ISDA

Deposition Date 2011-06-22

Release Date 2012-06-27

Last Version Date 2023-09-13

Entry Detail

PDB ID:

3SK0

Keywords:

HYDROLASE

Title:

structure of Rhodococcus rhodochrous haloalkane dehalogenase DhaA mutant DhaA12

Biological Source:

Source Organism:

Rhodococcus rhodochrous (Taxon ID: 1829)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.78 Å

R-Value Free:

0.20

R-Value Work:

0.17

R-Value Observed:

0.17

Space Group:

P 21 21 21

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Haloalkane dehalogenase
Gene (Uniprot):dhaA
Mutations:W138F, 139HHTEVAEEQDH149 insertion, P150A, F152A, G179R, A180V, K183G, C184G, V253A
Chain IDs:A
Chain Length:311
Number of Molecules:1
Biological Source:Rhodococcus rhodochrous

UniProt ID:P0A3G2 Pfam ID:PF00561 EC:3.8.1.5

Ligand Molecules

Primary Citation

Dynamics and hydration explain failed functional transformation in dehalogenase design.

Sykora, J, Brezovsky, J, Koudelakova, T, Lahoda, M, Fortova, A, Chernovets, T, Chaloupkova, R, Stepankova, V, Prokop, Z, Smatanova, I.K, Hof, M, Damborsky, J, Lahoda, M, Koudelakova, T, Stsiapanava, A, Mesters, J, Damborsky, J, Kuta-Smatanova, I.Show

Nat.Chem.Biol. 10 428 430 (2014)

PMID: 24727901 DOI: 10.1038/nchembio.1502

Abstact

We emphasize the importance of dynamics and hydration for enzymatic catalysis and protein design by transplanting the active site from a haloalkane dehalogenase with high enantioselectivity to nonselective dehalogenase. Protein crystallography confirms that the active site geometry of the redesigned dehalogenase matches that of the target, but its enantioselectivity remains low. Time-dependent fluorescence shifts and computer simulations revealed that dynamics and hydration at the tunnel mouth differ substantially between the redesigned and target dehalogenase.

Legend

Protein

Chemical

Disease

Primary Citation of related structures