Calcium in PDB 9fli: The Structure of Gana, the Extracellular Galactanase of G.Proteiniphilus T-6

All present enzymatic activity of The Structure of Gana, the Extracellular Galactanase of G.Proteiniphilus T-6:
3.2.1.89;

The structure of The Structure of Gana, the Extracellular Galactanase of G.Proteiniphilus T-6, PDB code: 9fli was solved by N.Hadad, N.Lavid, S.Shulami, M.Dessau, Y.Shoham, G.Shoham, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	70.04 / 3.20
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	160.339, 160.339, 155.715, 90, 90, 90
R / Rfree (%)	25.3 / 28.9

The binding sites of Calcium atom in the The Structure of Gana, the Extracellular Galactanase of G.Proteiniphilus T-6 (pdb code 9fli). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the The Structure of Gana, the Extracellular Galactanase of G.Proteiniphilus T-6, PDB code: 9fli:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the The Structure of Gana, the Extracellular Galactanase of G.Proteiniphilus T-6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Structure of Gana, the Extracellular Galactanase of G.Proteiniphilus T-6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca901 b:25.0 occ:1.00 OD1 A:ASN469 2.1 16.8 1.0 OD1 A:ASP463 2.1 20.3 1.0 O A:SER558 2.3 19.9 1.0 OD1 A:ASP465 2.3 23.6 1.0 O A:HIS467 2.3 22.2 1.0 OD2 A:ASP561 2.5 17.8 1.0 CG A:ASN469 3.2 18.2 1.0 CG A:ASP463 3.3 19.4 1.0 CG A:ASP465 3.3 26.0 1.0 C A:HIS467 3.4 18.9 1.0 C A:SER558 3.5 13.5 1.0 CG A:ASP561 3.6 16.2 1.0 ND2 A:ASN469 3.8 19.7 1.0 OD2 A:ASP465 3.8 21.6 1.0 N A:HIS467 3.9 25.2 1.0 OD2 A:ASP463 4.0 21.0 1.0 CB A:HIS467 4.0 16.6 1.0 CA A:HIS467 4.0 20.6 1.0 OD1 A:ASP561 4.2 19.8 1.0 CA A:ALA559 4.3 11.3 1.0 N A:ALA559 4.4 8.5 1.0 N A:ASP465 4.4 16.5 1.0 CB A:ASP463 4.4 12.9 1.0 CA A:SER558 4.4 12.7 1.0 N A:ASN469 4.4 16.7 1.0 C A:GLU468 4.4 17.3 1.0 N A:SER558 4.5 10.9 1.0 CB A:ASN469 4.5 18.6 1.0 CB A:ASP465 4.5 24.7 1.0 N A:GLU468 4.6 20.2 1.0 N A:GLY466 4.6 15.7 1.0 O A:GLU468 4.6 14.4 1.0 CA A:ASN469 4.6 16.1 1.0 CB A:ASP561 4.7 11.0 1.0 CB A:SER558 4.7 13.5 1.0 N A:GLY464 4.7 15.5 1.0 CA A:ASP465 4.8 22.5 1.0 CG A:HIS467 4.8 15.5 1.0 OG A:SER558 4.9 16.5 1.0 CD2 A:HIS467 4.9 20.3 1.0 CA A:ASP463 4.9 11.9 1.0 CA A:GLU468 4.9 19.8 1.0 C A:ASP465 4.9 20.3 1.0 C A:ALA559 5.0 16.2 1.0

