Calcium in PDB 4oul: Crystal Structure of Human Caprin-2 C1Q Domain

The structure of Crystal Structure of Human Caprin-2 C1Q Domain, PDB code: 4oul was solved by X.Song, L.Li, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.90 / 1.95
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	48.353, 48.342, 80.884, 89.51, 87.24, 71.74
R / Rfree (%)	20.3 / 25.1

The binding sites of Calcium atom in the Crystal Structure of Human Caprin-2 C1Q Domain (pdb code 4oul). 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 Structure of Human Caprin-2 C1Q Domain, PDB code: 4oul:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Crystal Structure of Human Caprin-2 C1Q Domain


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 Caprin-2 C1Q Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1201 b:24.7 occ:1.00 OE2 C:GLU1084 2.4 28.9 1.0 O A:HOH1303 2.5 20.9 1.0 O C:HOH1203 2.5 23.8 1.0 O B:HOH1303 2.5 27.3 1.0 OE2 B:GLU1084 2.5 25.4 1.0 OE2 A:GLU1084 2.6 27.3 1.0 OE1 C:GLU1084 2.6 34.7 1.0 OE1 A:GLU1084 2.7 30.6 1.0 OE1 B:GLU1084 2.8 33.6 1.0 CD C:GLU1084 2.8 32.0 1.0 CD B:GLU1084 3.0 32.2 1.0 CD A:GLU1084 3.0 29.2 1.0 O B:HOH1320 4.1 37.5 1.0 CG C:GLU1084 4.3 31.6 1.0 CG B:GLU1084 4.4 34.4 1.0 CG A:GLU1084 4.5 29.3 1.0 O C:HOH1206 4.5 26.8 1.0 O A:HOH1307 4.5 22.9 1.0 O B:HOH1307 4.5 25.9 1.0 O B:HOH1328 4.6 30.0 1.0 O A:HOH1321 4.6 37.9 1.0 O B:HOH1304 4.6 27.3 1.0 O A:HOH1305 4.7 22.0 1.0 O C:HOH1218 4.8 33.8 1.0 O C:THR1085 4.8 25.6 1.0 O A:THR1085 4.8 20.2 1.0 O B:THR1085 4.8 25.5 1.0 N C:THR1085 4.9 24.2 1.0 N B:THR1085 4.9 24.1 1.0 N A:THR1085 4.9 25.6 1.0

Calcium binding site 2 out of 4 in the Crystal Structure of Human Caprin-2 C1Q Domain


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 Caprin-2 C1Q Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1201 b:38.2 occ:1.00 OD1 B:ASP1078 2.3 33.3 1.0 O A:HOH1321 2.4 37.9 1.0 OD1 A:ASP1078 2.4 33.8 1.0 OD1 C:ASP1078 2.5 39.7 1.0 O B:HOH1327 2.6 37.3 1.0 O C:HOH1218 2.7 33.8 1.0 CG B:ASP1078 3.5 40.0 1.0 CG A:ASP1078 3.5 37.3 1.0 CG C:ASP1078 3.6 42.6 1.0 CB A:ASP1078 4.1 33.5 1.0 CB B:ASP1078 4.1 33.7 1.0 CB C:ASP1078 4.1 34.5 1.0 OD2 B:ASP1078 4.5 43.3 1.0 OE1 C:GLU1084 4.5 34.7 1.0 OD2 A:ASP1078 4.6 41.0 1.0 OE2 A:GLU1084 4.6 27.3 1.0 CA A:ASP1078 4.7 29.1 1.0 CA B:ASP1078 4.7 36.9 1.0 OD2 C:ASP1078 4.7 40.7 1.0 O C:ASN1077 4.7 31.6 1.0 O B:ASN1077 4.7 34.5 1.0 OE1 B:GLU1084 4.7 33.6 1.0 CA C:ASP1078 4.7 36.6 1.0 O A:ASN1077 4.8 25.6 1.0

Calcium binding site 3 out of 4 in the Crystal Structure of Human Caprin-2 C1Q Domain


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 Caprin-2 C1Q Domain within 5.0Å range: probe atom residue distance (Å) B Occ D:Ca1201 b:26.7 occ:1.00 O E:HOH1324 2.4 23.8 1.0 O E:HOH1305 2.4 22.4 1.0 OE2 F:GLU1084 2.5 33.5 1.0 OE2 E:GLU1084 2.5 29.2 1.0 OE1 F:GLU1084 2.5 34.0 1.0 O D:HOH1306 2.6 27.8 1.0 OE1 E:GLU1084 2.6 29.1 1.0 OE2 D:GLU1084 2.7 33.1 1.0 CD F:GLU1084 2.8 32.4 1.0 CD E:GLU1084 2.8 30.4 1.0 OE1 D:GLU1084 2.9 35.8 1.0 CD D:GLU1084 3.1 37.4 1.0 O F:HOH1214 3.7 23.5 1.0 CG F:GLU1084 4.2 27.1 1.0 CG E:GLU1084 4.3 29.4 1.0 O E:HOH1307 4.5 27.9 1.0 O F:HOH1202 4.5 25.4 1.0 O D:HOH1324 4.5 28.5 1.0 CG D:GLU1084 4.6 31.0 1.0 O D:HOH1304 4.7 24.8 1.0 O E:THR1085 4.7 23.8 1.0 O F:THR1085 4.8 22.6 1.0 O E:HOH1303 4.8 26.6 1.0 O E:HOH1315 4.8 31.0 1.0 N E:THR1085 4.8 30.3 1.0 O D:THR1085 4.8 28.1 1.0 N F:THR1085 4.9 26.1 1.0 O E:HOH1328 5.0 43.4 1.0

Calcium binding site 4 out of 4 in the Crystal Structure of Human Caprin-2 C1Q Domain


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of Human Caprin-2 C1Q Domain within 5.0Å range: probe atom residue distance (Å) B Occ E:Ca1201 b:55.8 occ:1.00 O F:HOH1208 2.3 34.2 1.0 OD1 F:ASP1078 2.4 48.7 1.0 O E:HOH1328 2.5 43.4 1.0 O F:HOH1214 2.5 23.5 1.0 OD2 D:ASP1078 2.9 49.9 1.0 OD1 E:ASP1078 3.0 50.9 1.0 CG F:ASP1078 3.3 51.6 1.0 CG E:ASP1078 3.4 44.5 1.0 CB E:ASP1078 4.0 44.3 1.0 OD2 E:ASP1078 4.0 48.5 1.0 CG D:ASP1078 4.0 49.0 1.0 OD2 F:ASP1078 4.1 54.8 1.0 CB F:ASP1078 4.1 43.7 1.0 OE1 F:GLU1084 4.4 34.0 1.0 O F:ASN1077 4.5 39.3 1.0 CB D:ASP1078 4.6 42.6 1.0 OE1 E:GLU1084 4.6 29.1 1.0 CA F:ASP1078 4.6 40.2 1.0 CA E:ASP1078 4.6 43.0 1.0 OE2 D:GLU1084 4.7 33.1 1.0 O E:ASN1077 4.7 34.0 1.0 O D:ASN1077 4.9 28.2 1.0

H.Miao, Y.Jia, S.Xie, X.Wang, J.Zhao, Y.Chu, Z.Zhou, Z.Shi, X.Song, L.Li. Structural Insights Into the C1Q Domain of Caprin-2 in Canonical Wnt Signaling J.Biol.Chem. 2014.
ISSN: ESSN 1083-351X
DOI: 10.1074/JBC.M114.591636