 Domain of C1R, PDB code: 6f1d:

Sodium binding site 1 out of 1 in the CUB2 Domain of C1R


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of CUB2 Domain of C1R within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:25.2 occ:1.00 O A:LEU191 2.7 20.4 1.0 OG A:SER190 2.8 19.9 1.0 O A:ARG195 3.0 37.4 1.0 O A:ARG279 3.1 24.3 1.0 N A:TYR193 3.2 18.8 1.0 CA A:TYR193 3.4 17.8 1.0 CB A:TYR197 3.4 20.4 1.0 N A:TYR197 3.5 18.8 1.0 CB A:SER190 3.6 19.8 1.0 C A:LEU191 3.6 22.8 1.0 CA A:TYR197 3.7 15.0 1.0 C A:GLU192 3.7 27.1 1.0 O A:SER190 3.7 18.9 1.0 CB A:TYR193 3.8 18.7 1.0 C A:SER190 3.8 18.1 1.0 CA A:GLY280 3.9 16.1 1.0 C A:ARG279 3.9 18.7 1.0 CD2 A:TYR197 4.0 13.1 1.0 C A:SER196 4.1 20.2 1.0 O A:GLU192 4.1 35.6 1.0 N A:LEU191 4.1 18.9 1.0 CG A:TYR197 4.2 16.9 1.0 C A:ARG195 4.3 34.5 1.0 CA A:SER190 4.3 17.1 1.0 N A:GLU192 4.3 21.8 1.0 N A:GLY280 4.3 18.0 1.0 CA A:GLU192 4.4 26.0 1.0 CA A:LEU191 4.5 20.5 1.0 O A:SER196 4.6 21.9 1.0 CD1 A:TYR193 4.6 16.4 1.0 CG A:TYR193 4.7 16.8 1.0 CB A:GLU192 4.7 27.1 1.0 O A:SER278 4.8 20.6 1.0 CA A:SER196 4.8 19.2 1.0 C A:TYR193 4.8 19.0 1.0 C A:GLY280 4.9 15.5 1.0 N A:TRP281 4.9 16.9 1.0 N A:ARG195 4.9 23.8 1.0 N A:SER190 5.0 14.2 1.0

J.O.M.Almitairi, U.Venkatraman Girija, C.M.Furze, X.Simpson-Gray, F.Badakshi, J.E.Marshall, W.J.Schwaeble, D.A.Mitchell, P.C.E.Moody, R.Wallis. Structure of the C1R-C1S Interaction of the C1 Complex of Complement Activation. Proc. Natl. Acad. Sci. V. 115 768 2018U.S.A..
ISSN: ESSN 1091-6490
PubMed: 29311313
DOI: 10.1073/PNAS.1718709115