Calcium binding site 2 out of 3 in the The Structure of Gana, the Extracellular Galactanase of G.Proteiniphilus T-6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Structure of Gana, the Extracellular Galactanase of G.Proteiniphilus T-6 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca901 b:25.0 occ:1.00 OD1 B:ASP463 2.2 17.5 1.0 ND2 B:ASN469 2.2 16.5 1.0 O B:SER558 2.3 21.1 1.0 OD2 B:ASP561 2.3 15.5 1.0 OD1 B:ASP465 2.3 32.6 1.0 O B:HIS467 2.3 24.4 1.0 OD2 B:ASP465 2.9 26.7 1.0 CG B:ASP465 2.9 25.1 1.0 CG B:ASP463 3.3 21.2 1.0 CG B:ASN469 3.4 14.5 1.0 C B:HIS467 3.5 26.1 1.0 C B:SER558 3.5 16.8 1.0 CG B:ASP561 3.5 16.9 1.0 OD1 B:ASN469 3.8 16.6 1.0 OD2 B:ASP463 3.9 26.1 1.0 N B:HIS467 4.0 27.1 1.0 CA B:HIS467 4.1 27.5 1.0 N B:ASP465 4.2 21.7 1.0 OD1 B:ASP561 4.2 23.2 1.0 CB B:HIS467 4.3 17.6 1.0 CB B:ASP465 4.3 18.9 1.0 N B:SER558 4.3 19.8 1.0 CA B:SER558 4.4 19.3 1.0 N B:ASN469 4.4 20.6 1.0 N B:ALA559 4.4 13.9 1.0 C B:GLU468 4.4 19.1 1.0 CA B:ALA559 4.4 16.3 1.0 CB B:ASP463 4.5 23.4 1.0 CB B:ASN469 4.5 15.6 1.0 CB B:ASP561 4.5 13.3 1.0 CB B:SER558 4.6 18.0 1.0 N B:GLU468 4.6 21.1 1.0 OG B:SER558 4.6 17.5 1.0 N B:GLY464 4.6 18.9 1.0 N B:GLY466 4.7 20.9 1.0 O B:GLU468 4.7 21.1 1.0 CA B:ASP465 4.7 27.2 1.0 CA B:ASN469 4.7 22.2 1.0 CA B:GLU468 4.9 16.2 1.0 CA B:ASP463 4.9 24.6 1.0 C B:ASP465 5.0 29.2 1.0 C B:ALA559 5.0 16.8 1.0 N B:ASP561 5.0 17.2 1.0

Calcium binding site 3 out of 3 in the The Structure of Gana, the Extracellular Galactanase of G.Proteiniphilus T-6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The Structure of Gana, the Extracellular Galactanase of G.Proteiniphilus T-6 within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca901 b:30.3 occ:1.00 OD1 C:ASP465 2.1 28.7 1.0 ND2 C:ASN469 2.2 16.6 1.0 O C:HIS467 2.3 21.7 1.0 O C:SER558 2.3 23.4 1.0 OD1 C:ASP463 2.3 20.1 1.0 OD1 C:ASP561 2.4 21.6 1.0 CG C:ASP465 3.2 28.0 1.0 CG C:ASP463 3.2 22.5 1.0 CG C:ASN469 3.3 18.5 1.0 C C:HIS467 3.4 20.1 1.0 CG C:ASP561 3.5 18.0 1.0 C C:SER558 3.5 20.1 1.0 OD2 C:ASP463 3.6 28.2 1.0 OD1 C:ASN469 3.7 25.0 1.0 OD2 C:ASP465 3.7 31.3 1.0 N C:HIS467 3.9 20.5 1.0 OD2 C:ASP561 4.0 18.7 1.0 CA C:HIS467 4.0 19.6 1.0 CB C:HIS467 4.1 17.2 1.0 CA C:ALA559 4.1 14.3 1.0 N C:ALA559 4.3 15.2 1.0 N C:ASP465 4.3 19.8 1.0 CB C:ASP465 4.4 21.6 1.0 C C:GLU468 4.4 21.8 1.0 CB C:ASP463 4.4 19.0 1.0 N C:ASN469 4.5 24.7 1.0 N C:GLU468 4.5 23.6 1.0 N C:GLY466 4.5 19.4 1.0 CB C:ASN469 4.5 21.2 1.0 CB C:ASP561 4.6 11.4 1.0 N C:GLY464 4.6 27.6 1.0 O C:GLU468 4.6 22.3 1.0 CA C:SER558 4.6 22.3 1.0 CA C:ASN469 4.7 23.5 1.0 N C:SER558 4.7 19.8 1.0 CA C:ASP465 4.8 20.5 1.0 C C:ALA559 4.8 19.8 1.0 CA C:GLU468 4.8 23.1 1.0 CA C:ASP463 4.9 19.6 1.0 C C:ASP465 4.9 20.3 1.0 C C:GLY466 5.0 25.0 1.0

N.Hadad, N.Lavid, S.Shulami, M.Dessau, Y.Shoham, G.Shoham. The Structure of Gana, the Extracellular Galactanase of G.Proteiniphilus T-6 To Be Published.