6GIO | pdb_00006gio

Experimental Data Snapshot

Starting Model: experimental
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Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

(2018) Chembiochem

PubMed Abstract:
The kinetic resolution of amino acid esters (AAEs) is a useful synthetic strategy for the preparation of single-enantiomer amino acids. The development of an enzymatic dynamic kinetic resolution (DKR) process for AAEs, which would give a theoretical yield of 100 % of the enantiopure product, would require an amino acid ester racemase (AAER); however, no such enzyme has been described. We have identified low AAER activity of 15 U mg ^-1 in a homologue of a PLP-dependent α-amino ϵ-caprolactam racemase (ACLR) from Ochrobactrum anthropi. We have determined the structure of this enzyme, OaACLR, to a resolution of 1.87 Å and, by using structure-guided saturation mutagenesis, in combination with a colorimetric screen for AAER activity, we have identified a mutant, L293C, in which the promiscuous AAER activity of this enzyme towards l-phenylalanine methyl ester is improved 3.7-fold.

Organizational Affiliation

York Structural Biology Laboratory, Department of Chemistry, University of York, Heslington, York, YO10 5DD, UK.

Macromolecule Content

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Amino acid amide racemase	A [auth D], B [auth A], C [auth B], D [auth C]	439	Brucella anthropi	Mutation(s): 0 Gene Names: aaarA
UniProt
Find proteins for Q06K28 (Brucella anthropi) Explore Q06K28 Go to UniProtKB: Q06K28
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q06K28
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Reference Sequence

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PLP Query on PLP Download:Ideal Coordinates CCD File SDF format, chain E [auth D] SDF format, chain F [auth A] SDF format, chain G [auth B] SDF format, chain I [auth C] MOL2 format, chain E [auth D] MOL2 format, chain F [auth A] MOL2 format, chain G [auth B] MOL2 format, chain I [auth C] mmCIF format, chain E [auth D] mmCIF format, chain F [auth A] mmCIF format, chain G [auth B] mmCIF format, chain I [auth C]	E [auth D], F [auth A], G [auth B], I [auth C]	PYRIDOXAL-5'-PHOSPHATE C₈ H₁₀ N O₆ P NGVDGCNFYWLIFO-UHFFFAOYSA-N		Interactions Focus chain E [auth D] Focus chain F [auth A] Focus chain G [auth B] Focus chain I [auth C] Interactions & Density Focus chain E [auth D] Focus chain F [auth A] Focus chain G [auth B] Focus chain I [auth C]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain H [auth B] MOL2 format, chain H [auth B] mmCIF format, chain H [auth B]	H [auth B]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain H [auth B] Interactions & Density Focus chain H [auth B]