3M3Q
Crystal Structure of Agrocybe aegerita lectin AAL complexed with Ganglosides GM1 pentasaccharide
- PDB DOI: https://doi.org/10.2210/pdb3M3Q/pdb
- Classification: HYDROLASE
- Organism(s): Cyclocybe aegerita
- Expression System: Escherichia coli
- Mutation(s): No 
- Deposited: 2010-03-09 Released: 2010-12-01 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.248 
- R-Value Work: 0.209 
- R-Value Observed: 0.222 
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 |
Anti-tumor lectin | 159 | Cyclocybe aegerita | Mutation(s): 0  Gene Names: AAL EC: 3.1.21 | ||
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
Entity ID: 2 | |||||
---|---|---|---|---|---|
Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-galactopyranose-(1-4)-[N-acetyl-alpha-neuraminic acid-(2-3)]beta-D-galactopyranose-(1-4)-beta-D-glucopyranose | C, D | 5 | N/A | ||
Glycosylation Resources | |||||
GlyTouCan:  G48558GR GlyCosmos:  G48558GR GlyGen:  G48558GR |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.20 Å
- R-Value Free: 0.248 
- R-Value Work: 0.209 
- R-Value Observed: 0.222 
- Space Group: P 1 21 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 50.861 | α = 90 |
b = 66.711 | β = 93.18 |
c = 56.211 | γ = 90 |
Software Name | Purpose |
---|---|
DENZO | data reduction |
SCALEPACK | data scaling |
CNS | refinement |
PDB_EXTRACT | data extraction |
Entry History 
Deposition Data
Revision History (Full details and data files)
- Version 1.0: 2010-12-01
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2017-11-08
Changes: Refinement description - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary - Version 2.1: 2023-11-01
Changes: Data collection, Database references, Refinement description, Structure summary