Download MendeleyStructural Basis for Specific Hydrolysis and Synthesis of beta-1-2-glucosidic linkage by Glucose-tolerant beta-glucosidase Td2F2
Lin, C.C., Lu, T.J., Fushinobu, S.To be published.
8WNA
Crystal structure of GH1 beta-glucosidase Td2F2 E352Q laminaribiose complex
- PDB DOI: https://doi.org/10.2210/pdb8WNA/pdb
- Classification: HYDROLASE
- Organism(s): metagenomes
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2023-10-05 Released: 2025-01-15
- Funding Organization(s): Not funded
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.16 Å
- R-Value Free: 0.164
- R-Value Work: 0.151
- R-Value Observed: 0.151
Starting Model: experimental
View more details
wwPDB Validation 3D Report Full Report
This is version 1.0 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| beta-glucosidase Td2F2 | 465 | metagenomes | Mutation(s): 0 EC: 3.2.1.21 |  | |
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
Sequence AnnotationsExpand | |||||
| |||||
Oligosaccharides
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
| beta-D-glucopyranose-(1-3)-beta-D-glucopyranose | B [auth C], D | 2 |  | N/A | |
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
| beta-D-glucopyranose-(1-3)-alpha-D-glucopyranose | C [auth B] | 2 |  | N/A | |
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NHE Query on NHE | F [auth A] | 2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID C8 H17 N O3 S MKWKNSIESPFAQN-UHFFFAOYSA-N |  | ||
| MLA Query on MLA | E [auth A] | MALONIC ACID C3 H4 O4 OFOBLEOULBTSOW-UHFFFAOYSA-N |  | ||
| SO4 Query on SO4 | G [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
| PRD_900024 Query on PRD_900024 | B [auth C], D | beta-laminaribiose | Oligosaccharide / Antimicrobial |  | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.16 Å
- R-Value Free: 0.164
- R-Value Work: 0.151
- R-Value Observed: 0.151
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 68.41 | α = 90 |
| b = 68.416 | β = 90 |
| c = 95.988 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| Aimless | data scaling |
| XDS | data reduction |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2025-01-15 Deposition Author(s): Lin, C.C., Lu, T.J., Fushinobu, S.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Not funded | -- |
Revision History (Full details and data files)
- Version 1.0: 2025-01-15
Type: Initial release
