Download MendeleyExo-beta-D-glucosaminidase from Pyrococcus furiosus
Mine, S., Watanabe, M.To be published.
6JOW
Exo-beta-D-glucosaminidase from Pyrococcus furiosus
- PDB DOI: https://doi.org/10.2210/pdb6JOW/pdb
- Classification: HYDROLASE
- Organism(s): Pyrococcus furiosus
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2019-03-24 Released: 2020-03-25
- Funding Organization(s): Japan Society for the Promotion of Science
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.75 ?
- R-Value Free: 0.220
- R-Value Work: 0.148
- R-Value Observed: 0.152
Starting Model: experimental
View more details
wwPDB Validation 3D Report Full Report
This is version 1.2 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Beta-galactosidase | 762 | Pyrococcus furiosus | Mutation(s): 0 Gene Names: PF0363 |  | |
UniProt | |||||
Find proteins for Q8U3U2 (Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)) Explore Q8U3U2 Go to UniProtKB: Q8U3U2 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q8U3U2 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| MPD Query on MPD | F [auth A] G [auth A] H [auth B] I [auth B] J [auth C] | (4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N |  | ||
| CA Query on CA | E [auth A], K [auth C] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.75 ?
- R-Value Free: 0.220
- R-Value Work: 0.148
- R-Value Observed: 0.152
- Space Group: P 1 21 1
Unit Cell:
| Length ( ? ) | Angle ( ? ) |
|---|---|
| a = 85.13 | ¦Á = 90 |
| b = 149.597 | ¦Â = 102.07 |
| c = 147.315 | ¦Ă = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| HKL-2000 | data scaling |
| PDB_EXTRACT | data extraction |
| PHASER | phasing |
| PHENIX | model building |
| HKL-2000 | data reduction |
Entry History & Funding Information
Deposition Data
- Released Date: 2020-03-25 Deposition Author(s): Mine, S., Watanabe, M.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Japan Society for the Promotion of Science | Japan | 25450143 |
Revision History (Full details and data files)
- Version 1.0: 2020-03-25
Type: Initial release - Version 1.1: 2020-06-17
Changes: Database references, Source and taxonomy, Structure summary - Version 1.2: 2023-11-22
Changes: Data collection, Database references, Derived calculations, Refinement description
