Calcium in PDB 2doq: Crystal Structure of SFI1P/CDC31P Complex

The structure of Crystal Structure of SFI1P/CDC31P Complex, PDB code: 2doq was solved by S.Li, A.M.Sandercock, P.T.Conduit, C.V.Robinson, R.L.Williams, J.V.Kilmartin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	94.49 / 3.00
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	87.283, 92.961, 189.358, 90.00, 90.00, 90.00
R / Rfree (%)	25.9 / 29.9

The binding sites of Calcium atom in the Crystal Structure of SFI1P/CDC31P Complex (pdb code 2doq). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 7 binding sites of Calcium where determined in the Crystal Structure of SFI1P/CDC31P Complex, PDB code: 2doq:
Jump to Calcium binding site number: 1; 2; 3; 4; 5; 6; 7;

Calcium binding site 1 out of 7 in the Crystal Structure of SFI1P/CDC31P Complex


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 SFI1P/CDC31P Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca162 b:0.8 occ:1.00 OD1 A:ASN35 2.3 0.4 1.0 OD1 A:ASP37 2.3 0.1 1.0 O A:PHE39 2.4 0.5 1.0 OD1 A:ASP33 2.7 0.0 1.0 OE1 A:GLU44 2.9 0.0 1.0 OE2 A:GLU44 2.9 0.2 1.0 CG A:ASN35 3.1 0.3 1.0 CG A:ASP37 3.2 0.1 1.0 CD A:GLU44 3.3 0.5 1.0 OD2 A:ASP37 3.4 0.7 1.0 ND2 A:ASN35 3.5 0.5 1.0 C A:PHE39 3.5 0.4 1.0 CG A:ASP33 3.9 0.3 1.0 N A:ASN35 4.2 0.5 1.0 CA A:ASP33 4.2 0.8 1.0 C A:ASP33 4.3 0.2 1.0 CA A:LEU40 4.4 0.2 1.0 N A:LEU40 4.4 0.3 1.0 N A:PHE39 4.4 0.9 1.0 CB A:ASN35 4.5 0.3 1.0 CA A:PHE39 4.5 0.3 1.0 N A:MSE34 4.5 0.1 1.0 CB A:ASP33 4.6 0.7 1.0 CB A:ASP37 4.6 0.3 1.0 N A:ASP37 4.6 0.9 1.0 CA A:ASN35 4.7 0.3 1.0 O A:ASP33 4.7 0.2 1.0 CB A:PHE39 4.8 1.0 1.0 CG A:GLU44 4.8 0.0 1.0 N A:ASP41 4.8 0.9 1.0 OD2 A:ASP33 4.9 0.8 1.0 C A:ASN35 4.9 0.1 1.0 N A:GLY38 5.0 1.0 1.0

Calcium binding site 2 out of 7 in the Crystal Structure of SFI1P/CDC31P Complex


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 SFI1P/CDC31P Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca163 b:0.4 occ:1.00 O A:LYS112 2.2 0.5 1.0 OD1 A:ASP106 2.2 0.3 1.0 OD1 A:ASN117 2.4 0.1 1.0 OD2 A:ASP108 2.6 0.9 1.0 OD1 A:ASP108 2.8 0.5 1.0 CG A:ASP108 3.0 0.2 1.0 OG1 A:THR110 3.2 0.0 1.0 C A:LYS112 3.4 0.5 1.0 CG A:ASP106 3.4 0.2 1.0 CG A:ASN117 3.6 0.1 1.0 CG2 A:THR110 3.8 0.0 1.0 CA A:ILE113 4.0 0.7 1.0 CA A:ASP106 4.0 0.9 1.0 N A:SER114 4.0 0.3 1.0 CB A:THR110 4.1 0.1 1.0 ND2 A:ASN117 4.1 0.8 1.0 N A:ILE113 4.1 0.1 1.0 CB A:ASP106 4.2 0.7 1.0 OD2 A:ASP106 4.3 0.3 1.0 N A:THR110 4.4 0.4 1.0 C A:ILE113 4.4 0.6 1.0 CB A:SER114 4.4 0.0 1.0 CB A:ASP108 4.5 0.4 1.0 N A:LYS112 4.5 0.2 1.0 CA A:LYS112 4.5 0.8 1.0 C A:ASP106 4.7 0.9 1.0 CA A:THR110 4.8 0.9 1.0 CB A:ASN117 4.8 0.7 1.0 OG A:SER114 4.8 0.4 1.0 CA A:SER114 4.9 1.0 1.0 N A:HIS109 4.9 0.7 1.0 O A:PHE105 4.9 0.4 1.0

