Calcium in PDB 4gn9: Mouse SMP30/Gnl-Glucose Complex

All present enzymatic activity of Mouse SMP30/Gnl-Glucose Complex:
3.1.1.17;

The structure of Mouse SMP30/Gnl-Glucose Complex, PDB code: 4gn9 was solved by S.Aizawa, M.Senda, A.Harada, N.Maruyama, T.Ishida, T.Aigaki, A.Ishigami, T.Senda, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	75.62 / 2.00
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	101.863, 101.863, 146.826, 90.00, 90.00, 120.00
R / Rfree (%)	17.6 / 20.8

The binding sites of Calcium atom in the Mouse SMP30/Gnl-Glucose Complex (pdb code 4gn9). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Mouse SMP30/Gnl-Glucose Complex, PDB code: 4gn9:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Mouse SMP30/Gnl-Glucose Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Mouse SMP30/Gnl-Glucose Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:40.9 occ:1.00 O1 A:BGC304 2.0 31.8 1.0 OD2 A:ASP204 2.1 32.7 1.0 OE2 A:GLU18 2.2 33.7 1.0 O A:HOH556 2.3 32.1 1.0 OD1 A:ASN154 2.3 24.9 1.0 O A:HOH576 2.6 37.6 1.0 CD A:GLU18 2.9 30.9 1.0 CG A:ASN154 3.1 25.0 1.0 C1 A:BGC304 3.2 27.7 1.0 CG A:ASP204 3.2 29.5 1.0 ND2 A:ASN154 3.2 22.7 1.0 OE1 A:GLU18 3.2 37.0 1.0 OD1 A:ASP204 3.6 29.4 1.0 ND2 A:ASN103 3.6 23.1 1.0 O5 A:BGC304 3.6 32.8 1.0 CG A:GLU18 4.2 24.5 1.0 O A:THR246 4.2 25.7 1.0 C2 A:BGC304 4.3 33.0 1.0 N A:GLY205 4.4 24.2 1.0 CG A:ASN103 4.4 26.3 1.0 OD1 A:ASN103 4.4 23.5 1.0 CB A:ASP204 4.5 24.9 1.0 OD1 A:ASP104 4.5 28.2 1.0 CB A:ASP104 4.5 23.8 1.0 C A:ASP204 4.5 26.3 1.0 CB A:ASN154 4.6 24.3 1.0 CG A:ASP104 4.6 31.1 1.0 O2 A:BGC304 4.6 33.4 1.0 CA A:ASP204 4.7 21.7 1.0 CA A:GLY205 4.9 25.3 1.0 O A:ASP204 5.0 25.7 1.0

Calcium binding site 2 out of 2 in the Mouse SMP30/Gnl-Glucose Complex


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Mouse SMP30/Gnl-Glucose Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca301 b:35.4 occ:0.29 O1 B:BGC306 1.9 29.2 1.0 OE2 B:GLU18 2.1 40.4 1.0 O B:HOH434 2.2 33.4 1.0 OD2 B:ASP204 2.2 34.7 1.0 OD1 B:ASN154 2.4 28.0 1.0 CD B:GLU18 2.7 32.5 1.0 OE1 B:GLU18 3.0 35.2 1.0 CG B:ASN154 3.2 26.8 1.0 C1 B:BGC306 3.2 34.8 1.0 O B:HOH418 3.4 31.5 1.0 ND2 B:ASN154 3.4 26.8 1.0 CG B:ASP204 3.4 29.4 1.0 ND2 B:ASN103 3.6 25.8 1.0 O5 B:BGC306 3.8 38.0 1.0 OD1 B:ASP204 3.8 30.1 1.0 CG B:GLU18 3.9 27.1 1.0 OD1 B:ASN103 4.3 24.5 1.0 CG B:ASN103 4.3 28.0 1.0 C2 B:BGC306 4.4 36.6 1.0 O B:THR246 4.4 27.7 1.0 N B:GLY205 4.5 25.3 1.0 CB B:ASP104 4.5 27.3 1.0 OD1 B:ASP104 4.5 31.6 1.0 O2 B:BGC306 4.6 31.5 1.0 CG B:ASP104 4.6 25.6 1.0 CB B:ASP204 4.6 24.7 1.0 C B:ASP204 4.6 27.3 1.0 CB B:ASN154 4.6 27.5 1.0 CA B:ASP204 4.9 25.2 1.0 CB B:GLU18 4.9 27.2 1.0

S.Aizawa, M.Senda, A.Harada, N.Maruyama, T.Ishida, T.Aigaki, A.Ishigami, T.Senda. Structural Basis of the Gamma-Lactone-Ring Formation in Ascorbic Acid Biosynthesis By the Senescence Marker Protein-30/Gluconolactonase Plos One V. 8 53706 2013.
ISSN: ESSN 1932-6203
PubMed: 23349732
DOI: 10.1371/JOURNAL.PONE.0053706