4A3X
Structure of the N-terminal domain of the Epa1 adhesin (Epa1-Np) from the pathogenic yeast Candida glabrata, in complex with calcium and lactose
- PDB DOI: https://doi.org/10.2210/pdb4A3X/pdb
- Classification: CELL ADHESION
- Organism(s): Nakaseomyces glabratus
- Expression System: Escherichia coli K-12
- Mutation(s): No
- Deposited: 2011-10-05 Released: 2012-02-22
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.65 Å
- R-Value Free: 0.210
- R-Value Work: 0.172
- 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 |
| EPA1P | 227 | Nakaseomyces glabratus | Mutation(s): 0 |  | |
UniProt | |||||
Find proteins for Q6VBJ0 (Candida glabrata) Explore Q6VBJ0 Go to UniProtKB: Q6VBJ0 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q6VBJ0 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Oligosaccharides
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| CA Query on CA | C [auth A], D [auth A] | CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N |  | ||
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 | B | beta-lactose | Oligosaccharide / Nutrient |  | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.65 Å
- R-Value Free: 0.210
- R-Value Work: 0.172
- R-Value Observed: 0.174
- Space Group: C 2 2 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 75.481 | α = 90 |
| b = 105.453 | β = 90 |
| c = 69.571 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| XDS | data reduction |
| XDS | data scaling |
| BALBES | phasing |
Entry History
Deposition Data
- Released Date: 2012-02-22 Deposition Author(s): Ielasi, F.S., Decanniere, K., Willaert, R.G.
Revision History (Full details and data files)
- Version 1.0: 2012-02-22
Type: Initial release - Version 1.1: 2012-03-07
Changes: Other - Version 1.2: 2012-03-28
Changes: Other - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Derived calculations, Non-polymer description, Other, Structure summary - Version 2.1: 2023-12-20
Changes: Data collection, Database references, Refinement description, Structure summary
