6XJ5 image
Deposition Date 2020-06-22
Release Date 2021-06-30
Last Version Date 2023-11-15
Entry Detail
PDB ID:
6XJ5
Keywords:
Title:
Carboxypeptidase G2 modified with a versatile bioconjugate for metalloprotein design
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.11 Å
R-Value Free:
0.30
R-Value Work:
0.27
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Carboxypeptidase G2
Gene (Uniprot):cpg2
Mutations:S203C
Chain IDs:A, C, E, G
Chain Length:411
Number of Molecules:4
Biological Source:Pseudomonas sp. (strain RS-16)
Polymer Type:polypeptide(L)
Molecule:Carboxypeptidase G2
Gene (Uniprot):cpg2
Mutations:S203C
Chain IDs:B, D, F, H
Chain Length:411
Number of Molecules:4
Biological Source:Pseudomonas sp. (strain RS-16)
Primary Citation
A Bis(imidazole)-based cysteine labeling tool for metalloprotein assembly.
J.Inorg.Biochem. 244 112206 112206 (2023)
PMID: 37030124 DOI: 10.1016/j.jinorgbio.2023.112206

Abstact

Precise metal-protein coordination by design remains a considerable challenge. Polydentate, high-metal-affinity protein modifications, both chemical and recombinant, can enable metal localization. However, these constructs are often bulky, conformationally and stereochemically ill-defined, or coordinately saturated. Here, we expand the biomolecular metal-coordination toolbox with the irreversible attachment to cysteine of bis(1-methylimidazol-2-yl)ethene ("BMIE"), which generates a compact imidazole-based metal-coordinating ligand. Conjugate additions of small-molecule thiols (thiocresol and N-Boc-Cys) with BMIE confirm general thiol reactivity. The BMIE adducts are shown to complex the divalent metal ions Cu++ and Zn++ in bidentate (N2) and tridentate (N2S*) coordination geometries. Cysteine-targeted BMIE modification (>90% yield at pH 8.0) of a model protein, the S203C variant of carboxypeptidase G2 (CPG2), measured with ESI-MS, confirms its utility as a site-selective bioconjugation method. ICP-MS analysis confirms mono-metallation of the BMIE-modified CPG2 protein with Zn++, Cu++, and Co++. EPR characterization of the BMIE-modified CPG2 protein reveals the structural details of the site selective 1:1 BMIE-Cu++ coordination and symmetric tetragonal geometry under physiological conditions and in the presence of various competing and exchangeable ligands (H2O/HO-, tris, and phenanthroline). An X-ray protein crystal structure of BMIE-modified CPG2-S203C demonstrates that the BMIE modification is minimally disruptive to the overall protein structure, including the carboxypeptidase active sites, although Zn++ metalation could not be conclusively discerned at the resolution obtained. The carboxypeptidase catalytic activity of BMIE-modified CPG2-S203C was also assayed and found to be minimally affected. These features, combined with ease of attachment, define the new BMIE-based ligation as a versatile metalloprotein design tool, and enable future catalytic and structural applications.

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Primary Citation of related structures