Calcium in PDB 4q8l: Crystal Structure of Polysacchride Lyase Family 18 Aly-SJ02 R-Catd

The structure of Crystal Structure of Polysacchride Lyase Family 18 Aly-SJ02 R-Catd, PDB code: 4q8l was solved by S.Dong, C.Y.Li, Y.Z.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.30 / 2.10
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	66.738, 66.738, 419.881, 90.00, 90.00, 120.00
R / Rfree (%)	18.3 / 22.1

The binding sites of Calcium atom in the Crystal Structure of Polysacchride Lyase Family 18 Aly-SJ02 R-Catd (pdb code 4q8l). 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 Polysacchride Lyase Family 18 Aly-SJ02 R-Catd, PDB code: 4q8l:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of Polysacchride Lyase Family 18 Aly-SJ02 R-Catd


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 Polysacchride Lyase Family 18 Aly-SJ02 R-Catd within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:25.1 occ:1.00 O A:VAL116 2.4 23.5 1.0 O A:ILE121 2.4 16.6 1.0 OD2 A:ASP114 2.4 20.2 1.0 OD1 A:ASN119 2.4 26.8 1.0 OD1 A:ASP106 2.4 22.5 1.0 O A:HOH401 2.6 22.0 1.0 CG A:ASN119 3.4 29.0 1.0 CG A:ASP114 3.4 27.5 1.0 C A:VAL116 3.5 23.0 1.0 C A:ILE121 3.5 21.8 1.0 CG A:ASP106 3.6 23.1 1.0 N A:VAL116 3.9 23.7 1.0 CA A:ASP106 3.9 20.9 1.0 ND2 A:ASN119 3.9 20.5 1.0 N A:ILE121 4.0 19.0 1.0 CB A:ILE121 4.0 20.9 1.0 CA A:ILE121 4.1 22.9 1.0 CA A:VAL116 4.1 23.8 1.0 OD1 A:ASP114 4.1 22.8 1.0 C A:ASP106 4.2 24.3 1.0 CB A:VAL116 4.2 23.2 1.0 CB A:ASP106 4.2 24.1 1.0 N A:ASN119 4.3 23.7 1.0 CB A:ASP114 4.3 20.2 1.0 O A:THR107 4.4 19.8 1.0 OD2 A:ASP106 4.5 22.6 1.0 N A:THR107 4.6 20.1 1.0 N A:ALA117 4.6 21.9 1.0 CB A:ASN119 4.6 27.1 1.0 O A:ASP106 4.6 22.9 1.0 N A:PHE122 4.6 20.9 1.0 N A:ASN118 4.6 26.8 1.0 OD2 A:ASP123 4.7 19.1 1.0 C A:ALA117 4.7 27.6 1.0 CG2 A:ILE121 4.8 22.6 1.0 N A:GLY120 4.8 20.5 1.0 CA A:ASN119 4.8 21.9 1.0 CA A:ALA117 4.8 27.1 1.0 O A:SER105 4.9 17.4 1.0 N A:SER115 4.9 19.5 1.0 CA A:PHE122 4.9 18.9 1.0 CG1 A:VAL116 4.9 24.2 1.0 C A:ASN119 4.9 23.4 1.0 C A:SER115 5.0 23.1 1.0

Calcium binding site 2 out of 2 in the Crystal Structure of Polysacchride Lyase Family 18 Aly-SJ02 R-Catd


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 Polysacchride Lyase Family 18 Aly-SJ02 R-Catd within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca301 b:21.5 occ:1.00 O B:VAL116 2.4 17.1 1.0 O B:ILE121 2.4 16.2 1.0 OD1 B:ASP106 2.4 18.6 1.0 OD2 B:ASP114 2.4 20.2 1.0 OD1 B:ASN119 2.5 19.8 1.0 O B:HOH402 2.5 17.6 1.0 CG B:ASN119 3.4 22.3 1.0 CG B:ASP114 3.5 20.2 1.0 C B:ILE121 3.5 17.6 1.0 C B:VAL116 3.5 18.8 1.0 CG B:ASP106 3.6 21.4 1.0 ND2 B:ASN119 3.9 15.3 1.0 N B:VAL116 3.9 20.5 1.0 CA B:ASP106 4.0 17.7 1.0 N B:ILE121 4.0 19.1 1.0 CA B:ILE121 4.1 21.1 1.0 CB B:ILE121 4.1 18.2 1.0 CA B:VAL116 4.1 18.9 1.0 C B:ASP106 4.2 17.3 1.0 OD1 B:ASP114 4.2 19.7 1.0 N B:ASN119 4.3 18.4 1.0 CB B:ASP114 4.3 18.7 1.0 CB B:ASP106 4.3 18.4 1.0 CB B:VAL116 4.4 18.2 1.0 O B:THR107 4.4 20.2 1.0 OD2 B:ASP106 4.5 21.1 1.0 N B:ALA117 4.6 18.3 1.0 CB B:ASN119 4.6 22.4 1.0 N B:PHE122 4.6 15.3 1.0 N B:ASN118 4.6 19.9 1.0 N B:THR107 4.6 18.2 1.0 O B:ASP106 4.6 19.8 1.0 C B:ALA117 4.7 19.7 1.0 OD2 B:ASP123 4.7 20.6 1.0 O B:SER105 4.8 18.1 1.0 CA B:ALA117 4.8 20.5 1.0 N B:GLY120 4.8 19.9 1.0 CA B:ASN119 4.8 19.0 1.0 CG2 B:ILE121 4.8 17.2 1.0 N B:SER115 4.9 19.0 1.0 CA B:PHE122 4.9 17.4 1.0 C B:ASN119 4.9 19.4 1.0

S.Dong, C.Y.Li, Y.Z.Zhang. Molecular Insight Into the Role of the N-Terminal Extension in the Maturation, Substrate Recognition and Catalysis of A Bacterial Alginate Lyase From Polysaccharide Lyase FAMILY18 To Be Published.