Calcium in PDB 5xnq: Crystal Structures of Human SALM5

The structure of Crystal Structures of Human SALM5, PDB code: 5xnq was solved by H.Liu, Z.Lin, F.Xu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.88 / 2.80
Space group	P 63 2 2
Cell size a, b, c (Å), α, β, γ (°)	152.601, 152.601, 93.822, 90.00, 90.00, 120.00
R / Rfree (%)	24.8 / 26.9

The structure of Crystal Structures of Human SALM5 also contains other interesting chemical elements:

Chlorine	(Cl)	2 atoms
Sodium	(Na)	3 atoms

The binding sites of Calcium atom in the Crystal Structures of Human SALM5 (pdb code 5xnq). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structures of Human SALM5, PDB code: 5xnq:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Crystal Structures of Human SALM5


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structures of Human SALM5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca705 b:93.3 occ:1.00 O A:ASN205 3.1 72.1 1.0 NZ A:LYS206 3.3 51.8 1.0 O A:GLY239 3.7 61.4 1.0 C A:ASN205 3.9 69.8 1.0 CD A:LYS206 4.0 62.0 1.0 CE A:LYS206 4.0 53.5 1.0 CD A:PRO241 4.4 72.8 1.0 N A:ASN205 4.4 71.8 1.0 C A:SER204 4.6 64.5 1.0 CA A:ASN205 4.6 69.0 1.0 C A:GLY239 4.7 63.2 1.0 N A:LYS206 4.7 72.9 1.0 CA A:SER204 4.9 61.6 1.0 O A:SER204 4.9 69.8 1.0 CA A:LYS206 4.9 71.9 1.0 CA A:ASN240 5.0 68.5 1.0

Calcium binding site 2 out of 4 in the Crystal Structures of Human SALM5


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structures of Human SALM5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca706 b:0.6 occ:1.00 NE2 A:HIS193 4.1 0.7 1.0 CD2 A:HIS193 4.4 0.9 1.0 OG A:SER192 4.7 0.1 1.0 OE2 A:GLU168 4.8 0.1 1.0 O A:GLY189 4.9 0.7 1.0

Calcium binding site 3 out of 4 in the Crystal Structures of Human SALM5


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structures of Human SALM5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca707 b:0.9 occ:1.00 O A:HOH919 2.5 91.6 1.0 NE2 A:HIS127 3.4 74.5 1.0 NH1 A:ARG102 3.4 0.3 1.0 OE1 A:GLU150 4.1 0.1 1.0 CE1 A:HIS127 4.3 71.9 1.0 CZ A:ARG102 4.3 0.9 1.0 CD2 A:HIS127 4.4 73.4 1.0 CD A:ARG102 4.5 96.2 1.0 O A:HOH895 4.7 92.1 1.0 NE A:ARG102 4.7 0.8 1.0 O A:HOH939 4.9 92.3 1.0 ND1 A:HIS126 4.9 96.9 1.0

Calcium binding site 4 out of 4 in the Crystal Structures of Human SALM5


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structures of Human SALM5 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca708 b:0.8 occ:1.00 O A:HOH900 2.9 0.3 1.0 ND1 A:HIS193 3.2 0.6 1.0 NE2 A:HIS195 3.7 0.8 1.0 CE1 A:HIS193 3.9 0.4 1.0 CG A:HIS193 4.3 0.5 1.0 CE1 A:HIS195 4.5 0.0 1.0 CA A:HIS193 4.5 0.1 1.0 CB A:HIS193 4.7 0.2 1.0 CD2 A:HIS195 4.7 0.1 1.0 O A:HIS193 5.0 0.0 1.0

Z.Lin, J.Liu, H.Ding, F.Xu, H.Liu. Structural Basis of SALM5-Induced Ptp Delta Dimerization For Synaptic Differentiation Nat Commun V. 9 268 2018.
ISSN: ESSN 2041-1723
PubMed: 29348579
DOI: 10.1038/S41467-017-02414-2