Sodium in PDB 2f6d: Structure of the Complex of A Glucoamylase From Saccharomycopsis Fibuligera with Acarbose

All present enzymatic activity of Structure of the Complex of A Glucoamylase From Saccharomycopsis Fibuligera with Acarbose:
3.2.1.3;

The structure of Structure of the Complex of A Glucoamylase From Saccharomycopsis Fibuligera with Acarbose, PDB code: 2f6d was solved by J.Sevcik, E.Hostinova, A.Solovicova, J.Gasperik, Z.Dauter, K.S.Wilson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 1.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	56.580, 85.350, 97.510, 90.00, 90.00, 90.00
R / Rfree (%)	11.8 / 16

The binding sites of Sodium atom in the Structure of the Complex of A Glucoamylase From Saccharomycopsis Fibuligera with Acarbose (pdb code 2f6d). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structure of the Complex of A Glucoamylase From Saccharomycopsis Fibuligera with Acarbose, PDB code: 2f6d:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Structure of the Complex of A Glucoamylase From Saccharomycopsis Fibuligera with Acarbose


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the Complex of A Glucoamylase From Saccharomycopsis Fibuligera with Acarbose within 5.0Å range: probe atom residue distance (Å) B Occ A:Na997 b:17.8 occ:1.00 O A:HOH1646 2.0 27.6 1.0 OD1 A:ASP310 2.1 15.1 1.0 O A:HOH1620 2.2 27.1 1.0 O A:HOH1627 2.2 32.6 1.0 O A:HOH1764 2.3 40.4 1.0 CG A:ASP310 3.3 11.7 1.0 CB A:ASP310 3.6 10.3 1.0 O A:SER305 3.8 24.6 1.0 O4 A:PO4900 4.3 28.4 1.0 OD2 A:ASP310 4.3 10.8 1.0 OD1 A:ASP379 4.4 14.6 1.0 O A:HOH1567 4.4 27.6 1.0 NZ A:LYS375 4.5 13.1 1.0 OD2 A:ASP312 4.8 21.3 1.0 O1 A:PO4900 4.9 32.4 1.0

Sodium binding site 2 out of 2 in the Structure of the Complex of A Glucoamylase From Saccharomycopsis Fibuligera with Acarbose


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of the Complex of A Glucoamylase From Saccharomycopsis Fibuligera with Acarbose within 5.0Å range: probe atom residue distance (Å) B Occ A:Na998 b:18.6 occ:1.00 O A:HOH1613 2.3 24.1 1.0 O A:HOH1000 2.4 25.7 1.0 O A:ILE177 2.4 21.0 1.0 O A:HOH999 2.5 28.6 1.0 O A:HOH1804 3.4 43.5 1.0 C A:ILE177 3.6 21.2 1.0 O A:PHE179 4.1 17.9 1.0 O A:HOH1121 4.2 24.9 1.0 OG A:SER180 4.2 23.4 1.0 CA A:ILE177 4.4 22.8 1.0 N A:PHE179 4.5 16.9 1.0 O A:SER174 4.5 22.6 1.0 O A:HOH1488 4.5 31.9 1.0 N A:ILE177 4.6 25.0 1.0 CB A:ILE177 4.6 22.9 1.0 O A:HOH1569 4.6 38.4 1.0 C A:PHE179 4.7 17.0 1.0 N A:ASN178 4.7 18.9 1.0 O A:THR172 4.8 19.6 1.0 CA A:ASN178 4.9 18.7 1.0

J.Sevcik, E.Hostinova, A.Solovicova, J.Gasperik, Z.Dauter, K.S.Wilson. Structure of the Complex of A Yeast Glucoamylase with Acarbose Reveals the Presence of A Raw Starch Binding Site on the Catalytic Domain. Febs J. V. 273 2161 2006.
ISSN: ISSN 1742-464X
PubMed: 16649993
DOI: 10.1111/J.1742-4658.2006.05230.X