Sodium in PDB 5zu6: A CBM32 Derived From Alginate Lyase B (Alyb-OU02)

The structure of A CBM32 Derived From Alginate Lyase B (Alyb-OU02), PDB code: 5zu6 was solved by W.Liu, Q.Lyu, K.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.94 / 1.40
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	43.849, 60.679, 66.894, 90.00, 90.00, 90.00
R / Rfree (%)	18.9 / 21.2

The binding sites of Sodium atom in the A CBM32 Derived From Alginate Lyase B (Alyb-OU02) (pdb code 5zu6). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the A CBM32 Derived From Alginate Lyase B (Alyb-OU02), PDB code: 5zu6:

Sodium binding site 1 out of 1 in the A CBM32 Derived From Alginate Lyase B (Alyb-OU02)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of A CBM32 Derived From Alginate Lyase B (Alyb-OU02) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:12.1 occ:1.00 OG1 A:THR38 2.3 12.6 1.0 O A:ARG30 2.3 12.0 1.0 O A:ASP35 2.3 13.4 1.0 O A:THR133 2.4 10.1 1.0 O A:THR38 2.5 12.8 1.0 OD1 A:ASP33 2.5 13.1 1.0 C A:THR38 3.2 12.6 1.0 C A:THR133 3.5 8.5 1.0 C A:ARG30 3.5 11.9 1.0 O A:HOH363 3.5 13.5 1.0 CB A:THR38 3.5 13.6 1.0 C A:ASP35 3.5 14.1 1.0 CG A:ASP33 3.5 13.7 1.0 CA A:THR38 3.8 13.4 1.0 OD2 A:ASP33 3.8 16.0 1.0 N A:THR38 3.9 14.9 1.0 CA A:THR133 4.1 8.6 1.0 N A:ASP35 4.1 14.3 1.0 CB A:ASP35 4.1 15.5 1.0 CA A:ASP35 4.1 14.2 1.0 N A:ARG39 4.1 11.8 1.0 CA A:ARG30 4.2 12.2 1.0 CB A:ARG30 4.3 12.7 1.0 CB A:THR133 4.3 10.0 1.0 N A:LEU31 4.5 11.0 1.0 N A:LEU36 4.6 13.5 1.0 CA A:ARG39 4.6 11.6 1.0 N A:GLY134 4.6 8.3 1.0 CG2 A:THR38 4.7 14.9 1.0 CA A:LEU31 4.8 10.1 1.0 CA A:LEU36 4.8 13.4 1.0 CB A:ASP33 4.9 13.8 1.0 C A:LEU36 5.0 13.2 1.0 C A:LEU31 5.0 10.9 1.0 CA A:GLY134 5.0 7.9 1.0 N A:ASP33 5.0 12.9 1.0

Q.Lyu, K.Zhang, Q.Zhu, Z.Li, Y.Liu, E.Fitzek, T.Yohe, L.Zhao, W.Li, T.Liu, Y.Yin, W.Liu. Structural and Biochemical Characterization of A Multidomain Alginate Lyase Reveals A Novel Role of CBM32 in Cazymes Biochim. Biophys. Acta V.1862 1862 2018.
ISSN: ISSN 0006-3002
PubMed: 29864445
DOI: 10.1016/J.BBAGEN.2018.05.024