Calcium binding site 3 out of 7 in the Crystal Structure of SFI1P/CDC31P Complex


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 SFI1P/CDC31P Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca164 b:0.7 occ:1.00 OD2 A:ASP144 2.4 0.6 1.0 O A:GLU148 2.5 0.9 1.0 OE2 A:GLU153 2.7 0.2 1.0 OE1 A:GLU153 2.8 0.2 1.0 OD1 A:ASP144 2.8 0.6 1.0 OD1 A:ASP142 2.9 0.1 1.0 CG A:ASP144 2.9 0.2 1.0 OD1 A:ASP146 2.9 0.4 1.0 CD A:GLU153 3.1 0.6 1.0 OD2 A:ASP146 3.2 0.1 1.0 ND2 A:ASN150 3.4 1.0 1.0 CG A:ASP146 3.4 0.6 1.0 C A:GLU148 3.7 0.9 1.0 N A:ASN150 4.0 0.6 1.0 CG A:ASP142 4.0 0.0 1.0 CG A:ASN150 4.3 0.8 1.0 CB A:ASP144 4.3 0.9 1.0 N A:LEU143 4.3 0.6 1.0 CA A:ILE149 4.4 0.1 1.0 N A:ASP144 4.4 0.9 1.0 CA A:ASP142 4.5 0.8 1.0 N A:ILE149 4.5 0.4 1.0 CG A:GLU153 4.6 0.6 1.0 N A:GLU148 4.7 0.5 1.0 CB A:ASN150 4.7 0.1 1.0 CB A:ASP142 4.7 0.9 1.0 C A:ILE149 4.7 0.0 1.0 CA A:GLU148 4.7 0.2 1.0 C A:ASP142 4.8 0.7 1.0 CB A:ASP146 4.8 1.0 1.0 N A:ASP146 4.9 0.1 1.0 CA A:ASP144 4.9 0.9 1.0 OD2 A:ASP142 5.0 1.0 1.0

Calcium binding site 4 out of 7 in the Crystal Structure of SFI1P/CDC31P Complex


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 SFI1P/CDC31P Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca162 b:0.8 occ:1.00 O B:PHE39 2.4 0.5 1.0 OD1 B:ASP33 2.4 0.0 1.0 OE2 B:GLU44 2.6 0.2 1.0 OE1 B:GLU44 2.6 0.1 1.0 OD1 B:ASP37 2.6 0.5 1.0 ND2 B:ASN35 2.8 0.3 1.0 CD B:GLU44 2.9 0.4 1.0 OD1 B:ASN35 2.9 0.1 1.0 OD2 B:ASP37 3.2 0.3 1.0 CG B:ASN35 3.2 0.6 1.0 CG B:ASP37 3.3 0.0 1.0 C B:PHE39 3.5 0.7 1.0 CG B:ASP33 3.5 0.9 1.0 CA B:ASP33 4.1 1.0 1.0 N B:LEU40 4.3 0.8 1.0 N B:MSE34 4.3 0.8 1.0 OD2 B:ASP33 4.3 0.1 1.0 CA B:LEU40 4.4 0.1 1.0 CA B:PHE39 4.4 0.7 1.0 CG B:GLU44 4.4 0.5 1.0 N B:PHE39 4.4 1.0 1.0 N B:ASN35 4.4 0.9 1.0 CB B:ASP33 4.4 0.9 1.0 C B:ASP33 4.5 0.3 1.0 N B:ASP37 4.6 0.8 1.0 CB B:ASN35 4.6 0.9 1.0 N B:ASN36 4.6 0.4 1.0 CB B:PHE39 4.7 0.6 1.0 CB B:ASP37 4.7 0.2 1.0 CA B:ASN35 5.0 0.1 1.0 CD2 B:LEU40 5.0 0.2 1.0

Calcium binding site 5 out of 7 in the Crystal Structure of SFI1P/CDC31P Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 5 of Crystal Structure of SFI1P/CDC31P Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca163 b:0.9 occ:1.00 OD2 B:ASP108 2.3 0.4 1.0 OD1 B:ASN117 2.3 0.9 1.0 OD1 B:ASP106 2.4 0.8 1.0 OG1 B:THR110 2.4 0.4 1.0 O B:LYS112 2.6 1.0 1.0 CG B:ASP108 3.2 0.5 1.0 CG B:ASN117 3.3 0.5 1.0 OD1 B:ASP108 3.5 0.2 1.0 CB B:THR110 3.6 0.9 1.0 CG B:ASP106 3.7 0.9 1.0 CG2 B:THR110 3.7 0.3 1.0 ND2 B:ASN117 3.7 1.0 1.0 C B:LYS112 3.9 0.2 1.0 N B:SER114 4.1 0.2 1.0 N B:THR110 4.2 0.9 1.0 OG B:SER114 4.3 0.8 1.0 CA B:THR110 4.4 0.1 1.0 OD2 B:ASP106 4.5 0.6 1.0 CB B:SER114 4.5 1.0 1.0 CA B:ASP106 4.5 0.6 1.0 CA B:ILE113 4.6 0.0 1.0 CB B:ASP108 4.6 0.3 1.0 N B:LYS112 4.6 0.9 1.0 CB B:ASP106 4.6 0.5 1.0 CB B:ASN117 4.6 0.7 1.0 N B:ILE113 4.7 0.1 1.0 C B:ILE113 4.8 0.0 1.0 N B:HIS109 4.8 0.5 1.0 CA B:LYS112 4.8 0.2 1.0 N B:ASP108 4.9 0.1 1.0 N B:GLY111 4.9 0.4 1.0 CA B:SER114 5.0 0.7 1.0 C B:THR110 5.0 0.3 1.0

