4FER
Crystal structure of Bacillus Subtilis expansin (EXLX1) in complex with cellohexaose
- PDB DOI: https://doi.org/10.2210/pdb4FER/pdb
- Classification: CELLULOSE-BINDING PROTEIN
- Organism(s): Bacillus subtilis subsp. subtilis str. 168
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2012-05-30 Released: 2012-08-22
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.205
- R-Value Work: 0.167
- R-Value Observed: 0.169
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 |
| Expansin-yoaJ | 208 | Bacillus subtilis subsp. subtilis str. 168 | Mutation(s): 0 Gene Names: yoaJ, BSU18630 |  | |
UniProt | |||||
Find proteins for O34918 (Bacillus subtilis (strain 168)) Explore O34918 Go to UniProtKB: O34918 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | O34918 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Oligosaccharides
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | 2D Diagram | Glycosylation | 3D Interactions |
| beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-4)-beta-D-glucopyranose | C | 6 |  | N/A | |
Glycosylation Resources | |||||
GlyTouCan: G09454VW GlyCosmos: G09454VW GlyGen: G09454VW | |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SO4 Query on SO4 | F [auth A], G [auth A], J [auth B], K [auth B] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| GOL Query on GOL | E [auth A], I [auth B] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| ACY Query on ACY | D [auth A], H [auth B] | ACETIC ACID C2 H4 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-N |  | ||
Biologically Interesting Molecules (External Reference) 1 Unique
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| ID | Chains | Name | Type/Class | 2D Diagram | 3D Interactions |
| PRD_900020 Query on PRD_900020 | C | beta-cellohexaose | Oligosaccharide / Metabolism |  | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.205
- R-Value Work: 0.167
- R-Value Observed: 0.169
- Space Group: P 31
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 58.205 | α = 90 |
| b = 58.205 | β = 90 |
| c = 147.277 | γ = 120 |
| Software Name | Purpose |
|---|---|
| CrystalClear | data collection |
| PHENIX | model building |
| PHENIX | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| PHENIX | phasing |
Entry History
Deposition Data
- Released Date: 2012-08-22 Deposition Author(s): Georgelis, N., Yennawar, N.H., Cosgrove, D.J.
Revision History (Full details and data files)
- Version 1.0: 2012-08-22
Type: Initial release - Version 1.1: 2012-09-26
Changes: Database references - Version 1.2: 2015-06-24
Changes: Derived calculations - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Structure summary - Version 2.1: 2024-02-28
Changes: Data collection, Database references, Structure summary
