Calcium in PDB 2jda: Structure of A Pectin Binding Carbohydrate Binding Module Determined in An Monoclinic Crystal Form.

The structure of Structure of A Pectin Binding Carbohydrate Binding Module Determined in An Monoclinic Crystal Form., PDB code: 2jda was solved by D.W.Abbott, A.B.Boraston, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 1.35
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	111.205, 34.729, 86.711, 90.00, 120.58, 90.00
R / Rfree (%)	14.3 / 18

The binding sites of Calcium atom in the Structure of A Pectin Binding Carbohydrate Binding Module Determined in An Monoclinic Crystal Form. (pdb code 2jda). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Structure of A Pectin Binding Carbohydrate Binding Module Determined in An Monoclinic Crystal Form., PDB code: 2jda:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Structure of A Pectin Binding Carbohydrate Binding Module Determined in An Monoclinic Crystal Form.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Structure of A Pectin Binding Carbohydrate Binding Module Determined in An Monoclinic Crystal Form. within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca1146 b:11.9 occ:1.00 O A:ASN28 2.3 10.8 1.0 O A:ASP33 2.3 16.4 1.0 O A:ASN129 2.4 12.3 1.0 OE1 A:GLU130 2.4 17.3 1.0 O A:THR36 2.5 12.6 1.0 OG1 A:THR36 2.5 13.4 1.0 OD1 A:ASP31 2.5 14.8 1.0 C A:THR36 3.4 12.9 1.0 C A:ASP33 3.4 17.4 1.0 C A:ASN28 3.5 9.8 1.0 CG A:ASP31 3.5 13.0 1.0 C A:ASN129 3.6 11.2 1.0 CD A:GLU130 3.7 17.2 1.0 CB A:THR36 3.7 13.1 1.0 OD2 A:ASP31 3.8 16.0 1.0 CA A:THR36 3.9 13.4 1.0 N A:THR36 4.0 15.2 1.0 N A:ASP33 4.1 18.1 1.0 CA A:ASP33 4.2 17.5 1.0 CA A:ASN28 4.3 9.9 1.0 N A:ARG37 4.3 10.6 1.0 N A:VAL34 4.4 17.6 1.0 CB A:ASP33 4.4 18.7 1.0 CA A:ASN129 4.4 11.3 1.0 N A:ILE29 4.5 10.2 1.0 OE2 A:GLU130 4.5 20.9 1.0 CA A:VAL34 4.5 18.5 1.0 CA A:ILE29 4.5 10.5 1.0 CB A:ASN28 4.5 9.9 1.0 N A:ASP31 4.5 13.8 1.0 C A:ILE29 4.6 10.9 1.0 N A:GLU130 4.6 12.0 1.0 CA A:GLU130 4.6 13.1 1.0 CB A:GLU130 4.6 14.3 1.0 C A:VAL34 4.7 17.3 1.0 CA A:ARG37 4.7 10.5 1.0 CG A:GLU130 4.7 20.8 1.0 CG2 A:THR36 4.8 14.7 1.0 CB A:ASP31 4.8 14.2 1.0 N A:ALA30 4.8 11.7 1.0 N A:GLY32 4.9 16.8 1.0 O A:ILE29 4.9 12.3 1.0 CB A:ASN129 5.0 11.8 1.0

Calcium binding site 2 out of 2 in the Structure of A Pectin Binding Carbohydrate Binding Module Determined in An Monoclinic Crystal Form.


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Structure of A Pectin Binding Carbohydrate Binding Module Determined in An Monoclinic Crystal Form. within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca1146 b:11.4 occ:1.00 O B:ASN28 2.3 10.5 1.0 O B:ASP33 2.3 16.1 1.0 OE2 B:GLU130 2.4 15.8 1.0 O B:ASN129 2.4 10.6 1.0 O B:THR36 2.5 11.1 1.0 OD1 B:ASP31 2.5 13.0 1.0 OG1 B:THR36 2.5 12.0 1.0 C B:ASP33 3.4 18.3 1.0 C B:THR36 3.4 10.4 1.0 C B:ASN28 3.5 9.6 1.0 CG B:ASP31 3.5 11.9 1.0 C B:ASN129 3.6 10.8 1.0 CD B:GLU130 3.6 16.4 1.0 CB B:THR36 3.8 11.8 1.0 OD2 B:ASP31 3.9 14.4 1.0 CA B:THR36 3.9 11.0 1.0 N B:THR36 4.0 13.6 1.0 N B:ASP33 4.0 18.9 1.0 CA B:ASP33 4.1 18.4 1.0 CA B:ASN28 4.3 9.0 1.0 N B:VAL34 4.3 19.9 1.0 N B:ARG37 4.4 9.6 1.0 CB B:ASP33 4.4 18.8 1.0 OE1 B:GLU130 4.4 20.7 1.0 CA B:ASN129 4.4 10.1 1.0 CA B:VAL34 4.5 19.2 1.0 N B:ILE29 4.5 9.0 1.0 CB B:ASN28 4.5 9.0 1.0 N B:ASP31 4.5 13.4 1.0 N B:GLU130 4.5 11.4 1.0 CA B:ILE29 4.5 9.2 1.0 C B:ILE29 4.6 10.1 1.0 CA B:GLU130 4.6 12.0 1.0 CB B:GLU130 4.6 14.4 1.0 CG B:GLU130 4.6 19.1 1.0 C B:VAL34 4.7 18.0 1.0 CA B:ARG37 4.8 9.0 1.0 CB B:ASP31 4.8 13.4 1.0 CG2 B:THR36 4.8 12.8 1.0 N B:ALA30 4.8 11.6 1.0 N B:GLY32 4.9 16.9 1.0 O B:ILE29 4.9 12.4 1.0 CB B:ASN129 5.0 11.6 1.0 N B:LYS35 5.0 16.9 1.0

D.W.Abbott, S.Hrynuik, A.B.Boraston. Identification and Characterization of A Novel Periplasmic Polygalacturonic Acid Binding Protein From Yersinia Enterolitica J.Mol.Biol. V. 367 1023 2007.
ISSN: ISSN 0022-2836
PubMed: 17292916
DOI: 10.1016/J.JMB.2007.01.030