2NT1
Structure of acid-beta-glucosidase at neutral pH
- PDB DOI: https://doi.org/10.2210/pdb2NT1/pdb
- Classification: HYDROLASE
- Organism(s): Homo sapiens
- Expression System: Cricetulus griseus
- Mutation(s): No 
- Deposited: 2006-11-06 Released: 2006-12-26 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.240 
- R-Value Work: 0.175 
- R-Value Observed: 0.178 
This is version 1.5 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 |
Glucosylceramidase | 497 | Homo sapiens | Mutation(s): 0  Gene Names: GBA EC: 3.2.1.45 | ||
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P04062 (Homo sapiens) Explore P04062  Go to UniProtKB:  P04062 | |||||
PHAROS:  P04062 GTEx:  ENSG00000177628  | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P04062 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
NAG Query on NAG | AA [auth B], E [auth A], RB [auth D], TA [auth C] | 2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N | |||
PO4 Query on PO4 | AB [auth C] AC [auth D] BA [auth B] BB [auth C] BC [auth D] | PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.240 
- R-Value Work: 0.175 
- R-Value Observed: 0.178 
- Space Group: P 1 21 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 110.185 | α = 90 |
b = 91.792 | β = 110.91 |
c = 153.036 | γ = 90 |
Software Name | Purpose |
---|---|
DENZO | data reduction |
SCALEPACK | data scaling |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
MAR345 | data collection |
HKL-2000 | data reduction |
Entry History 
Deposition Data
- Released Date: 2006-12-26  Deposition Author(s): Lieberman, R.L., Petsko, G.A., Ringe, D.
Revision History (Full details and data files)
- Version 1.0: 2006-12-26
Type: Initial release - Version 1.1: 2008-05-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Derived calculations, Version format compliance - Version 1.3: 2017-10-18
Changes: Refinement description - Version 1.4: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Database references, Derived calculations, Structure summary - Version 1.5: 2023-08-30
Changes: Data collection, Database references, Refinement description, Structure summary