2WDB
A family 32 carbohydrate-binding module, from the Mu toxin produced by Clostridium perfringens, in complex with beta-D-glcNAc-beta(1,2) mannose
- PDB DOI: https://doi.org/10.2210/pdb2WDB/pdb
- Classification: HYDROLASE
- Organism(s): Clostridium perfringens
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No 
- Deposited: 2009-03-23 Released: 2009-05-05 
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.03 Å
- R-Value Free: 0.260 
- R-Value Work: 0.194 
- R-Value Observed: 0.197 
wwPDB Validation   3D Report Full Report
This is version 2.0 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 |
HYALURONOGLUCOSAMINIDASE | 192 | Clostridium perfringens | Mutation(s): 0  EC: 3.2.1.35 | ||
UniProt | |||||
Find proteins for P26831 (Clostridium perfringens (strain 13 / Type A)) Explore P26831  Go to UniProtKB:  P26831 | |||||
Entity Groups   | |||||
Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
UniProt Group | P26831 | ||||
Sequence AnnotationsExpand | |||||
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Oligosaccharides
Small Molecules
Ligands 1 Unique | |||||
---|---|---|---|---|---|
ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
CA Query on CA | I [auth A], J [auth B], K [auth C], L [auth D] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.03 Å
- R-Value Free: 0.260 
- R-Value Work: 0.194 
- R-Value Observed: 0.197 
- Space Group: P 31 2 1
Unit Cell:
Length ( Å ) | Angle ( ˚ ) |
---|---|
a = 91.276 | α = 90 |
b = 91.276 | β = 90 |
c = 132.701 | γ = 120 |
Software Name | Purpose |
---|---|
REFMAC | refinement |
Entry History 
Deposition Data
- Released Date: 2009-05-05  Deposition Author(s): Ficko-Blean, E., Boraston, A.B.
Revision History (Full details and data files)
- Version 1.0: 2009-05-05
Type: Initial release - Version 1.1: 2011-05-08
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Other, Structure summary