Calcium in PDB 2zbd: Crystal Structure of the Sr Calcium Pump with Bound Aluminium Fluoride, Adp and Calcium

All present enzymatic activity of Crystal Structure of the Sr Calcium Pump with Bound Aluminium Fluoride, Adp and Calcium:
3.6.3.8;

The structure of Crystal Structure of the Sr Calcium Pump with Bound Aluminium Fluoride, Adp and Calcium, PDB code: 2zbd was solved by C.Toyoshima, H.Nomura, T.Tsuda, H.Ogawa, Y.Norimatsu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	12.00 / 2.40
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	162.900, 75.100, 152.100, 90.00, 109.30, 90.00
R / Rfree (%)	24.6 / 27.1

The structure of Crystal Structure of the Sr Calcium Pump with Bound Aluminium Fluoride, Adp and Calcium also contains other interesting chemical elements:

Fluorine	(F)	4 atoms
Magnesium	(Mg)	2 atoms
Aluminium	(Al)	1 atom

The binding sites of Calcium atom in the Crystal Structure of the Sr Calcium Pump with Bound Aluminium Fluoride, Adp and Calcium (pdb code 2zbd). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of the Sr Calcium Pump with Bound Aluminium Fluoride, Adp and Calcium, PDB code: 2zbd:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of the Sr Calcium Pump with Bound Aluminium Fluoride, Adp and Calcium


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 the Sr Calcium Pump with Bound Aluminium Fluoride, Adp and Calcium within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca995 b:0.9 occ:1.00 OD1 A:ASP800 2.3 0.6 1.0 O A:HOH1014 2.4 0.7 1.0 OD1 A:ASN768 2.4 1.0 1.0 OE2 A:GLU771 2.4 0.2 1.0 O A:HOH1015 2.4 82.6 1.0 OE2 A:GLU908 2.5 0.1 1.0 OG1 A:THR799 2.6 0.2 1.0 CG A:ASP800 3.4 0.7 1.0 CD A:GLU771 3.5 1.0 1.0 CD A:GLU908 3.5 0.2 1.0 CB A:THR799 3.5 0.1 1.0 CG A:ASN768 3.6 0.1 1.0 OE1 A:GLU771 3.9 0.2 1.0 OE1 A:GLU908 3.9 0.1 1.0 OD2 A:ASP800 3.9 0.8 1.0 CB A:SER767 4.1 0.8 1.0 ND2 A:ASN768 4.3 0.1 1.0 N A:ASP800 4.4 0.8 1.0 C A:THR799 4.4 0.9 1.0 N A:ASN768 4.4 0.1 1.0 CG2 A:THR799 4.5 0.8 1.0 O A:VAL795 4.6 0.5 1.0 CA A:ASN768 4.6 0.2 1.0 CA A:THR799 4.6 0.1 1.0 CB A:ASP800 4.6 0.7 1.0 C A:SER767 4.6 0.9 1.0 CG A:GLU771 4.7 0.5 1.0 O A:ALA305 4.7 0.5 1.0 CB A:ASN768 4.7 0.2 1.0 CG A:GLU908 4.8 0.5 1.0 O A:THR799 4.8 0.8 1.0 CA A:ASP800 4.8 0.7 1.0 CG1 A:VAL795 4.9 0.4 1.0 O A:SER767 5.0 0.9 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of the Sr Calcium Pump with Bound Aluminium Fluoride, Adp and Calcium


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 the Sr Calcium Pump with Bound Aluminium Fluoride, Adp and Calcium within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca996 b:0.6 occ:1.00 OD1 A:ASN796 2.3 0.9 1.0 O A:ILE307 2.3 0.4 1.0 OD2 A:ASP800 2.3 0.8 1.0 O A:ALA305 2.6 0.5 1.0 O A:VAL304 2.6 0.9 1.0 OE2 A:GLU309 2.6 0.3 1.0 OE1 A:GLU309 2.7 0.6 1.0 CD A:GLU309 3.0 0.6 1.0 C A:ALA305 3.3 0.5 1.0 CG A:ASP800 3.3 0.7 1.0 C A:ILE307 3.4 0.3 1.0 CG A:ASN796 3.4 0.5 1.0 C A:VAL304 3.7 0.9 1.0 CB A:ASP800 3.8 0.7 1.0 ND2 A:ASN768 3.8 0.1 1.0 CA A:ALA305 3.8 0.6 1.0 N A:ILE307 3.8 0.3 1.0 C A:ALA306 4.0 0.3 1.0 ND2 A:ASN796 4.0 0.5 1.0 N A:ALA306 4.1 0.4 1.0 CA A:ILE307 4.1 0.3 1.0 N A:ALA305 4.3 0.7 1.0 O A:HOH1014 4.3 0.7 1.0 O A:ALA306 4.3 0.3 1.0 OD1 A:ASP800 4.4 0.6 1.0 N A:PRO308 4.4 0.3 1.0 CG A:GLU309 4.4 0.5 1.0 CA A:ALA306 4.5 0.3 1.0 N A:GLU309 4.5 0.5 1.0 CB A:ASN796 4.5 0.3 1.0 CA A:PRO308 4.6 0.3 1.0 CB A:ILE307 4.8 0.2 1.0 CG A:ASN768 4.8 0.1 1.0

C.Toyoshima, H.Nomura, T.Tsuda. Lumenal Gating Mechanism Revealed in Calcium Pump Crystal Structures with Phosphate Analogues Nature V. 432 361 2004.
ISSN: ISSN 0028-0836
PubMed: 15448704
DOI: 10.1038/NATURE02981