Potassium in PDB 5gzk: Endo-Beta-1,2-Glucanase From Chitinophaga Pinensis - Sophorotriose and Glucose Complex

The structure of Endo-Beta-1,2-Glucanase From Chitinophaga Pinensis - Sophorotriose and Glucose Complex, PDB code: 5gzk was solved by K.Abe, M.Nakajima, T.Arakawa, S.Fushinobu, H.Taguchi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.46 / 1.70
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	126.106, 117.401, 75.554, 90.00, 92.56, 90.00
R / Rfree (%)	16.6 / 19.9

The structure of Endo-Beta-1,2-Glucanase From Chitinophaga Pinensis - Sophorotriose and Glucose Complex also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Potassium atom in the Endo-Beta-1,2-Glucanase From Chitinophaga Pinensis - Sophorotriose and Glucose Complex (pdb code 5gzk). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Endo-Beta-1,2-Glucanase From Chitinophaga Pinensis - Sophorotriose and Glucose Complex, PDB code: 5gzk:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Endo-Beta-1,2-Glucanase From Chitinophaga Pinensis - Sophorotriose and Glucose Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Endo-Beta-1,2-Glucanase From Chitinophaga Pinensis - Sophorotriose and Glucose Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:K502 b:46.6 occ:1.00 O A:HOH777 2.4 30.6 1.0 OD1 A:ASN65 2.4 26.4 1.0 O A:HOH707 2.5 31.5 1.0 O A:TYR62 2.6 14.1 1.0 O A:HOH778 2.6 13.0 1.0 CG A:ASN65 3.5 28.3 1.0 C A:TYR62 3.6 16.2 1.0 O A:HOH612 4.0 25.3 1.0 O A:HOH885 4.0 26.7 1.0 ND2 A:ASN65 4.0 34.1 1.0 CA A:PRO63 4.2 19.5 1.0 O A:PRO63 4.2 20.2 1.0 N A:TYR62 4.3 12.9 1.0 N A:PRO63 4.3 17.3 1.0 C A:PRO63 4.4 20.0 1.0 N A:ASN65 4.4 16.6 1.0 CA A:TYR62 4.4 15.4 1.0 OD1 A:ASN61 4.5 26.0 1.0 CA A:ASN65 4.6 19.3 1.0 CB A:ASN65 4.6 22.1 1.0 CB A:TYR62 4.8 13.9 1.0

Potassium binding site 2 out of 2 in the Endo-Beta-1,2-Glucanase From Chitinophaga Pinensis - Sophorotriose and Glucose Complex


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Endo-Beta-1,2-Glucanase From Chitinophaga Pinensis - Sophorotriose and Glucose Complex within 5.0Å range: probe atom residue distance (Å) B Occ B:K502 b:42.7 occ:1.00 OD1 B:ASN65 2.4 21.7 1.0 O B:HOH614 2.4 24.0 1.0 O B:HOH817 2.5 28.1 1.0 O B:TYR62 2.5 14.3 1.0 O B:HOH761 2.7 16.4 1.0 CG B:ASN65 3.4 24.7 1.0 C B:TYR62 3.5 16.9 1.0 ND2 B:ASN65 3.8 30.4 1.0 O B:HOH707 4.0 21.5 1.0 CA B:PRO63 4.1 21.2 1.0 O B:PRO63 4.2 19.3 1.0 N B:PRO63 4.2 18.5 1.0 N B:TYR62 4.2 13.7 1.0 C B:PRO63 4.3 20.9 1.0 CA B:TYR62 4.3 15.7 1.0 N B:ASN65 4.4 16.5 1.0 OD1 B:ASN61 4.4 26.5 1.0 CA B:ASN65 4.6 18.9 1.0 CB B:ASN65 4.6 21.3 1.0 CB B:TYR62 4.7 15.8 1.0 N B:GLU64 4.9 19.7 1.0

K.Abe, M.Nakajima, T.Yamashita, H.Matsunaga, S.Kamisuki, T.Nihira, Y.Takahashi, N.Sugimoto, A.Miyanaga, H.Nakai, T.Arakawa, S.Fushinobu, H.Taguchi. Biochemical and Structural Analyses of A Bacterial Endo-Beta-1,2-Glucanase Reveal A New Glycoside Hydrolase Family J. Biol. Chem. V. 292 7487 2017.
ISSN: ESSN 1083-351X
PubMed: 28270506
DOI: 10.1074/JBC.M116.762724