3WG1
Crystal structure of Agrocybe cylindracea galectin with lactose
- PDB DOI: https://doi.org/10.2210/pdb3WG1/pdb
- Classification: SUGAR BINDING PROTEIN
- Organism(s): Cyclocybe aegerita
- Expression System: Escherichia coli
- Mutation(s): No 
- Deposited: 2013-07-25 Released: 2013-11-27 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.196 
- R-Value Work: 0.173 
- R-Value Observed: 0.174 
wwPDB Validation   3D Report Full Report
This is version 2.1 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 |
Galactoside-binding lectin | 178 | Cyclocybe aegerita | Mutation(s): 0  | ||
UniProt | |||||
Find proteins for Q6WY08 (Cyclocybe aegerita) Explore Q6WY08  Go to UniProtKB:  Q6WY08 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | Q6WY08 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2 | |||||
---|---|---|---|---|---|
ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
PRD_900004 Query on PRD_900004 | C, D | beta-lactose | Oligosaccharide / Nutrient |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.196 
- R-Value Work: 0.173 
- R-Value Observed: 0.174 
- Space Group: P 61
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 125.368 | α = 90 |
b = 125.368 | β = 90 |
c = 56.589 | γ = 120 |
Software Name | Purpose |
---|---|
DENZO | data reduction |
SCALEPACK | data scaling |
REFMAC | refinement |
PDB_EXTRACT | data extraction |
ADSC | data collection |
HKL-2000 | data reduction |
HKL-2000 | data scaling |
MOLREP | phasing |
Entry History 
Deposition Data
- Released Date: 2013-11-27  Deposition Author(s): Kuwabara, N., Hu, D., Tateno, H., Makio, H., Hirabayashi, J., Kato, R.
Revision History (Full details and data files)
- Version 1.0: 2013-11-27
Type: Initial release - Version 1.1: 2017-11-22
Changes: Refinement description - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary - Version 2.1: 2023-11-08
Changes: Data collection, Database references, Refinement description, Structure summary