Calcium in PDB 6a7t: CA2+-Independent C-Type Lectin Spl-1 From Saxidomus Purpuratus

The structure of CA2+-Independent C-Type Lectin Spl-1 From Saxidomus Purpuratus, PDB code: 6a7t was solved by H.Unno, T.Hatakeyama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.21 / 1.60
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	44.301, 72.602, 45.078, 90.00, 95.29, 90.00
R / Rfree (%)	18.4 / 22.7

The binding sites of Calcium atom in the CA2+-Independent C-Type Lectin Spl-1 From Saxidomus Purpuratus (pdb code 6a7t). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the CA2+-Independent C-Type Lectin Spl-1 From Saxidomus Purpuratus, PDB code: 6a7t:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the CA2+-Independent C-Type Lectin Spl-1 From Saxidomus Purpuratus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of CA2+-Independent C-Type Lectin Spl-1 From Saxidomus Purpuratus within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca201 b:11.6 occ:1.00 OE1 A:GLU45 2.3 16.7 1.0 O A:THR43 2.4 9.3 1.0 OE1 A:GLU49 2.4 11.4 1.0 O A:HOH448 2.5 15.6 1.0 O A:HOH439 2.5 11.1 1.0 OE1 A:GLU132 2.5 9.4 1.0 OE2 A:GLU132 2.6 10.5 1.0 OE2 A:GLU49 2.6 14.5 1.0 CD A:GLU49 2.9 13.2 1.0 CD A:GLU132 2.9 9.0 1.0 CD A:GLU45 3.4 18.3 1.0 C A:THR43 3.5 9.8 1.0 OG1 A:THR43 3.5 10.7 1.0 O A:HOH306 3.8 7.4 1.0 OE2 A:GLU45 3.9 18.2 1.0 O A:HOH431 4.0 35.1 1.0 N A:THR43 4.3 7.7 1.0 CA A:THR43 4.3 9.1 1.0 O A:HOH475 4.3 29.7 1.0 OH A:TYR18 4.4 10.7 1.0 CG A:GLU49 4.4 12.8 1.0 N A:VAL44 4.4 11.6 1.0 CG A:GLU132 4.4 8.4 1.0 O A:HOH376 4.5 22.0 1.0 CB A:THR43 4.5 10.2 1.0 N A:GLU45 4.6 14.6 1.0 CA A:VAL44 4.6 12.3 1.0 O A:HOH390 4.7 16.4 1.0 CG A:GLU45 4.7 18.2 1.0 CG2 A:VAL42 4.8 7.4 1.0

Calcium binding site 2 out of 2 in the CA2+-Independent C-Type Lectin Spl-1 From Saxidomus Purpuratus


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of CA2+-Independent C-Type Lectin Spl-1 From Saxidomus Purpuratus within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca201 b:10.6 occ:1.00 O B:THR44 2.3 8.6 1.0 OE1 B:GLU46 2.4 12.5 1.0 O B:HOH429 2.4 11.9 1.0 OE2 B:GLU50 2.4 12.1 1.0 OE2 B:GLU133 2.4 12.0 1.0 O B:HOH340 2.5 12.8 1.0 OE1 B:GLU50 2.8 12.2 1.0 OE1 B:GLU133 2.8 12.6 1.0 CD B:GLU50 2.9 11.5 1.0 CD B:GLU133 2.9 12.3 1.0 CD B:GLU46 3.4 12.9 1.0 C B:THR44 3.5 8.2 1.0 OG1 B:THR44 3.7 12.0 1.0 OE2 B:GLU46 3.8 18.6 1.0 OH B:TYR19 4.3 11.3 1.0 N B:VAL45 4.4 8.1 1.0 CA B:THR44 4.4 9.6 1.0 N B:THR44 4.4 9.3 1.0 CG B:GLU50 4.4 10.8 1.0 CA B:VAL45 4.4 9.0 1.0 CG B:GLU133 4.5 11.7 1.0 N B:GLU46 4.5 10.7 1.0 O A:HOH449 4.5 20.2 1.0 OG B:SER17 4.5 14.2 1.0 CB B:THR44 4.7 10.9 1.0 CG B:GLU46 4.7 12.7 1.0 O B:HOH351 4.8 23.7 1.0 CG2 B:VAL43 4.8 9.2 1.0 O B:HOH324 4.9 16.9 1.0 CD A:LYS3 5.0 26.5 1.0 C B:VAL45 5.0 10.5 1.0 CB B:GLU46 5.0 11.8 1.0

H.Unno, S.Itakura, S.Higuchi, S.Goda, K.Yamaguchi, T.Hatakeyama. Novel CA2+-Independent Carbohydrate Recognition of the C-Type Lectins, Spl-1 and Spl-2, From the Bivalve Saxidomus Purpuratus. Protein Sci. V. 28 766 2019.
ISSN: ESSN 1469-896X
PubMed: 30793424
DOI: 10.1002/PRO.3592