8YUD image
Deposition Date 2024-03-27
Release Date 2024-04-10
Last Version Date 2025-06-25
Entry Detail
PDB ID:
8YUD
Keywords:
Title:
Crystal structure of Xylose isomerase from Streptomyces avermitilis
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
2.81 Å
R-Value Free:
0.24
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
P 32 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Xylose isomerase
Chain IDs:A, B, C, D, E, F
Chain Length:388
Number of Molecules:6
Biological Source:Streptomyces avermitilis
Ligand Molecules
Primary Citation
Data of the crystal structure of xylose isomerase from Streptomyces avermitilis.
Data Brief 59 111414 111414 (2025)
PMID: 40124299 DOI: 10.1016/j.dib.2025.111414

Abstact

Xylose isomerase (XI; also known as glucose isomerase) catalyzes the conversion of D-glucose and D-xylose to D-fructose and D-xylulose, respectively. XI is widely used in various industries, such as high-fructose corn syrup and bioethanol production. The discovery and characterization of novel XI variants are important to enhance the effective industrial applications of XI. Recently, the X-ray diffraction data for XI from Streptomyces avermitilis (SavXI) were collected at a synchrotron. The crystal structure of SavXI was determined using the molecular replacement method. The SavXI structure exhibited two unique metal-binding sites at the active site, diverse conformations, and a distinctive conformation of the C-terminal region compared to other XI homologs. This structural information extends the understanding of the molecular properties of the XI family. Here, information on the raw diffraction data images of SavXI, which were not presented in the previous study, is introduced. Detailed data collection and structure determination are reported for future XI structural analyses.

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