Calcium in PDB 1ooj: Structural Genomics of Caenorhabditis Elegans : Calmodulin

The structure of Structural Genomics of Caenorhabditis Elegans : Calmodulin, PDB code: 1ooj was solved by J.Symersky, G.Lin, S.Li, S.Qiu, C.-H.Luan, D.Luo, J.Tsao, M.Carson, L.Delucas, M.Luo, Southeast Collaboratory For Structuralgenomics (Secsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.11
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	103.394, 23.997, 60.770, 90.00, 112.14, 90.00
R / Rfree (%)	21.2 / 27.1

The binding sites of Calcium atom in the Structural Genomics of Caenorhabditis Elegans : Calmodulin (pdb code 1ooj). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Structural Genomics of Caenorhabditis Elegans : Calmodulin, PDB code: 1ooj:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in the Structural Genomics of Caenorhabditis Elegans : Calmodulin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structural Genomics of Caenorhabditis Elegans : Calmodulin within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1001 b:30.4 occ:1.00 OD1 A:ASP25 2.4 30.5 1.0 OD1 A:ASP21 2.5 21.1 1.0 OE2 A:GLU32 2.5 23.2 1.0 O A:THR27 2.6 20.7 1.0 OE1 A:GLU32 2.7 21.8 1.0 CD A:GLU32 3.0 26.1 1.0 OD2 A:ASP23 3.0 36.0 1.0 CG A:ASP25 3.5 31.5 1.0 CG A:ASP23 3.5 38.8 1.0 OD1 A:ASP23 3.5 42.2 1.0 CG A:ASP21 3.5 25.6 1.0 C A:THR27 3.7 23.6 1.0 OG1 A:THR27 4.0 18.2 1.0 N A:ASP25 4.2 32.3 1.0 OD2 A:ASP21 4.2 26.2 1.0 OD2 A:ASP25 4.2 31.3 1.0 N A:THR27 4.2 23.5 1.0 N A:ASP23 4.3 35.7 1.0 CA A:ASP21 4.3 27.9 1.0 CB A:ASP25 4.4 31.2 1.0 CG A:GLU32 4.4 25.9 1.0 CB A:ASP21 4.5 23.6 1.0 C A:ASP21 4.5 30.9 1.0 CA A:THR27 4.5 22.5 1.0 N A:GLY24 4.6 34.5 1.0 N A:LYS22 4.6 33.0 1.0 N A:ILE28 4.7 22.6 1.0 CA A:ILE28 4.7 21.3 1.0 N A:GLY26 4.7 27.5 1.0 CB A:ASP23 4.8 38.3 1.0 CA A:ASP25 4.8 30.2 1.0 CA A:ASP23 4.9 36.5 1.0 C A:ASP23 4.9 36.5 1.0 CB A:THR27 4.9 22.5 1.0

Calcium binding site 2 out of 4 in the Structural Genomics of Caenorhabditis Elegans : Calmodulin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structural Genomics of Caenorhabditis Elegans : Calmodulin within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1002 b:36.0 occ:1.00 O A:THR63 2.6 28.6 1.0 OD1 A:ASN61 2.6 29.6 1.0 OD1 A:ASP57 2.7 23.4 1.0 OE1 A:GLU68 2.7 30.2 1.0 O A:HOH2018 2.8 34.8 1.0 OD1 A:ASP59 2.8 35.0 1.0 OE2 A:GLU68 2.9 29.3 1.0 O A:HOH2001 3.0 31.8 1.0 CD A:GLU68 3.1 29.0 1.0 CG A:ASN61 3.2 29.4 1.0 ND2 A:ASN61 3.2 29.3 1.0 CG A:ASP57 3.6 28.2 1.0 C A:THR63 3.6 27.2 1.0 CG A:ASP59 3.7 36.4 1.0 OD2 A:ASP59 3.9 37.4 1.0 OD2 A:ASP57 4.3 27.5 1.0 N A:ASP65 4.3 28.1 1.0 OG1 A:THR63 4.4 25.7 1.0 CA A:ILE64 4.4 27.4 1.0 N A:THR63 4.4 26.9 1.0 N A:ASN61 4.4 29.9 1.0 N A:ILE64 4.4 27.1 1.0 O A:HOH2066 4.4 35.0 1.0 CB A:ASP57 4.4 27.3 1.0 CG A:GLU68 4.5 27.9 1.0 CB A:ASN61 4.5 28.3 1.0 OD2 A:ASP65 4.5 31.5 1.0 CA A:ASP57 4.6 29.0 1.0 CA A:THR63 4.6 26.3 1.0 N A:ASP59 4.7 35.7 1.0 N A:ALA58 4.8 32.1 1.0 C A:ILE64 4.8 26.6 1.0 CG A:ASP65 4.8 29.6 1.0 C A:ASP57 4.9 30.4 1.0 CA A:ASN61 4.9 29.9 1.0 N A:GLY60 4.9 35.3 1.0

