3M3O
Crystal Structure of Agrocybe aegerita lectin AAL mutant R85A complexed with p-Nitrophenyl TF disaccharide
- PDB DOI: https://doi.org/10.2210/pdb3M3O/pdb
- Classification: HYDROLASE
- Organism(s): Cyclocybe aegerita
- Expression System: Escherichia coli
- Mutation(s): Yes 
- Deposited: 2010-03-09 Released: 2010-12-01 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.253 
- R-Value Work: 0.217 
- R-Value Observed: 0.235 
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 | 158 | Cyclocybe aegerita | Mutation(s): 1  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 | |||||
|
Oligosaccharides
Small Molecules
Ligands 2 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
BTB Query on BTB | D [auth A] | 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C8 H19 N O5 OWMVSZAMULFTJU-UHFFFAOYSA-N | |||
NPO Query on NPO | C [auth A] | P-NITROPHENOL C6 H5 N O3 BTJIUGUIPKRLHP-UHFFFAOYSA-N |
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2 | |||||
---|---|---|---|---|---|
ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
PRD_900084 Query on PRD_900084 | B | Thomsen-Friedenreich antigen | Oligosaccharide / Antigen |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.253 
- R-Value Work: 0.217 
- R-Value Observed: 0.235 
- Space Group: P 32 2 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 42.56 | α = 90 |
b = 42.56 | β = 90 |
c = 125.3 | γ = 120 |
Software Name | Purpose |
---|---|
SCALA | data processing |
CNS | refinement |
PDB_EXTRACT | data extraction |
CrystalClear | data collection |
MOSFLM | data reduction |
SCALA | data scaling |
PHASER | phasing |
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 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