Sodium in PDB 7nei: Novel Polyester Hydrolase Leipzig 7 (Phl-7)

The structure of Novel Polyester Hydrolase Leipzig 7 (Phl-7), PDB code: 7nei was solved by P.K.Richter, N.Strater, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.22 / 1.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	56.35, 97.68, 101.1, 90, 90, 90
R / Rfree (%)	13.2 / 15.9

The binding sites of Sodium atom in the Novel Polyester Hydrolase Leipzig 7 (Phl-7) (pdb code 7nei). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Novel Polyester Hydrolase Leipzig 7 (Phl-7), PDB code: 7nei:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Novel Polyester Hydrolase Leipzig 7 (Phl-7)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Novel Polyester Hydrolase Leipzig 7 (Phl-7) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na300 b:19.5 occ:1.00 O A:PHE230 2.3 13.8 1.0 O A:HOH658 2.4 27.1 1.0 OE2 A:GLU148 2.4 21.0 1.0 OD1 A:ASP233 2.5 21.9 1.0 O A:HOH575 2.5 18.2 1.0 O A:HOH589 2.5 21.5 1.0 HB3 A:GLU148 3.2 15.9 1.0 CD A:GLU148 3.3 20.4 1.0 CG A:ASP233 3.3 22.5 1.0 C A:PHE230 3.4 12.2 1.0 OD2 A:ASP233 3.5 32.0 1.0 HA A:PHE230 3.6 13.7 1.0 O A:HOH726 3.9 40.7 1.0 CB A:GLU148 4.0 13.2 1.0 CG A:GLU148 4.0 16.1 1.0 O A:HOH492 4.0 42.0 1.0 HG3 A:GLU148 4.1 19.3 1.0 CA A:PHE230 4.1 11.4 1.0 O A:HOH435 4.1 37.7 1.0 OE1 A:GLU148 4.1 24.6 1.0 HA A:VAL231 4.2 14.0 1.0 H A:ASP233 4.2 15.9 1.0 HB3 A:PHE230 4.2 14.3 1.0 HA A:GLU148 4.3 14.5 1.0 O A:HOH718 4.4 30.6 1.0 HD1 A:PHE230 4.4 15.2 1.0 O A:HOH804 4.4 42.2 1.0 O A:HOH735 4.5 43.4 1.0 N A:VAL231 4.5 12.1 1.0 O A:GLU148 4.6 12.6 1.0 O A:VAL231 4.6 12.1 1.0 HA A:ASP233 4.6 17.2 1.0 CA A:GLU148 4.6 12.1 1.0 CA A:VAL231 4.7 11.6 1.0 C A:VAL231 4.7 11.9 1.0 CB A:ASP233 4.7 16.9 1.0 N A:ASP233 4.7 13.2 1.0 CB A:PHE230 4.7 11.9 1.0 HB2 A:GLU148 4.7 15.9 1.0 HG2 A:GLU148 4.9 19.3 1.0 CA A:ASP233 4.9 14.3 1.0

Sodium binding site 2 out of 2 in the Novel Polyester Hydrolase Leipzig 7 (Phl-7)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Novel Polyester Hydrolase Leipzig 7 (Phl-7) within 5.0Å range: probe atom residue distance (Å) B Occ B:Na300 b:18.3 occ:1.00 O B:PHE230 2.3 13.3 1.0 O B:HOH701 2.4 26.9 1.0 OD1 B:ASP233 2.4 23.8 1.0 O B:HOH622 2.5 21.3 1.0 O B:HOH589 2.5 17.5 1.0 OE2 B:GLU148 2.6 21.7 1.0 HB3 B:GLU148 3.2 16.1 1.0 CG B:ASP233 3.4 23.9 1.0 CD B:GLU148 3.5 21.1 1.0 C B:PHE230 3.5 11.5 1.0 HA B:PHE230 3.6 13.5 1.0 OD2 B:ASP233 3.7 35.6 1.0 O B:HOH488 4.0 49.2 1.0 CB B:GLU148 4.0 13.4 1.0 O B:HOH663 4.1 59.3 1.0 CG B:GLU148 4.1 17.3 1.0 CA B:PHE230 4.1 11.2 1.0 HA B:VAL231 4.1 14.0 1.0 HG3 B:GLU148 4.1 20.8 1.0 H B:ASP233 4.2 15.1 1.0 HB3 B:PHE230 4.2 13.7 1.0 OE1 B:GLU148 4.3 26.4 1.0 O B:HOH709 4.3 44.0 1.0 HA B:GLU148 4.4 13.0 1.0 O B:HOH813 4.4 41.2 1.0 HD1 B:PHE230 4.5 13.1 1.0 N B:VAL231 4.5 11.0 1.0 O B:HOH742 4.5 33.2 1.0 O B:VAL231 4.6 11.7 1.0 HA B:ASP233 4.6 15.7 1.0 CA B:VAL231 4.6 11.7 1.0 O B:GLU148 4.7 11.8 1.0 C B:VAL231 4.7 11.7 1.0 N B:ASP233 4.7 12.6 1.0 CB B:ASP233 4.7 16.3 1.0 CA B:GLU148 4.7 10.8 1.0 CB B:PHE230 4.8 11.4 1.0 HB2 B:GLU148 4.8 16.1 1.0 CA B:ASP233 4.9 13.1 1.0

C.Sonnendecker, J.Oeser, P.K.Richter, P.Hille, Z.Zhao, C.Fischer, H.Lippold, P.Blazquez-Sanchez, F.Engelberger, C.A.Ramirez-Sarmiento, T.Oeser, Y.Lihanova, R.Frank, H.G.Jahnke, S.Billig, B.Abel, N.Strater, J.Matysik, W.Zimmermann. Low Carbon Footprint Recycling of Post-Consumer Pet Plastic with A Metagenomic Polyester Hydrolase. Chemsuschem 2021.
ISSN: ISSN 1864-564X
PubMed: 34129279
DOI: 10.1002/CSSC.202101062