Sodium in PDB 4x9b: Crystal Structure of DSCAM1 Isoform 4.44, N-Terminal Four Ig Domains

The structure of Crystal Structure of DSCAM1 Isoform 4.44, N-Terminal Four Ig Domains, PDB code: 4x9b was solved by Q.Chen, Y.Yu, S.A.Li, L.Cheng, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.85 / 2.20
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	88.902, 59.815, 89.560, 90.00, 109.06, 90.00
R / Rfree (%)	20.8 / 26.1

The binding sites of Sodium atom in the Crystal Structure of DSCAM1 Isoform 4.44, N-Terminal Four Ig Domains (pdb code 4x9b). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of DSCAM1 Isoform 4.44, N-Terminal Four Ig Domains, PDB code: 4x9b:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of DSCAM1 Isoform 4.44, N-Terminal Four Ig Domains


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 DSCAM1 Isoform 4.44, N-Terminal Four Ig Domains within 5.0Å range: probe atom residue distance (Å) B Occ A:Na406 b:66.5 occ:1.00 O A:HOH550 3.1 38.5 1.0 O A:GLU384 3.2 21.8 1.0 O A:HOH611 3.2 29.2 1.0 OE2 A:GLU384 3.3 25.0 1.0 O A:HOH641 3.5 48.9 1.0 OE2 A:GLU9 3.5 44.6 1.0 O A:HOH597 3.9 28.6 1.0 CD A:GLU384 4.0 26.1 1.0 C A:GLU384 4.3 21.6 1.0 CD A:GLU9 4.3 33.9 1.0 OE1 A:GLU384 4.4 25.6 1.0 CA A:ALA385 4.4 27.5 1.0 NA A:NA407 4.5 48.0 1.0 O A:ALA314 4.5 22.9 1.0 N A:ALA385 4.8 24.8 1.0 CG A:GLU9 4.9 40.0 1.0 OE1 A:GLU9 5.0 37.6 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of DSCAM1 Isoform 4.44, N-Terminal Four Ig Domains


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of DSCAM1 Isoform 4.44, N-Terminal Four Ig Domains within 5.0Å range: probe atom residue distance (Å) B Occ A:Na407 b:48.0 occ:1.00 OE2 A:GLU9 2.5 44.6 1.0 O A:HOH597 2.8 28.6 1.0 N A:GLU384 3.2 24.1 1.0 CD A:GLU9 3.3 33.9 1.0 OE1 A:GLU9 3.5 37.6 1.0 CA A:ALA383 3.6 20.7 1.0 O A:GLU384 3.6 21.8 1.0 CB A:ALA383 3.7 21.9 1.0 CD A:ARG94 3.8 29.6 1.0 C A:ALA383 3.9 21.6 1.0 NE A:ARG94 4.1 45.2 1.0 CB A:ARG94 4.1 28.0 1.0 CG A:GLU384 4.1 22.2 1.0 NH1 A:ARG94 4.1 36.5 1.0 CA A:GLU384 4.2 24.9 1.0 CZ A:ARG94 4.2 52.6 1.0 OE2 A:GLU384 4.3 25.0 1.0 CG A:ARG94 4.3 28.7 1.0 C A:GLU384 4.3 21.6 1.0 NA A:NA406 4.5 66.5 1.0 CD A:GLU384 4.6 26.1 1.0 CB A:GLU384 4.7 25.3 1.0 CG A:GLU9 4.7 40.0 1.0 O A:SER382 4.8 15.7 1.0 N A:ALA383 4.9 18.4 1.0

S.A.Li, L.Cheng, Y.Yu, Q.Chen. Structural Basis of DSCAM1 Homodimerization: Insights Into Context Constraint For Protein Recognition Sci Adv V. 2 01118 2016.
ISSN: ESSN 2375-2548
PubMed: 27386517
DOI: 10.1126/SCIADV.1501118