Atomistry » Sodium » PDB 3pkk-3pzs » 3pzr
Atomistry »
  Sodium »
    PDB 3pkk-3pzs »
      3pzr »

Sodium in PDB 3pzr: Crystals Structure of Aspartate Beta-Semialdehyde Dehydrogenase From Vibrio Cholerae with Nadp and Product of S-Carbamoyl-L-Cysteine

Enzymatic activity of Crystals Structure of Aspartate Beta-Semialdehyde Dehydrogenase From Vibrio Cholerae with Nadp and Product of S-Carbamoyl-L-Cysteine

All present enzymatic activity of Crystals Structure of Aspartate Beta-Semialdehyde Dehydrogenase From Vibrio Cholerae with Nadp and Product of S-Carbamoyl-L-Cysteine:
1.2.1.11;

Protein crystallography data

The structure of Crystals Structure of Aspartate Beta-Semialdehyde Dehydrogenase From Vibrio Cholerae with Nadp and Product of S-Carbamoyl-L-Cysteine, PDB code: 3pzr was solved by A.G.Pavlovsky, N.Potente, R.E.Viola, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 23.00 / 1.75
Space group P 4 21 2
Cell size a, b, c (Å), α, β, γ (°) 155.019, 155.019, 69.178, 90.00, 90.00, 90.00
R / Rfree (%) 18.7 / 21.1

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystals Structure of Aspartate Beta-Semialdehyde Dehydrogenase From Vibrio Cholerae with Nadp and Product of S-Carbamoyl-L-Cysteine (pdb code 3pzr). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystals Structure of Aspartate Beta-Semialdehyde Dehydrogenase From Vibrio Cholerae with Nadp and Product of S-Carbamoyl-L-Cysteine, PDB code: 3pzr:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 3pzr

Go back to Sodium Binding Sites List in 3pzr
Sodium binding site 1 out of 2 in the Crystals Structure of Aspartate Beta-Semialdehyde Dehydrogenase From Vibrio Cholerae with Nadp and Product of S-Carbamoyl-L-Cysteine


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystals Structure of Aspartate Beta-Semialdehyde Dehydrogenase From Vibrio Cholerae with Nadp and Product of S-Carbamoyl-L-Cysteine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na373

b:19.4
occ:1.00
 O A:PHE212 2.3 11.1 1.0
O A:HOH437 2.3 11.3 1.0
O A:HOH441 2.4 11.2 1.0
OG1 A:THR214 2.5 11.3 1.0
O A:GLY210 2.9 12.6 1.0
C A:PHE212 3.5 10.9 1.0
CB A:THR214 3.6 11.4 1.0
N A:THR214 3.7 11.3 1.0
C A:GLY210 3.9 12.4 1.0
CG2 A:THR214 3.9 11.5 1.0
O A:HOH1000 4.0 27.0 1.0
CA A:THR214 4.2 11.4 1.0
N A:PHE212 4.3 11.5 1.0
O A:SER209 4.3 10.9 1.0
CA A:PHE212 4.4 10.8 1.0
C A:PRO213 4.5 10.9 1.0
CA A:GLY210 4.5 12.2 1.0
N A:PRO213 4.5 10.9 1.0
CA A:PRO213 4.6 11.0 1.0
O A:HOH590 4.6 25.7 1.0
CB A:PHE212 4.6 10.3 1.0
C A:SER211 4.7 12.1 1.0
C A:THR214 4.8 11.9 1.0
N A:SER211 4.9 12.6 1.0

Sodium binding site 2 out of 2 in 3pzr

Go back to Sodium Binding Sites List in 3pzr
Sodium binding site 2 out of 2 in the Crystals Structure of Aspartate Beta-Semialdehyde Dehydrogenase From Vibrio Cholerae with Nadp and Product of S-Carbamoyl-L-Cysteine


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystals Structure of Aspartate Beta-Semialdehyde Dehydrogenase From Vibrio Cholerae with Nadp and Product of S-Carbamoyl-L-Cysteine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na373

b:23.1
occ:1.00
 O B:HOH454 2.3 11.4 1.0
O B:HOH445 2.4 20.4 1.0
O B:HOH458 2.4 16.1 1.0
O B:HOH438 2.5 13.4 1.0
O B:GLY210 2.5 13.1 1.0
O B:PHE212 2.6 12.0 1.0
C B:PHE212 3.6 11.8 1.0
C B:GLY210 3.7 13.2 1.0
O B:HOH375 4.1 7.9 1.0
C B:SER211 4.1 12.8 1.0
N B:PHE212 4.2 12.1 1.0
N B:THR214 4.2 12.2 1.0
O B:HOH383 4.2 13.5 1.0
CA B:PRO213 4.3 11.9 1.0
OG1 B:THR214 4.3 12.7 1.0
N B:PRO213 4.4 11.7 1.0
O B:SER211 4.4 12.6 1.0
CA B:SER211 4.4 13.5 1.0
N B:SER211 4.5 13.4 1.0
CA B:PHE212 4.5 11.6 1.0
O B:HOH466 4.6 29.9 1.0
CA B:GLY210 4.7 13.1 1.0
C B:PRO213 4.8 11.9 1.0

Reference:

A.G.Pavlovsky, X.Liu, C.R.Faehnle, N.Potente, R.E.Viola. Structural Characterization of Inhibitors with Selectivity Against Members of A Homologous Enzyme Family. Chem.Biol.Drug Des. V. 79 128 2012.
ISSN: ISSN 1747-0277
PubMed: 22039970
DOI: 10.1111/J.1747-0285.2011.01267.X
Page generated: Tue Dec 15 06:22:11 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy