6XJ5

Carboxypeptidase G2 modified with a versatile bioconjugate for metalloprotein design

Summary for 6XJ5

• Entry DOI: 10.2210/pdb6xj5/pdb
• Related: 1CG2
• Descriptor: Carboxypeptidase G2, ZINC ION, SULFATE ION, ... (5 entities in total)
• Functional Keywords: metalloprotein design, bivalent metal ion co-ordination, bis-imidazoles, bioconjugation, hydrolase
• Biological source: Pseudomonas sp. (strain RS-16); More
• Total number of polymer chains: 8
• Total formula weight: 356662.92

Authors

Yachnin, B.J.,Hansen, W.A.,Khare, S.D. (deposition date: 2020-06-22, release date: 2021-06-30, Last modification date: 2023-11-15)

Primary citation

Ahmad, R.,Tyryshkin, A.M.,Xie, L.,Hansen, W.A.,Yachnin, B.J.,Emge, T.J.,Mashrai, A.,Khare, S.D.,Knapp, S.
A Bis(imidazole)-based cysteine labeling tool for metalloprotein assembly.
J.Inorg.Biochem., 244:112206-112206, 2023

PubMed Abstract: 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 (N) and tridentate (NS*) 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 (HO/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.

PubMed: 37030124
DOI: 10.1016/j.jinorgbio.2023.112206

Experimental method

X-RAY DIFFRACTION (3.11 Å)