Atomistry » Sodium » PDB 7ndi-7o1w » 7nei
Atomistry »
  Sodium »
    PDB 7ndi-7o1w »
      7nei »

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

Protein crystallography data

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

Sodium Binding Sites:

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 7nei

Go back to Sodium Binding Sites List in 7nei
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 7nei

Go back to Sodium Binding Sites List in 7nei
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

Reference:

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
Page generated: Tue Oct 8 18:09:04 2024

Last articles

Zn in 9FD2
Zn in 9GUW
Zn in 9GUX
Zn in 9F7C
Zn in 9GUR
Zn in 9F7A
Zn in 9DDE
Zn in 9DBY
Zn in 9EBZ
Zn in 9DGG
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy