Download MendeleyCrystal structure of 5-carboxyvanillate decarboxylase LigW from Sphingomonas paucimobilis complexed with Mn and 5-methoxyisophtalic acid
Fedorov, A.A., Fedorov, E.V., Vladimirova, A., Raushel, F.M., Almo, S.C.To be published.
4NI8
Crystal structure of 5-carboxyvanillate decarboxylase LigW from Sphingomonas paucimobilis complexed with Mn and 5-methoxyisophtalic acid
- DOI: 10.2210/pdb4NI8/pdb
- Classification: LYASE
- Organism(s): Sphingomonas paucimobilis
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2013-11-05 Released: 2014-11-26
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.64 Å
- R-Value Free: 0.175
- R-Value Work: 0.148
- R-Value Observed: 0.150
wwPDB Validation 3D Report Full Report
Literature
To be published.
Macromolecules
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(by identity cutoff) | Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| 5-carboxyvanillate decarboxylase | A, B, C, D, E, F, G, H | 335 | Sphingomonas paucimobilis | Mutation(s): 0 Gene Names: ligW |  |
Find proteins for Q8RJ47 (Sphingomonas paucimobilis) Explore Q8RJ47 Go to UniProtKB: Q8RJ47 | |||||
Protein Feature ViewExpand | |||||
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Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| 1WB Query on 1WB | A, B, C, D, E, F, G, H | 5-methoxybenzene-1,3-dicarboxylic acid C9 H8 O5 POSMIIJADZKUPL-UHFFFAOYSA-N |  | Ligand Interaction | |
| GOL Query on GOL | E, F | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | Ligand Interaction | |
| EDO Query on EDO | A, B, C, D, F, G, H | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | Ligand Interaction | |
| MN Query on MN | A, B, C, D, E, F, G, H | MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.64 Å
- R-Value Free: 0.175
- R-Value Work: 0.148
- R-Value Observed: 0.150
- Space Group: P 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 80.523 | α = 67.04 |
| b = 99.896 | β = 88.44 |
| c = 100.427 | γ = 68.07 |
| Software Name | Purpose |
|---|---|
| CBASS | data collection |
| BALBES | phasing |
| PHENIX | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
Entry History
Deposition Data
- Deposited Date: 2013-11-05
- Released Date: 2014-11-26 Deposition Author(s): Fedorov, A.A., Fedorov, E.V., Vladimirova, A., Raushel, F.M., Almo, S.C.