Calcium binding site 6 out of 7 in the Crystal Structure of SFI1P/CDC31P Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 6 of Crystal Structure of SFI1P/CDC31P Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca164 b:79.0 occ:1.00 OD1 B:ASP144 1.9 0.9 1.0 O B:GLU148 2.3 0.4 1.0 OD1 B:ASP142 2.4 0.3 1.0 OE1 B:GLU153 2.4 1.0 1.0 CG B:ASP144 2.6 0.6 1.0 OD1 B:ASP146 2.6 0.6 1.0 OD2 B:ASP144 2.6 0.7 1.0 OE2 B:GLU153 2.8 0.1 1.0 CD B:GLU153 2.9 0.9 1.0 C B:GLU148 3.4 0.3 1.0 CG B:ASP142 3.6 0.3 1.0 CG B:ASP146 3.6 0.7 1.0 CB B:ASP144 4.1 0.1 1.0 CA B:ILE149 4.1 0.4 1.0 N B:ASN150 4.1 0.1 1.0 N B:ILE149 4.2 0.6 1.0 OD2 B:ASP146 4.3 0.5 1.0 N B:GLU148 4.3 0.8 1.0 CG B:GLU153 4.3 0.4 1.0 N B:ASP146 4.4 0.0 1.0 OD2 B:ASP142 4.4 0.8 1.0 N B:ASP144 4.4 0.8 1.0 CA B:GLU148 4.4 0.6 1.0 CB B:ASP142 4.4 0.8 1.0 CA B:ASP142 4.5 0.9 1.0 C B:ILE149 4.5 0.5 1.0 CA B:ASP144 4.6 0.1 1.0 N B:GLY145 4.6 0.7 1.0 CB B:ASP146 4.7 0.8 1.0 CG B:ASN150 4.7 0.5 1.0 C B:ASP144 4.7 0.7 1.0 C B:ASP142 4.7 0.1 1.0 CA B:ASP146 4.8 0.8 1.0 CB B:ASN150 4.9 0.9 1.0 N B:GLY147 4.9 0.6 1.0 ND2 B:ASN150 4.9 1.0 1.0 CD1 B:ILE149 4.9 0.0 1.0 C B:ASP146 4.9 0.6 1.0 OD1 B:ASN150 4.9 0.6 1.0 CB B:GLU148 5.0 0.9 1.0

Calcium binding site 7 out of 7 in the Crystal Structure of SFI1P/CDC31P Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 7 of Crystal Structure of SFI1P/CDC31P Complex within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca162 b:85.8 occ:1.00 OD1 C:ASP33 2.0 0.2 1.0 OD1 C:ASN35 2.3 0.2 1.0 O C:PHE39 2.4 0.3 1.0 OD1 C:ASP37 2.5 0.3 1.0 OE2 C:GLU44 2.6 0.7 1.0 OE1 C:GLU44 2.6 0.3 1.0 CD C:GLU44 3.0 0.6 1.0 CG C:ASN35 3.1 0.0 1.0 CG C:ASP33 3.2 0.7 1.0 CG C:ASP37 3.2 0.6 1.0 ND2 C:ASN35 3.3 0.3 1.0 C C:PHE39 3.5 0.2 1.0 OD2 C:ASP37 3.5 0.1 1.0 OD2 C:ASP33 3.7 0.1 1.0 N C:ASP37 4.2 0.3 1.0 CA C:LEU40 4.3 0.2 1.0 N C:LEU40 4.3 0.3 1.0 N C:PHE39 4.4 0.1 1.0 CB C:ASP33 4.4 0.8 1.0 CA C:PHE39 4.4 0.1 1.0 N C:ASN36 4.4 0.2 1.0 CG C:GLU44 4.5 0.5 1.0 CB C:ASP37 4.5 0.7 1.0 CA C:ASP33 4.5 0.1 1.0 CB C:ASN35 4.6 0.8 1.0 N C:ASN35 4.6 0.9 1.0 N C:MSE34 4.7 0.4 1.0 N C:ASP41 4.7 0.7 1.0 C C:ASP33 4.7 0.2 1.0 CA C:ASP37 4.7 0.8 1.0 CB C:PHE39 4.8 1.0 1.0 C C:LEU40 4.8 0.3 1.0 C C:ASP37 4.9 0.7 1.0 CA C:ASN35 5.0 0.9 1.0

S.Li, A.M.Sandercock, P.Conduit, C.V.Robinson, R.L.Williams, J.V.Kilmartin. Structural Role of SFI1P-Centrin Filaments in Budding Yeast Spindle Pole Body Duplication. J.Cell Biol. V. 173 867 2006.
ISSN: ISSN 0021-9525
PubMed: 16785321
DOI: 10.1083/JCB.200603153