Calcium in PDB 8xy5: Open Conformation of Burkholderia Stagnalis Lipase

The structure of Open Conformation of Burkholderia Stagnalis Lipase, PDB code: 8xy5 was solved by S.Kataoka, T.Kubota, K.Ishikawa, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.24 / 1.40
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	160.643, 69.21, 51.322, 90, 98.53, 90
R / Rfree (%)	16.2 / 18.4

The binding sites of Calcium atom in the Open Conformation of Burkholderia Stagnalis Lipase (pdb code 8xy5). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Open Conformation of Burkholderia Stagnalis Lipase, PDB code: 8xy5:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Open Conformation of Burkholderia Stagnalis Lipase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Open Conformation of Burkholderia Stagnalis Lipase within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca401 b:12.4 occ:1.00 O A:VAL340 2.3 13.0 1.0 OD1 A:ASP332 2.3 12.4 1.0 OD2 A:ASP286 2.4 14.4 1.0 O A:HOH528 2.4 13.0 1.0 O A:HOH584 2.4 13.4 1.0 O A:GLN336 2.4 11.8 1.0 C A:GLN336 3.3 12.5 1.0 C A:VAL340 3.5 13.1 1.0 CG A:ASP332 3.5 11.9 1.0 CG A:ASP286 3.5 13.9 1.0 N A:LEU337 3.6 13.2 1.0 CA A:ARG341 4.0 14.1 1.0 N A:ARG341 4.2 13.6 1.0 OG A:SER288 4.2 14.8 1.0 OD2 A:ASP332 4.3 11.1 1.0 O A:HOH542 4.3 12.4 1.0 OD1 A:ASP286 4.4 14.4 1.0 CA A:ASP332 4.4 11.4 1.0 CB A:ASP286 4.4 14.0 1.0 OD1 A:ASN329 4.4 11.2 1.0 ND2 A:ASN329 4.4 11.2 1.0 N A:ASP332 4.5 11.2 1.0 OG1 A:THR289 4.5 11.6 1.0 CB A:ASP332 4.5 11.4 1.0 CG A:ARG341 4.6 16.8 1.0 CA A:VAL340 4.6 13.4 1.0 CG2 A:VAL331 4.7 13.9 1.0 CB A:ARG341 4.7 15.2 1.0 CA A:GLN336 4.7 12.5 1.0 CB A:VAL340 4.8 13.5 1.0 CG A:ASN329 4.9 10.9 1.0 N A:VAL340 5.0 13.4 1.0 N A:GLN336 5.0 12.4 1.0 C A:VAL331 5.0 11.6 1.0

Calcium binding site 2 out of 2 in the Open Conformation of Burkholderia Stagnalis Lipase


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Open Conformation of Burkholderia Stagnalis Lipase within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca402 b:11.6 occ:1.00 O B:HOH600 2.3 14.1 1.0 O B:VAL340 2.3 12.8 1.0 OD1 B:ASP332 2.3 11.6 1.0 O B:HOH533 2.3 13.0 1.0 OD2 B:ASP286 2.4 14.5 1.0 O B:GLN336 2.4 11.3 1.0 C B:GLN336 3.4 11.7 1.0 C B:VAL340 3.5 12.6 1.0 CG B:ASP332 3.5 11.7 1.0 CG B:ASP286 3.5 13.7 1.0 N B:LEU337 3.6 12.6 1.0 CA B:ARG341 4.0 13.4 1.0 N B:ARG341 4.2 13.0 1.0 OG B:SER288 4.3 13.6 1.0 OD2 B:ASP332 4.3 11.4 1.0 O B:HOH546 4.3 11.3 1.0 OD1 B:ASP286 4.4 14.0 1.0 CA B:ASP332 4.4 11.3 1.0 CB B:ASP286 4.4 13.5 1.0 OD1 B:ASN329 4.4 11.0 1.0 N B:ASP332 4.4 11.1 1.0 OG1 B:THR289 4.4 12.2 1.0 ND2 B:ASN329 4.4 11.2 1.0 CB B:ASP332 4.5 11.2 1.0 CA B:VAL340 4.6 12.3 1.0 CG B:ARG341 4.6 16.0 1.0 CG2 B:VAL331 4.7 14.4 1.0 CB B:ARG341 4.8 14.7 1.0 CA B:GLN336 4.8 11.7 1.0 CB B:VAL340 4.8 12.4 1.0 CG B:ASN329 4.9 11.0 1.0 C B:VAL331 5.0 11.5 1.0 N B:VAL340 5.0 12.3 1.0 N B:GLN336 5.0 11.5 1.0

S.Kataoka, T.Kubota, K.Ishikawa. Structural and Functional Studies of Lipase From Burkholderia Stagnalis To Be Published.