Calcium in PDB 8ts0: Crystal Structure of Human ASGR1 Crd (Carbohydrate Recognition Domain) Bound to 8M24 Fab

The structure of Crystal Structure of Human ASGR1 Crd (Carbohydrate Recognition Domain) Bound to 8M24 Fab, PDB code: 8ts0 was solved by P.Sampathkumar, Y.Li, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.05 / 1.70
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	38.911, 90.316, 167.805, 90, 90, 90
R / Rfree (%)	17.3 / 20.5

The binding sites of Calcium atom in the Crystal Structure of Human ASGR1 Crd (Carbohydrate Recognition Domain) Bound to 8M24 Fab (pdb code 8ts0). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Crystal Structure of Human ASGR1 Crd (Carbohydrate Recognition Domain) Bound to 8M24 Fab, PDB code: 8ts0:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Crystal Structure of Human ASGR1 Crd (Carbohydrate Recognition Domain) Bound to 8M24 Fab


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of Human ASGR1 Crd (Carbohydrate Recognition Domain) Bound to 8M24 Fab within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:27.8 occ:1.00 OD1 A:ASP254 2.3 27.4 1.0 O A:HOH466 2.4 25.0 1.0 OD1 A:ASP243 2.4 33.8 1.0 O A:GLU253 2.4 30.4 1.0 O A:HOH461 2.4 39.5 1.0 O A:HOH497 2.5 33.9 1.0 OD2 A:ASP216 2.6 34.5 1.0 OD1 A:ASP216 3.0 37.5 1.0 CG A:ASP216 3.2 28.4 1.0 CG A:ASP243 3.2 32.5 1.0 C A:GLU253 3.4 29.5 1.0 CG A:ASP254 3.5 32.2 1.0 CA A:ASP254 3.8 24.5 1.0 CB A:ASP243 3.8 31.1 1.0 N A:ASP254 4.0 26.3 1.0 OD2 A:ASP243 4.1 34.3 1.0 CB A:ASP254 4.2 24.4 1.0 N A:GLU253 4.2 26.9 1.0 CA A:ASP243 4.4 30.6 1.0 CA A:GLU253 4.4 23.5 1.0 O A:HOH426 4.5 48.5 1.0 O A:HOH509 4.5 36.6 1.0 OD2 A:ASP254 4.5 34.9 1.0 OD2 A:ASP266 4.6 26.2 1.0 CB A:ASP216 4.7 32.0 1.0 O A:HOH449 4.7 40.5 1.0 CZ2 A:TRP221 4.8 22.6 1.0

Calcium binding site 2 out of 3 in the Crystal Structure of Human ASGR1 Crd (Carbohydrate Recognition Domain) Bound to 8M24 Fab


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of Human ASGR1 Crd (Carbohydrate Recognition Domain) Bound to 8M24 Fab within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca302 b:25.4 occ:1.00 OD1 A:ASP266 2.3 24.0 1.0 OE1 A:GLU253 2.4 27.7 1.0 OE1 A:GLN240 2.4 27.1 1.0 OD1 A:ASN265 2.4 23.5 1.0 OD1 A:ASP242 2.4 27.9 1.0 O A:ASP266 2.5 23.3 1.0 O1 A:GOL304 2.5 24.2 1.0 O2 A:GOL304 2.6 31.9 1.0 CG A:ASP266 3.2 24.8 1.0 CD A:GLN240 3.3 34.6 1.0 C2 A:GOL304 3.3 30.6 1.0 CD A:GLU253 3.4 30.7 1.0 CG A:ASP242 3.4 32.8 1.0 CG A:ASN265 3.4 25.5 1.0 C1 A:GOL304 3.5 25.5 1.0 C A:ASP266 3.5 22.8 1.0 NE2 A:GLN240 3.8 37.7 1.0 OE2 A:GLU253 3.8 30.6 1.0 N A:ASP266 3.8 20.3 1.0 ND2 A:ASN265 3.8 24.2 1.0 OD2 A:ASP242 3.8 33.5 1.0 OD2 A:ASP266 3.9 26.2 1.0 CA A:ASP266 4.0 19.8 1.0 N A:ASP242 4.1 28.9 1.0 CB A:ASP266 4.2 21.0 1.0 CG A:GLN240 4.5 26.0 1.0 CG A:GLU253 4.6 27.0 1.0 CB A:ASP242 4.6 29.9 1.0 CB A:GLU253 4.6 27.0 1.0 N A:ASP243 4.7 26.4 1.0 N A:ASP267 4.7 21.5 1.0 CB A:TRP244 4.7 33.7 1.0 CB A:ASN265 4.7 23.6 1.0 C A:ASN265 4.7 20.6 1.0 CA A:ASP242 4.8 28.0 1.0 N A:TRP244 4.8 33.5 1.0 C3 A:GOL304 4.8 41.1 1.0 CB A:GLN240 4.9 24.1 1.0 CA A:ASN265 5.0 21.8 1.0

Calcium binding site 3 out of 3 in the Crystal Structure of Human ASGR1 Crd (Carbohydrate Recognition Domain) Bound to 8M24 Fab


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of Human ASGR1 Crd (Carbohydrate Recognition Domain) Bound to 8M24 Fab within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca303 b:23.6 occ:1.00 O A:VAL191 2.3 21.9 1.0 OE2 A:GLU197 2.3 23.0 1.0 O A:HOH441 2.4 24.9 1.0 OE2 A:GLU278 2.4 25.9 1.0 O A:HOH445 2.4 25.7 1.0 O A:HOH499 2.5 28.5 1.0 OE1 A:GLU278 2.7 22.8 1.0 CD A:GLU278 2.9 24.5 1.0 OE1 A:GLU197 2.9 26.4 1.0 CD A:GLU197 3.0 25.9 1.0 C A:VAL191 3.5 20.3 1.0 OH A:TYR166 4.2 25.0 1.0 CA A:VAL191 4.3 19.0 1.0 O A:HOH451 4.3 43.7 1.0 N A:VAL191 4.3 19.7 1.0 CB A:VAL191 4.3 19.0 1.0 CG A:GLU278 4.4 23.2 1.0 CG A:GLU197 4.5 22.2 1.0 N A:VAL192 4.5 18.1 1.0 OE2 A:GLU280 4.6 41.9 1.0 OG A:SER164 4.6 27.3 1.0 OG1 A:THR193 4.6 27.5 1.0 O A:HOH428 4.6 38.1 1.0 CA A:VAL192 4.7 19.2 1.0 CG1 A:VAL191 4.7 21.7 1.0 CE2 A:TYR166 4.9 19.8 1.0 N A:THR193 5.0 21.1 1.0 CZ A:TYR166 5.0 20.1 1.0

P.Sampathkumar, H.Jung, H.Chen, Z.Zhang, N.Suen, Y.Yang, Z.Huang, T.Lopez, R.Benisch, S.J.Lee, J.Ye, W.C.Yeh, Y.Li. Targeted Protein Degradation Systems to Enhance Wnt Signaling. Elife V. 13 2024.
ISSN: ESSN 2050-084X
PubMed: 38847394
DOI: 10.7554/ELIFE.93908