Calcium binding site 3 out of 4 in the Structural Genomics of Caenorhabditis Elegans : Calmodulin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Structural Genomics of Caenorhabditis Elegans : Calmodulin within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1003 b:37.0 occ:1.00 O A:PHE100 2.4 28.1 1.0 OD1 A:ASN98 2.5 35.4 1.0 OE2 A:GLU105 2.6 38.2 1.0 OD2 A:ASP94 2.7 28.9 1.0 OE1 A:GLU105 2.7 36.0 1.0 OD1 A:ASP96 2.8 39.6 1.0 O A:HOH2071 2.9 39.4 1.0 CD A:GLU105 3.0 37.3 1.0 OD2 A:ASP96 3.2 39.2 1.0 CG A:ASP96 3.3 38.2 1.0 CG A:ASN98 3.4 34.4 1.0 C A:PHE100 3.6 26.6 1.0 ND2 A:ASN98 3.8 33.3 1.0 CG A:ASP94 3.9 28.6 1.0 N A:ASN98 4.1 31.8 1.0 N A:PHE100 4.2 24.9 1.0 CG A:GLU105 4.4 36.7 1.0 CA A:PHE100 4.4 26.3 1.0 NE2 A:GLN136 4.4 34.8 1.0 N A:ASP96 4.4 33.6 1.0 CB A:ASN98 4.5 33.4 1.0 CB A:ASP96 4.6 36.8 1.0 OD1 A:ASP94 4.6 26.9 1.0 N A:ILE101 4.6 26.1 1.0 N A:GLY97 4.6 35.5 1.0 CA A:ASP94 4.6 27.3 1.0 CB A:PHE100 4.6 25.6 1.0 CA A:ILE101 4.6 24.6 1.0 N A:SER102 4.6 26.6 1.0 C A:ASP94 4.6 28.8 1.0 CA A:ASN98 4.8 31.4 1.0 C A:ASP96 4.8 35.5 1.0 CA A:ASP96 4.8 35.9 1.0 CB A:ASP94 4.8 26.5 1.0 N A:GLY99 4.9 28.6 1.0 N A:LYS95 4.9 30.5 1.0 OG A:SER102 4.9 27.9 1.0 O A:ASP94 4.9 27.6 1.0

Calcium binding site 4 out of 4 in the Structural Genomics of Caenorhabditis Elegans : Calmodulin


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Structural Genomics of Caenorhabditis Elegans : Calmodulin within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1004 b:32.1 occ:1.00 O A:GLN136 2.5 24.0 1.0 OD1 A:ASP130 2.6 29.0 1.0 OD2 A:ASP132 2.6 32.3 1.0 OD2 A:ASP134 2.6 32.5 1.0 OE2 A:GLU141 2.6 25.9 1.0 OE1 A:GLU141 2.7 24.8 1.0 O A:HOH2075 2.8 31.1 1.0 CD A:GLU141 3.0 28.0 1.0 CG A:ASP132 3.2 30.6 1.0 CG A:ASP134 3.3 35.2 1.0 OD1 A:ASP132 3.4 31.1 1.0 CG A:ASP130 3.6 29.5 1.0 C A:GLN136 3.7 27.7 1.0 OD1 A:ASP134 3.8 35.3 1.0 N A:ASP134 3.9 34.6 1.0 CA A:ASP130 4.3 28.0 1.0 CB A:ASP134 4.3 35.6 1.0 N A:GLN136 4.3 29.4 1.0 N A:ASP132 4.4 30.9 1.0 CB A:ASP132 4.4 32.3 1.0 CB A:ASP130 4.4 28.9 1.0 N A:GLY133 4.4 34.4 1.0 N A:ASN138 4.4 25.0 1.0 OD2 A:ASP130 4.5 32.0 1.0 CG A:GLU141 4.5 24.3 1.0 C A:ASP130 4.5 28.1 1.0 CA A:VAL137 4.5 26.0 1.0 CA A:ASP134 4.5 33.8 1.0 N A:VAL137 4.6 27.0 1.0 N A:GLY135 4.6 33.4 1.0 C A:ASP132 4.6 33.1 1.0 CA A:ASP132 4.7 31.4 1.0 CA A:GLN136 4.7 29.1 1.0 N A:ILE131 4.8 28.6 1.0 CG A:ASN138 4.9 26.1 1.0 C A:ASP134 4.9 33.5 1.0 O A:ASP130 4.9 24.9 1.0 C A:GLY133 4.9 34.9 1.0 C A:VAL137 4.9 24.8 1.0 OD1 A:ASN138 4.9 27.8 1.0

J.Symersky, G.Lin, S.Li, S.Qiu, M.Carson, N.Schormann, M.Luo. Structural Genomics of Caenorhabditis Elegans: Crystal Structure of Calmodulin. Proteins V. 53 947 2003.
ISSN: ISSN 0887-3585
PubMed: 14635136
DOI: 10.1002/PROT.10517