Calcium in PDB 3ef7: Zp-N Domain of Mammalian Sperm Receptor ZP3 (Crystal Form III)

The structure of Zp-N Domain of Mammalian Sperm Receptor ZP3 (Crystal Form III), PDB code: 3ef7 was solved by M.Monne, L.Jovine, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	33.16 / 3.10
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	86.200, 98.580, 143.680, 90.00, 90.00, 90.00
R / Rfree (%)	20.8 / 25.6

The structure of Zp-N Domain of Mammalian Sperm Receptor ZP3 (Crystal Form III) also contains other interesting chemical elements:

Zinc

(Zn)

13 atoms

The binding sites of Calcium atom in the Zp-N Domain of Mammalian Sperm Receptor ZP3 (Crystal Form III) (pdb code 3ef7). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Zp-N Domain of Mammalian Sperm Receptor ZP3 (Crystal Form III), PDB code: 3ef7:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Zp-N Domain of Mammalian Sperm Receptor ZP3 (Crystal Form III)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Zp-N Domain of Mammalian Sperm Receptor ZP3 (Crystal Form III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca487 b:99.2 occ:1.00 OD1 A:ASP185 2.4 0.6 1.0 OE1 A:GLN366 2.4 94.5 1.0 O A:VAL182 2.4 82.4 1.0 OD2 A:ASP185 2.8 0.2 1.0 CG A:ASP185 2.9 0.1 1.0 CD A:GLN366 3.5 95.3 1.0 C A:VAL182 3.6 75.8 1.0 N A:VAL182 4.1 83.2 1.0 NE2 A:GLN366 4.2 98.5 1.0 CA A:VAL182 4.4 75.0 1.0 CB A:ASP185 4.4 89.7 1.0 CG A:GLN366 4.5 92.1 1.0 OD1 A:ASP181 4.5 0.1 1.0 N A:GLY183 4.6 67.8 1.0 CB A:VAL182 4.8 67.3 1.0 CA A:GLY183 4.8 66.0 1.0 CB A:GLN366 4.9 82.7 1.0 N A:ASP185 4.9 71.3 1.0 C A:ASP181 5.0 89.2 1.0

Calcium binding site 2 out of 4 in the Zp-N Domain of Mammalian Sperm Receptor ZP3 (Crystal Form III)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Zp-N Domain of Mammalian Sperm Receptor ZP3 (Crystal Form III) within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca488 b:0.4 occ:1.00 O A:ASP297 2.4 83.5 1.0 O A:LYS296 2.4 0.6 1.0 C A:ASP297 3.0 78.2 1.0 CA A:ASP297 3.1 88.9 1.0 OG A:SER234 3.3 87.0 1.0 C A:LYS296 3.3 0.9 1.0 N A:ASP297 3.6 94.8 1.0 OD1 A:ASP297 4.0 86.1 1.0 N A:LYS298 4.2 64.7 1.0 CB A:SER234 4.4 84.3 1.0 CB A:ASP297 4.4 91.0 1.0 CG A:ASP297 4.7 89.5 1.0 CA A:LYS296 4.7 0.5 1.0 CA A:LYS298 4.9 65.6 1.0

Calcium binding site 3 out of 4 in the Zp-N Domain of Mammalian Sperm Receptor ZP3 (Crystal Form III)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Zp-N Domain of Mammalian Sperm Receptor ZP3 (Crystal Form III) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca492 b:1.0 occ:1.00 OD1 B:ASP185 2.7 0.5 1.0 OD2 B:ASP185 2.7 0.6 1.0 O B:VAL182 2.8 0.4 1.0 OE1 B:GLN366 2.9 1.0 1.0 CG B:ASP185 3.1 0.8 1.0 CD B:GLN366 3.8 0.2 1.0 C B:VAL182 3.8 0.2 1.0 N B:VAL182 4.1 0.3 1.0 CA B:VAL182 4.5 0.6 1.0 NE2 B:GLN366 4.5 0.9 1.0 CG B:GLN366 4.5 0.6 1.0 CB B:ASP185 4.6 0.1 1.0 O B:LYS180 4.6 0.6 1.0 CB B:VAL182 4.7 0.7 1.0 N B:GLY183 4.9 0.1 1.0 CB B:GLN366 4.9 0.9 1.0

Calcium binding site 4 out of 4 in the Zp-N Domain of Mammalian Sperm Receptor ZP3 (Crystal Form III)


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Zp-N Domain of Mammalian Sperm Receptor ZP3 (Crystal Form III) within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca493 b:0.9 occ:1.00 O B:LYS296 2.4 0.8 1.0 O B:ASP297 2.4 0.7 1.0 OG B:SER234 2.7 1.0 1.0 C B:ASP297 3.1 0.9 1.0 CA B:ASP297 3.4 0.7 1.0 C B:LYS296 3.4 0.0 1.0 CB B:SER234 3.7 0.4 1.0 N B:ASP297 3.8 0.2 1.0 N B:LYS298 4.3 0.1 1.0 OD1 B:ASP297 4.5 0.9 1.0 CA B:SER234 4.7 0.1 1.0 CA B:LYS296 4.8 0.3 1.0 CB B:ASP297 4.8 0.6 1.0 CA B:LYS298 4.9 0.6 1.0

M.Monne, L.Han, T.Schwend, S.Burendahl, L.Jovine. Crystal Structure of the Zp-N Domain of ZP3 Reveals the Core Fold of Animal Egg Coats Nature V. 456 653 2008.
ISSN: ISSN 0028-0836
PubMed: 19052627
DOI: 10.1038/NATURE07599