6HZE
BP0997, GH138 enzyme targeting pectin rhamnogalacturonan II
- PDB DOI: https://doi.org/10.2210/pdb6HZE/pdb
- Classification: HYDROLASE
- Organism(s): Phocaeicola paurosaccharolyticus
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2018-10-23 Released: 2019-03-20
- Funding Organization(s): European Research Council
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.282
- R-Value Work: 0.213
- R-Value Observed: 0.217
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 |
| BPa0997 | 893 | Phocaeicola paurosaccharolyticus | Mutation(s): 0 |  | |
UniProt | |||||
Find proteins for A0A4V8GZY5 (Phocaeicola paurosaccharolyticus) Explore A0A4V8GZY5 Go to UniProtKB: A0A4V8GZY5 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A4V8GZY5 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| GTR Query on GTR | C [auth A], L [auth B] | beta-D-galactopyranuronic acid C6 H10 O7 AEMOLEFTQBMNLQ-DTEWXJGMSA-N |  | ||
| NA Query on NA | D [auth A] E [auth A] F [auth A] G [auth A] H [auth A] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.282
- R-Value Work: 0.213
- R-Value Observed: 0.217
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 69.498 | α = 90 |
| b = 107.376 | β = 98.68 |
| c = 139.211 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| XDS | data reduction |
| pointless | data scaling |
| Aimless | data scaling |
| MOLREP | phasing |
| Coot | model building |
| MolProbity | model building |
Entry History & Funding Information
Deposition Data
- Released Date: 2019-03-20 Deposition Author(s): Basle, A., Cartmell, A., Labourel, A., Gilbert, H.
| Funding Organization | Location | Grant Number |
|---|---|---|
| European Research Council | United Kingdom | 322820 |
Revision History (Full details and data files)
- Version 1.0: 2019-03-20
Type: Initial release - Version 1.1: 2019-03-27
Changes: Data collection, Database references - Version 1.2: 2019-05-22
Changes: Data collection, Database references - Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Atomic model, Data collection, Derived calculations, Structure summary
