9GGO image
Entry Detail
PDB ID:
9GGO
Title:
Strand-swapped dimer of engineered copper binding SH3-like protein
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2024-08-13
Release Date:
2025-01-15
Method Details:
Experimental Method:
Resolution:
2.00 Å
R-Value Free:
0.22
R-Value Work:
0.20
R-Value Observed:
0.20
Space Group:
P 31 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:SH3-like protein
Chain IDs:A
Chain Length:58
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation
Strand-Swapped SH3 Domain Dimer with Superoxide Dismutase Activity.
Acs Cent.Sci. 11 157 166 (2025)
PMID: 39866698 DOI: 10.1021/acscentsci.4c01347

Abstact

The design of metalloproteins allows us to better understand metal complexation in proteins and the resulting function. In this study, we incorporated a Cu2+-binding site into a natural protein domain, the 58 amino acid c-Crk-SH3, to create a miniaturized superoxide dismutase model, termed SO1. The resulting low complexity metalloprotein was characterized for structure and function by circular dichroism and UV spectroscopy as well as EPR spectroscopy and X-ray crystallography. The miniprotein was found to be a strand-swapped dimer with an unusual coupled binuclear Type 2-like copper center in each protomer. SO1-Cu was found to be SOD-active with an activity only 1 order of magnitude lower than that of natural SOD enzymes and 1 to 2 orders of magnitude higher than that of other low-complexity SOD protein models of similar size. This serendipitous design provides us with a new structural template for future designs of binuclear metalloproteins with different metal ions and functions.

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