Download MendeleyCrystal structure of l-fuconate dehydratase from Silicibacter sp. tm1040 liganded with Mg and d-erythronohydroxamate
Fedorov, A.A., Fedorov, E.V., Lukk, T., Gerlt, J.A., Almo, S.C.To be published.
4IP5
Crystal structure of l-fuconate dehydratase from Silicibacter sp. tm1040 liganded with Mg and d-erythronohydroxamate
- PDB DOI: https://doi.org/10.2210/pdb4IP5/pdb
- Classification: ISOMERASE
- Organism(s): Ruegeria sp. TM1040
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2013-01-09 Released: 2013-12-04
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.13 Å
- R-Value Free: 0.184
- R-Value Work: 0.138
- R-Value Observed: 0.140
Starting Model: experimental
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This is version 1.1 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Mandelate racemase/muconate lactonizing enzyme-like protein | 425 | Ruegeria sp. TM1040 | Mutation(s): 0 Gene Names: TM1040_3391 EC: 4.2.1.68 |  | |
UniProt | |||||
Find proteins for Q1GLV3 (Ruegeria sp. (strain TM1040)) Explore Q1GLV3 Go to UniProtKB: Q1GLV3 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q1GLV3 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| EHM Query on EHM | C [auth A], E [auth B] | (2R,3R)-N,2,3,4-TETRAHYDROXYBUTANAMIDE C4 H9 N O5 SJYJPXDRLWCEKB-PWNYCUMCSA-N |  | ||
| GOL Query on GOL | G [auth B] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| MG Query on MG | D [auth A], F [auth B] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.13 Å
- R-Value Free: 0.184
- R-Value Work: 0.138
- R-Value Observed: 0.140
- Space Group: P 21 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 101.993 | α = 90 |
| b = 141.362 | β = 90 |
| c = 59.807 | γ = 90 |
| Software Name | Purpose |
|---|---|
| ADSC | data collection |
| BALBES | phasing |
| PHENIX | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
Entry History
Deposition Data
- Released Date: 2013-12-04 Deposition Author(s): Fedorov, A.A., Fedorov, E.V., Lukk, T., Gerlt, J.A., Almo, S.C.
Revision History (Full details and data files)
- Version 1.0: 2013-12-04
Type: Initial release - Version 1.1: 2023-09-20
Changes: Data collection, Database references, Derived calculations, Refinement description
