Zinc in PDB 5uas: Structure of A New Family of Polysaccharide Lyase PL25-Ulvanlyase Bound to -[Glca(1-4)RHA3S]-

The structure of Structure of A New Family of Polysaccharide Lyase PL25-Ulvanlyase Bound to -[Glca(1-4)RHA3S]-, PDB code: 5uas was solved by T.S.Ulaganathan, M.Cygler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.80 / 1.60
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	173.620, 71.810, 109.270, 90.00, 122.44, 90.00
R / Rfree (%)	18.2 / 21.2

The structure of Structure of A New Family of Polysaccharide Lyase PL25-Ulvanlyase Bound to -[Glca(1-4)RHA3S]- also contains other interesting chemical elements:

Potassium	(K)	2 atoms
Chlorine	(Cl)	2 atoms

The binding sites of Zinc atom in the Structure of A New Family of Polysaccharide Lyase PL25-Ulvanlyase Bound to -[Glca(1-4)RHA3S]- (pdb code 5uas). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of A New Family of Polysaccharide Lyase PL25-Ulvanlyase Bound to -[Glca(1-4)RHA3S]-, PDB code: 5uas:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of A New Family of Polysaccharide Lyase PL25-Ulvanlyase Bound to -[Glca(1-4)RHA3S]-


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of A New Family of Polysaccharide Lyase PL25-Ulvanlyase Bound to -[Glca(1-4)RHA3S]- within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn601 b:21.9 occ:1.00 NE2 A:HIS278 1.9 29.4 1.0 ND1 A:HIS208 2.1 19.9 1.0 NE2 A:HIS264 2.1 21.4 1.0 SG A:CYS266 2.2 23.3 1.0 CD2 A:HIS278 2.8 29.9 1.0 CE1 A:HIS208 3.0 19.5 1.0 CD2 A:HIS264 3.0 17.6 1.0 CE1 A:HIS278 3.0 30.5 1.0 CE1 A:HIS264 3.1 20.1 1.0 CG A:HIS208 3.1 19.1 1.0 CB A:CYS266 3.3 23.7 1.0 CB A:HIS208 3.5 19.1 1.0 CA A:CYS266 3.7 23.7 1.0 CG A:HIS278 4.0 30.3 1.0 ND1 A:HIS278 4.1 30.6 1.0 NE2 A:HIS208 4.1 18.9 1.0 CG A:HIS264 4.2 17.1 1.0 ND1 A:HIS264 4.2 18.6 1.0 CD2 A:HIS208 4.2 17.9 1.0 O A:THR279 4.4 25.1 1.0 O A:HOH919 4.5 27.3 1.0 C A:CYS266 4.6 25.0 1.0 O A:HOH1133 4.8 35.5 1.0 N A:CYS266 4.8 20.8 1.0 CA A:HIS208 5.0 17.4 1.0 N A:TRP267 5.0 27.0 1.0

Zinc binding site 2 out of 2 in the Structure of A New Family of Polysaccharide Lyase PL25-Ulvanlyase Bound to -[Glca(1-4)RHA3S]-


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of A New Family of Polysaccharide Lyase PL25-Ulvanlyase Bound to -[Glca(1-4)RHA3S]- within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn601 b:20.9 occ:1.00 NE2 B:HIS278 2.0 28.1 1.0 NE2 B:HIS264 2.0 23.9 1.0 ND1 B:HIS208 2.1 20.9 1.0 SG B:CYS266 2.3 24.9 1.0 CE1 B:HIS208 3.0 21.0 1.0 CE1 B:HIS278 3.0 27.9 1.0 CD2 B:HIS278 3.0 28.5 1.0 CD2 B:HIS264 3.0 21.6 1.0 CE1 B:HIS264 3.1 22.4 1.0 CG B:HIS208 3.1 19.5 1.0 CB B:CYS266 3.2 23.6 1.0 CB B:HIS208 3.5 18.1 1.0 CA B:CYS266 3.7 23.3 1.0 ND1 B:HIS278 4.1 29.5 1.0 CG B:HIS278 4.1 30.1 1.0 NE2 B:HIS208 4.1 17.8 1.0 CG B:HIS264 4.2 19.0 1.0 ND1 B:HIS264 4.2 21.0 1.0 CD2 B:HIS208 4.2 19.9 1.0 O B:THR279 4.4 27.9 1.0 O B:HOH780 4.5 26.5 1.0 C B:CYS266 4.5 26.7 1.0 N B:CYS266 4.8 23.8 1.0 N B:TRP267 4.9 27.0 1.0 CA B:HIS208 5.0 15.9 1.0

T.Ulaganathan, M.T.Boniecki, E.Foran, V.Buravenkov, N.Mizrachi, E.Banin, W.Helbert, M.Cygler. New Ulvan-Degrading Polysaccharide Lyase Family: Structure and Catalytic Mechanism Suggests Convergent Evolution of Active Site Architecture. Acs Chem. Biol. V. 12 1269 2017.
ISSN: ESSN 1554-8937
PubMed: 28290654
DOI: 10.1021/ACSCHEMBIO.7B00126