6L2D image
Deposition Date 2019-10-03
Release Date 2020-04-01
Last Version Date 2024-11-20
Entry Detail
PDB ID:
6L2D
Keywords:
METAL BINDING PROTEIN
Title:
Crystal structure of a cupin protein (tm1459) in copper (Cu) substituted form
Biological Source:
Source Organism:
Thermotoga maritima MSB8 (Taxon ID: 243274)
Host Organism:
Escherichia coli BL21(DE3)
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
1.20 Å
R-Value Free:
0.18
R-Value Work:
0.15
R-Value Observed:
0.15
Space Group:
P 21 21 21
6L2D validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cupin_2 domain-containing protein
Gene (Uniprot):Tmari_1465
Chain IDs:A, B
Chain Length:118
Number of Molecules:2
Biological Source:Thermotoga maritima MSB8
UniProt ID:Q9X1H0 Pfam ID:PF07883
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
CSD A CYS modified residue
Ligand Molecules
CU
Primary Citation
Cupin Variants as a Macromolecular Ligand Library for Stereoselective Michael Addition of Nitroalkanes.
Angew.Chem.Int.Ed.Engl. 59 7717 7720 (2020)
PMID: 32073197 DOI: 10.1002/anie.202000129

Abstact

Cupin superfamily proteins (TM1459) work as a macromolecular ligand framework with a double-stranded β-barrel structure ligating to a Cu ion through histidine side chains. Variegating the first coordination sphere of TM1459 revealed that H52A and H54A/H58A mutants effectively catalyzed the diastereo- and enantioselective Michael addition reaction of nitroalkanes to an α,β-unsaturated ketone. Moreover, calculated substrate docking signified C106N and F104W single-point mutations, which inverted the diastereoselectivity of H52A and further improved the stereoselectivity of H54A/H58A, respectively.

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Primary Citation of related structures
6L2D