7BWX

Crystal structure of ice-binding protein from an Antarctic ascomycete, Antarctomyces psychrotrophicus.

Summary for 7BWX

• Entry DOI: 10.2210/pdb7bwx/pdb
• Descriptor: Ice-binding protein isoform1a, SULFATE ION, GLYCEROL, ... (4 entities in total)
• Functional Keywords: beta-solenoid, right-handed beta-helix, antifreeze protein
• Biological source: Antarctomyces psychrotrophicus
• Total number of polymer chains: 6
• Total formula weight: 134996.94

Authors

Yamauchi, A.,Arai, T.,Kondo, H.,Tsuda, S. (deposition date: 2020-04-16, release date: 2020-05-27, Last modification date: 2023-11-29)

Primary citation

Yamauchi, A.,Arai, T.,Kondo, H.,Sasaki, Y.C.,Tsuda, S.
An Ice-Binding Protein from an Antarctic Ascomycete Is Fine-Tuned to Bind to Specific Water Molecules Located in the Ice Prism Planes.
Biomolecules, 10:-, 2020

PubMed Abstract: Many microbes that survive in cold environments are known to secrete ice-binding proteins (IBPs). The structure-function relationship of these proteins remains unclear. A microbial IBP denoted IBP was recently isolated from a cold-adapted fungus, . The present study identified an orbital illumination (prism ring) on a globular single ice crystal when soaked in a solution of fluorescent IBP, suggesting that IBP binds to specific water molecules located in the ice prism planes. In order to examine this unique ice-binding mechanism, we carried out X-ray structural analysis and mutational experiments. It appeared that IBP is made of 6-ladder β-helices with a triangular cross section that accompanies an "ice-like" water network on the ice-binding site. The network, however, does not exist in a defective mutant. IBP has a row of four unique hollows on the IBS, where the distance between the hollows (14.7 Å) is complementary to the oxygen atom spacing of the prism ring. These results suggest the structure of IBP is fine-tuned to merge with the ice-water interface of an ice crystal through its polygonal water network and is then bound to a specific set of water molecules constructing the prism ring to effectively halt the growth of ice.

PubMed: 32414092
DOI: 10.3390/biom10050759

Experimental method

X-RAY DIFFRACTION (1.904 Å)