2ZYK
Crystal structure of cyclo/maltodextrin-binding protein complexed with gamma-cyclodextrin
- PDB DOI: https://doi.org/10.2210/pdb2ZYK/pdb
- Entry: 2ZYK supersedes: 2DFZ
- Classification: SUGAR BINDING PROTEIN
- Organism(s): Thermoactinomyces vulgaris
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2009-01-26 Released: 2009-02-10
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Free: 0.285
- R-Value Work: 0.222
- R-Value Observed: 0.222
wwPDB Validation 3D Report Full Report
This is version 2.2 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 |
| Solute-binding protein | 397 | Thermoactinomyces vulgaris | Mutation(s): 0 |  | |
UniProt | |||||
Find proteins for Q9AJF5 (Thermoactinomyces vulgaris) Explore Q9AJF5 Go to UniProtKB: Q9AJF5 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q9AJF5 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Oligosaccharides
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
| PRD_900042 Query on PRD_900042 | E, F, G, H | gamma-cyclodextrin | Oligosaccharide / Drug delivery |  | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.50 Å
- R-Value Free: 0.285
- R-Value Work: 0.222
- R-Value Observed: 0.222
- Space Group: C 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 167.399 | α = 90 |
| b = 95.27 | β = 131.56 |
| c = 117.13 | γ = 90 |
| Software Name | Purpose |
|---|---|
| CNS | refinement |
| ADSC | data collection |
| HKL-2000 | data reduction |
| SCALEPACK | data scaling |
| CNS | phasing |
Entry History
Deposition Data
- Released Date: 2009-02-10 Deposition Author(s): Tonozuka, T., Sogawa, A., Yamada, M., Matsumoto, N., Yoshida, H., Kamitori, S., Ichikawa, K., Mizuno, M., Nishikawa, A., Sakano, Y.
- This entry supersedes: 2DFZ
Revision History (Full details and data files)
- Version 1.0: 2009-02-10
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: Advisory, Atomic model, Data collection, Derived calculations, Structure summary - Version 2.1: 2024-03-13
Changes: Data collection, Database references, Structure summary - Version 2.2: 2024-04-03
Changes: Refinement description
