Atomistry » Potassium » PDB 4zun-5avw » 5a2d
Atomistry »
  Potassium »
    PDB 4zun-5avw »
      5a2d »

Potassium in PDB 5a2d: Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde

Enzymatic activity of Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde

All present enzymatic activity of Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde:
1.2.1.8;

Protein crystallography data

The structure of Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde, PDB code: 5a2d was solved by A.Zarate-Romero, R.A.Munoz-Clares, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.70 / 1.98
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 69.720, 82.286, 87.717, 79.41, 84.75, 77.40
R / Rfree (%) 19.4 / 23.8

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde (pdb code 5a2d). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde, PDB code: 5a2d:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in 5a2d

Go back to Potassium Binding Sites List in 5a2d
Potassium binding site 1 out of 4 in the Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K1499

b:43.4
occ:1.00
 O A:ASP96 2.6 36.5 1.0
O A:LEU186 2.6 34.0 1.0
OD1 A:ASP96 2.7 43.5 1.0
O A:HOH2022 2.9 33.7 1.0
O A:HOH2023 2.9 54.1 1.0
O A:ILE28 3.1 32.1 1.0
C A:ASP96 3.6 36.9 1.0
CG A:ASP96 3.8 44.4 1.0
C A:LEU186 3.8 32.6 1.0
CA A:ASP96 4.0 38.8 1.0
C A:ILE28 4.2 37.4 1.0
N A:ILE28 4.3 33.3 1.0
O A:HOH2072 4.3 34.6 1.0
CD A:PRO30 4.3 31.8 1.0
CG1 A:VAL27 4.4 33.6 1.0
CD1 A:ILE334 4.4 30.2 1.0
CB A:ASP96 4.5 41.9 1.0
CA A:ALA187 4.5 34.7 1.0
O A:HOH2020 4.5 33.2 1.0
O A:HOH2008 4.6 45.1 1.0
N A:ALA187 4.6 33.0 1.0
OD2 A:ASP96 4.7 43.4 1.0
N A:SER97 4.7 32.0 1.0
CA A:ILE28 4.7 35.5 1.0
CA A:LEU186 4.7 29.6 1.0
CB A:ALA187 4.8 31.7 1.0
O A:ILE334 5.0 32.2 1.0
CG A:PRO30 5.0 37.8 1.0

Potassium binding site 2 out of 4 in 5a2d

Go back to Potassium Binding Sites List in 5a2d
Potassium binding site 2 out of 4 in the Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K1499

b:45.7
occ:0.63
 O B:HOH2018 2.4 68.4 1.0
O B:ASP96 2.6 60.8 1.0
OD1 B:ASP96 2.7 55.5 1.0
O B:LEU186 2.7 48.4 1.0
O B:HOH2015 2.9 51.2 1.0
O B:ILE28 3.0 55.5 1.0
C B:ASP96 3.4 60.9 1.0
CA B:ASP96 3.4 64.3 1.0
CG B:ASP96 3.6 58.0 1.0
C B:LEU186 3.9 49.0 1.0
C B:ILE28 4.0 61.6 1.0
N B:ILE28 4.1 62.7 1.0
CB B:ASP96 4.1 61.7 1.0
O B:HOH2046 4.3 42.3 1.0
CG1 B:VAL27 4.3 53.8 1.0
CD B:PRO30 4.4 56.6 1.0
O B:HOH2016 4.4 53.2 1.0
OD2 B:ASP96 4.5 56.9 1.0
N B:SER97 4.6 58.9 1.0
CA B:ILE28 4.6 64.8 1.0
N B:ASP96 4.6 70.8 1.0
CD1 B:ILE334 4.6 53.1 1.0
CA B:ALA187 4.6 47.4 1.0
N B:ALA187 4.7 47.2 1.0
CA B:LEU186 4.9 48.2 1.0
C B:VAL27 4.9 61.8 1.0

Potassium binding site 3 out of 4 in 5a2d

Go back to Potassium Binding Sites List in 5a2d
Potassium binding site 3 out of 4 in the Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K1498

b:48.6
occ:0.65
 O C:LEU186 2.8 65.8 1.0
OD1 C:ASP96 2.8 71.5 1.0
O C:HOH2037 2.9 56.0 1.0
O C:ASP96 2.9 72.1 1.0
O C:ILE28 3.0 77.0 1.0
CG2 C:VAL27 3.5 79.9 1.0
N C:ILE28 3.7 75.4 1.0
C C:LEU186 3.9 63.4 1.0
C C:ASP96 3.9 73.6 1.0
CG C:ASP96 4.0 72.7 1.0
C C:ILE28 4.0 79.0 1.0
O C:HOH2017 4.1 45.9 1.0
CA C:ASP96 4.2 77.5 1.0
CA C:ILE28 4.4 77.6 1.0
CB C:VAL27 4.5 79.4 1.0
CA C:VAL27 4.5 74.5 1.0
C C:VAL27 4.6 77.3 1.0
CA C:LEU186 4.6 60.0 1.0
CB C:ASP96 4.7 74.4 1.0
N C:ALA187 4.8 64.3 1.0
OD2 C:ASP96 4.9 71.2 1.0
CA C:ALA187 4.9 67.4 1.0
CD1 C:ILE334 4.9 63.2 1.0
O C:ILE334 4.9 64.9 1.0
O C:ILE95 4.9 86.5 1.0
CD C:PRO30 5.0 85.5 1.0

Potassium binding site 4 out of 4 in 5a2d

Go back to Potassium Binding Sites List in 5a2d
Potassium binding site 4 out of 4 in the Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Crystal Structure of Betaine Aldehyde Dehydrogenase From Spinach Showing A Thiohemiacetal with Betaine Aldehyde within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K1499

b:43.4
occ:0.62
 O D:ASP96 2.6 46.6 1.0
OD1 D:ASP96 2.7 46.3 1.0
O D:LEU186 2.7 46.0 1.0
O D:HOH2088 2.8 52.4 1.0
O D:HOH2019 2.9 46.4 1.0
O D:ILE28 3.0 46.8 1.0
C D:ASP96 3.6 44.5 1.0
CG D:ASP96 3.8 46.7 1.0
C D:LEU186 3.8 45.3 1.0
CA D:ASP96 4.0 43.9 1.0
C D:ILE28 4.1 48.1 1.0
N D:ILE28 4.2 48.7 1.0
CG1 D:VAL27 4.3 38.4 1.0
O D:HOH2056 4.3 34.6 1.0
CB D:ASP96 4.5 44.3 1.0
CA D:ALA187 4.6 45.8 1.0
CD1 D:ILE334 4.6 38.9 1.0
OD2 D:ASP96 4.6 43.9 1.0
CD D:PRO30 4.6 39.9 1.0
N D:ALA187 4.7 45.2 1.0
CA D:ILE28 4.7 49.6 1.0
N D:SER97 4.8 44.1 1.0
CA D:LEU186 4.8 41.4 1.0
C D:VAL27 5.0 46.2 1.0

Reference:

A.Zarate-Romero, D.S.Murillo-Melo, C.Mujica-Jimenez, C.Montiel, R.A.Munoz-Clares. Reversible, Partial Inactivation of Plant Betaine Aldehyde Dehydrogenase By Betaine Aldehyde: Mechanism and Possible Physiological Implications. Biochem.J. V. 473 873 2016.
ISSN: ISSN 0264-6021
PubMed: 26792760
DOI: 10.1042/BJ20151084
Page generated: Sat Aug 9 08:27:18 2025

Last articles

Na in 5YSU
Na in 5YR7
Na in 5YR6
Na in 5YR5
Na in 5YPJ
Na in 5YOI
Na in 5YPD
Na in 5YOH
Na in 5YL8
Na in 5YKY
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy