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Sodium in PDB 3w8e: Crystal Structure of D-3-Hydroxybutyrate Dehydrogenase From Alcaligenes Faecalis Complexed with Nad+ and A Substrate D-3- Hydroxybutyrate

Enzymatic activity of Crystal Structure of D-3-Hydroxybutyrate Dehydrogenase From Alcaligenes Faecalis Complexed with Nad+ and A Substrate D-3- Hydroxybutyrate

All present enzymatic activity of Crystal Structure of D-3-Hydroxybutyrate Dehydrogenase From Alcaligenes Faecalis Complexed with Nad+ and A Substrate D-3- Hydroxybutyrate:
1.1.1.30;

Protein crystallography data

The structure of Crystal Structure of D-3-Hydroxybutyrate Dehydrogenase From Alcaligenes Faecalis Complexed with Nad+ and A Substrate D-3- Hydroxybutyrate, PDB code: 3w8e was solved by H.Kanazawa, M.Tsunoda, M.M.Hoque, K.Suzuki, T.Yamamoto, A.Takenaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 18.98 / 1.24
Space group P 42 21 2
Cell size a, b, c (Å), α, β, γ (°) 62.780, 62.780, 119.490, 90.00, 90.00, 90.00
R / Rfree (%) 16.5 / 19.2

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of D-3-Hydroxybutyrate Dehydrogenase From Alcaligenes Faecalis Complexed with Nad+ and A Substrate D-3- Hydroxybutyrate (pdb code 3w8e). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Crystal Structure of D-3-Hydroxybutyrate Dehydrogenase From Alcaligenes Faecalis Complexed with Nad+ and A Substrate D-3- Hydroxybutyrate, PDB code: 3w8e:

Sodium binding site 1 out of 1 in 3w8e

Go back to Sodium Binding Sites List in 3w8e
Sodium binding site 1 out of 1 in the Crystal Structure of D-3-Hydroxybutyrate Dehydrogenase From Alcaligenes Faecalis Complexed with Nad+ and A Substrate D-3- Hydroxybutyrate


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of D-3-Hydroxybutyrate Dehydrogenase From Alcaligenes Faecalis Complexed with Nad+ and A Substrate D-3- Hydroxybutyrate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na303

b:3.6
occ:0.50
 O A:HOH427 2.3 9.7 1.0
OXT A:ARG260 2.4 8.7 1.0
O A:HOH430 2.4 7.7 1.0
C A:ARG260 3.4 7.3 1.0
O A:ARG260 3.7 8.2 1.0
CG1 A:VAL147 3.8 7.2 1.0
O A:THR258 4.3 6.5 1.0
CB A:VAL147 4.7 6.1 1.0
CA A:ARG260 4.7 6.8 1.0
O A:TRP257 4.7 5.1 1.0
C A:THR258 4.8 4.5 1.0
O A:HOH521 4.9 22.6 1.0
CA A:THR258 4.9 5.1 1.0
O A:HOH481 4.9 17.4 1.0
N A:ARG260 4.9 7.0 1.0

Reference:

H.Kanazawa, M.Tsunoda, M.M.Hoque, K.Suzuki, T.Yamamoto, A.Takenaka. High Resolution X-Ray Diffraction of D-3-Hydroxybutyrate Dehydrogenase From Alcaligenes Faecalis Complexed with Nad+ and D-3-Hydroxybutyrate To Be Published.
Page generated: Tue Dec 15 06:29:32 2020

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