Calcium in PDB 2scp: Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution

The structure of Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution, PDB code: 2scp was solved by W.J.Cook, S.Vijay-Kumar, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	N/A / 2.00
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	43.600, 56.000, 65.800, 90.00, 92.60, 90.00
R / Rfree (%)	n/a / n/a

The binding sites of Calcium atom in the Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution (pdb code 2scp). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 6 binding sites of Calcium where determined in the Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution, PDB code: 2scp:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6;

Calcium binding site 1 out of 6 in the Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca190 b:2.0 occ:1.00 O A:ALA22 2.3 16.7 1.0 OD1 A:ASP16 2.4 13.1 1.0 OD1 A:ASP18 2.4 11.0 1.0 O A:HOH193 2.4 15.3 1.0 OD2 A:ASP27 2.5 8.9 1.0 OD1 A:ASP27 2.5 11.2 1.0 OD1 A:ASP20 2.6 17.3 1.0 CG A:ASP27 2.8 9.0 1.0 CG A:ASP18 3.3 13.2 1.0 CG A:ASP20 3.4 17.3 1.0 C A:ALA22 3.5 16.7 1.0 CG A:ASP16 3.6 12.8 1.0 OD2 A:ASP18 3.6 13.7 1.0 OD2 A:ASP20 3.7 17.9 1.0 N A:ASP20 4.0 16.5 1.0 N A:ALA22 4.1 16.3 1.0 CA A:ASP16 4.3 11.2 1.0 OG1 A:THR24 4.3 14.9 1.0 CB A:ASP27 4.3 10.3 1.0 CA A:ALA22 4.4 16.5 1.0 CA A:ILE23 4.4 14.4 1.0 OD2 A:ASP16 4.4 11.8 1.0 N A:ILE23 4.4 15.0 1.0 CB A:ASP16 4.4 12.0 1.0 N A:ASP18 4.5 12.4 1.0 N A:THR24 4.5 13.3 1.0 C A:ASP16 4.5 12.5 1.0 CB A:ASP20 4.5 17.1 1.0 N A:LYS19 4.5 14.0 1.0 CB A:ASP18 4.6 13.2 1.0 CA A:ASP20 4.7 16.9 1.0 C A:ILE23 4.8 13.2 1.0 C A:ASP18 4.8 14.8 1.0 N A:PHE17 4.8 13.1 1.0 CA A:ASP18 4.8 14.2 1.0 N A:GLY21 4.8 16.9 1.0 CG2 A:THR24 4.9 13.8 1.0 C A:ASP20 4.9 18.1 1.0 O A:ASP16 4.9 12.7 1.0 C A:LYS19 5.0 16.7 1.0

Calcium binding site 2 out of 6 in the Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca191 b:2.0 occ:1.00 O A:ASN110 2.3 10.4 1.0 O A:HOH199 2.3 16.8 1.0 OD1 A:ASP104 2.4 12.0 1.0 OD1 A:ASP108 2.4 12.7 1.0 OD1 A:ASN106 2.4 13.9 1.0 OE1 A:GLU115 2.5 7.8 1.0 OE2 A:GLU115 2.6 9.7 1.0 CD A:GLU115 2.8 8.8 1.0 CG A:ASP108 3.3 13.7 1.0 C A:ASN110 3.5 11.9 1.0 CG A:ASN106 3.5 15.0 1.0 CG A:ASP104 3.5 10.8 1.0 OD2 A:ASP108 3.8 12.8 1.0 ND2 A:ASN106 4.0 15.9 1.0 CA A:ASP104 4.1 9.5 1.0 N A:ASP108 4.1 15.4 1.0 N A:ASN110 4.2 11.9 1.0 CA A:ILE111 4.2 10.8 1.0 CG A:GLU115 4.3 9.5 1.0 N A:ILE111 4.3 10.0 1.0 OD2 A:ASP104 4.4 10.8 1.0 N A:SER112 4.4 9.3 1.0 N A:ASN106 4.4 11.9 1.0 CB A:ASP104 4.4 10.1 1.0 CA A:ASN110 4.5 12.1 1.0 C A:ASP104 4.5 9.6 1.0 CB A:ASP108 4.5 13.1 1.0 N A:GLU107 4.6 16.9 1.0 CB A:ASN106 4.7 14.4 1.0 CA A:ASP108 4.7 13.9 1.0 N A:THR105 4.8 9.2 1.0 N A:ASN109 4.8 13.5 1.0 CB A:ASN110 4.8 14.6 1.0 C A:ILE111 4.8 9.8 1.0 O A:HOH256 4.8 30.8 1.0 CA A:ASN106 4.8 14.1 1.0 C A:ASN106 4.9 15.8 1.0 OG A:SER112 4.9 13.6 1.0 C A:ASP108 4.9 13.3 1.0

Calcium binding site 3 out of 6 in the Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca192 b:2.0 occ:1.00 OD1 A:ASP138 2.4 11.1 1.0 OE1 A:GLU149 2.4 6.0 1.0 OD1 A:ASN140 2.4 12.8 1.0 O A:HOH205 2.5 6.7 1.0 OE2 A:GLU149 2.5 7.2 1.0 O A:LEU144 2.5 9.1 1.0 OD1 A:ASP142 2.6 8.3 1.0 CD A:GLU149 2.8 7.4 1.0 CG A:ASP142 3.4 12.3 1.0 CG A:ASP138 3.5 10.9 1.0 CG A:ASN140 3.5 14.4 1.0 OD2 A:ASP142 3.7 12.2 1.0 C A:LEU144 3.7 10.0 1.0 CA A:ASP138 4.2 10.1 1.0 OD2 A:ASP138 4.2 10.9 1.0 ND2 A:ASN140 4.2 14.1 1.0 CG A:GLU149 4.3 6.6 1.0 N A:ASP142 4.3 14.3 1.0 N A:LEU144 4.3 11.6 1.0 N A:ASN140 4.3 13.4 1.0 O A:HOH254 4.4 35.5 1.0 CB A:ASP138 4.4 9.2 1.0 C A:ASP138 4.5 10.3 1.0 CB A:ASP142 4.5 12.2 1.0 CA A:LEU144 4.5 10.5 1.0 N A:ASN141 4.6 15.2 1.0 CA A:LEU145 4.6 9.9 1.0 N A:LEU145 4.6 9.0 1.0 N A:SER146 4.6 9.9 1.0 CB A:LEU144 4.7 11.5 1.0 CB A:ASN140 4.7 13.6 1.0 N A:THR139 4.7 11.1 1.0 O A:HOH250 4.8 23.3 1.0 CA A:ASN140 4.8 14.1 1.0 CA A:ASP142 4.8 13.3 1.0 N A:GLY143 4.8 13.1 1.0 C A:ASN140 4.8 15.1 1.0 O A:HOH239 4.8 35.5 1.0 O A:ASP138 5.0 9.7 1.0

Calcium binding site 4 out of 6 in the Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca193 b:2.0 occ:1.00 O B:ALA22 2.0 18.3 1.0 OD1 B:ASP18 2.3 27.9 1.0 OD1 B:ASP20 2.4 26.6 1.0 O B:HOH196 2.4 28.3 1.0 OD1 B:ASP16 2.4 21.7 1.0 OD2 B:ASP27 2.5 12.9 1.0 OD1 B:ASP27 2.6 14.4 1.0 CG B:ASP27 2.9 14.0 1.0 CG B:ASP18 3.2 28.2 1.0 CG B:ASP20 3.2 27.3 1.0 C B:ALA22 3.3 19.4 1.0 OD2 B:ASP18 3.5 28.0 1.0 OD2 B:ASP20 3.6 26.2 1.0 CG B:ASP16 3.6 22.6 1.0 N B:ASP20 4.1 27.7 1.0 N B:ALA22 4.1 20.4 1.0 CA B:ALA22 4.2 20.2 1.0 N B:ILE23 4.3 18.9 1.0 CA B:ILE23 4.3 18.0 1.0 CA B:ASP16 4.3 20.0 1.0 OG1 B:THR24 4.3 18.9 1.0 N B:ASP18 4.4 26.7 1.0 CB B:ASP20 4.4 26.6 1.0 CB B:ASP27 4.4 13.3 1.0 N B:THR24 4.4 18.8 1.0 N B:LYS19 4.5 29.8 1.0 CB B:ASP16 4.5 21.4 1.0 OD2 B:ASP16 4.5 23.6 1.0 C B:ASP16 4.5 21.4 1.0 CB B:ASP18 4.6 28.2 1.0 CA B:ASP20 4.6 26.5 1.0 N B:PHE17 4.7 22.9 1.0 CG2 B:THR24 4.7 18.8 1.0 C B:ILE23 4.7 18.2 1.0 N B:GLY21 4.8 22.9 1.0 CB B:ALA22 4.8 20.1 1.0 CA B:ASP18 4.9 28.2 1.0 C B:ASP20 5.0 24.9 1.0

Calcium binding site 5 out of 6 in the Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca194 b:9.2 occ:1.00 OD1 B:ASP104 1.9 24.3 1.0 O B:ASN110 2.2 26.4 1.0 OE2 B:GLU115 2.4 24.8 1.0 OD1 B:ASN106 2.5 31.4 1.0 OE1 B:GLU115 2.5 24.3 1.0 OD1 B:ASP108 2.6 31.9 1.0 CD B:GLU115 2.8 24.9 1.0 CG B:ASP104 3.1 23.9 1.0 CG B:ASP108 3.2 30.5 1.0 CG B:ASN106 3.4 31.3 1.0 C B:ASN110 3.4 26.1 1.0 O B:HOH201 3.6 28.3 0.5 OD2 B:ASP108 3.6 31.4 1.0 ND2 B:ASN106 3.8 31.4 1.0 OD2 B:ASP104 4.0 22.3 1.0 CB B:ASP104 4.1 24.1 1.0 N B:ASN110 4.2 27.7 1.0 CA B:ASP104 4.2 24.3 1.0 CG B:GLU115 4.2 25.1 1.0 CB B:ASP108 4.2 29.7 1.0 N B:ILE111 4.3 23.9 1.0 CA B:ILE111 4.3 22.3 1.0 CA B:ASN110 4.3 27.0 1.0 N B:ASP108 4.3 29.8 1.0 N B:ASN106 4.4 29.5 1.0 N B:SER112 4.5 24.4 1.0 CB B:ASN106 4.6 30.4 1.0 C B:ASP104 4.6 26.0 1.0 O B:HOH221 4.6 36.5 1.0 CA B:ASP108 4.7 29.5 1.0 CB B:ASN110 4.7 28.1 1.0 C B:ASN106 4.8 29.8 1.0 CA B:ASN106 4.8 29.8 1.0 C B:ILE111 4.8 23.6 1.0 C B:ASP108 4.9 29.4 1.0 OG B:SER112 4.9 27.3 1.0 N B:THR105 4.9 28.2 1.0 N B:ASN109 5.0 29.0 1.0

Calcium binding site 6 out of 6 in the Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 Angstroms Resolution within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca195 b:2.0 occ:1.00 OD1 B:ASP138 2.3 26.8 1.0 O B:HOH207 2.3 30.0 1.0 O B:LEU144 2.3 21.4 1.0 OD1 B:ASN140 2.3 29.9 1.0 OE2 B:GLU149 2.4 19.9 1.0 OE1 B:GLU149 2.4 20.1 1.0 OD1 B:ASP142 2.4 31.8 1.0 CD B:GLU149 2.8 18.3 1.0 CG B:ASP142 3.2 31.6 1.0 OD2 B:ASP142 3.4 31.1 1.0 CG B:ASN140 3.5 30.4 1.0 CG B:ASP138 3.5 26.3 1.0 C B:LEU144 3.5 21.9 1.0 ND2 B:ASN140 3.9 31.0 1.0 CA B:ASP138 4.1 25.5 1.0 N B:LEU144 4.2 23.6 1.0 CB B:ASP138 4.2 25.3 1.0 CG B:GLU149 4.2 16.7 1.0 OD2 B:ASP138 4.3 25.7 1.0 CB B:ASP142 4.4 30.9 1.0 N B:ASP142 4.4 29.0 1.0 CA B:LEU144 4.4 23.3 1.0 N B:LEU145 4.5 20.5 1.0 CA B:LEU145 4.5 19.3 1.0 N B:ASN140 4.5 29.0 1.0 C B:ASP138 4.6 26.1 1.0 N B:SER146 4.7 17.6 1.0 CB B:ASN140 4.7 29.9 1.0 N B:THR139 4.8 26.0 1.0 CA B:ASP142 4.8 30.2 1.0 CB B:LEU144 4.9 23.8 1.0 O B:HOH251 4.9 24.0 0.4 C B:ASP142 4.9 30.0 1.0 C B:ASN140 4.9 30.9 1.0 N B:GLY143 4.9 28.3 1.0 CA B:ASN140 4.9 29.9 1.0 N B:ASN141 5.0 29.1 1.0

S.Vijay-Kumar, W.J.Cook. Structure of A Sarcoplasmic Calcium-Binding Protein From Nereis Diversicolor Refined at 2.0 A Resolution. J.Mol.Biol. V. 224 413 1992.
ISSN: ISSN 0022-2836
PubMed: 1560459
DOI: 10.1016/0022-2836(92)91004-9