3WBA
Rice Os3BGlu6 E178Q with Covalent Glucosyl Moiety from p-nitrophenyl glucopyranoside.
- PDB DOI: https://doi.org/10.2210/pdb3WBA/pdb
- Classification: HYDROLASE
- Organism(s): Oryza sativa Japonica Group
- Expression System: Escherichia coli
- Mutation(s): Yes 
- Deposited: 2013-05-14 Released: 2013-09-04 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.179 
- R-Value Work: 0.146 
- R-Value Observed: 0.148 
This is version 1.2 of the entry. See complete history. 
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
---|---|---|---|---|---|
Molecule | Chains | Sequence Length | Organism | Details | Image |
Beta-glucosidase 6 | 489 | Oryza sativa Japonica Group | Mutation(s): 1  Gene Names: BGLU6, LOC_Os03g11420, Os03g0212800 EC: 3.2.1.21 | ||
UniProt | |||||
Find proteins for Q8L7J2 (Oryza sativa subsp. japonica) Explore Q8L7J2  Go to UniProtKB:  Q8L7J2 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q8L7J2 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
GLC Query on GLC | B [auth A] | alpha-D-glucopyranose C6 H12 O6 WQZGKKKJIJFFOK-DVKNGEFBSA-N | |||
GOL Query on GOL | C [auth A], D [auth A], E [auth A], F [auth A], G [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.179 
- R-Value Work: 0.146 
- R-Value Observed: 0.148 
- Space Group: P 21 21 21
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 56.986 | α = 90 |
b = 91.127 | β = 90 |
c = 111.221 | γ = 90 |
Software Name | Purpose |
---|---|
HKL-2000 | data collection |
REFMAC | refinement |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
REFMAC | phasing |
Entry History 
Deposition Data
- Released Date: 2013-09-04  Deposition Author(s): Sansenya, S., Hua, Y., Cairns, J.R.K.
Revision History (Full details and data files)
- Version 1.0: 2013-09-04
Type: Initial release - Version 1.1: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Database references, Derived calculations, Structure summary - Version 1.2: 2023-11-08
Changes: Data collection, Database references, Refinement description, Structure summary