Download MendeleyStructure of a VgrG Vibrio cholerae toxin ACD domain in complex with ATP and Mg++
Durand, E., Audoly, G., Derrez, E., Spinelli, S., Ortiz-Lombardia, M., Cascales, E., Raoult, D., Cambillau, C.(2012) J Biol Chem
4DTH
Structure of a VgrG Vibrio cholerae toxin ACD domain in complex with ATP and Mg++
- PDB DOI: https://doi.org/10.2210/pdb4DTH/pdb
- Classification: TOXIN
- Organism(s): Vibrio cholerae
- Expression System: Escherichia coli BL21
- Mutation(s): No
- Deposited: 2012-02-21 Released: 2012-08-29
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.78 Å
- R-Value Free: 0.192
- R-Value Work: 0.181
- R-Value Observed: 0.181
This is version 1.0 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| VgrG protein | A | 396 | Vibrio cholerae | Mutation(s): 0 Gene Names: VC_1416, vgrG1 EC: 6.3.2 |  |
UniProt | |||||
Find proteins for A0A0H3AIG7 (Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)) Explore A0A0H3AIG7 Go to UniProtKB: A0A0H3AIG7 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | A0A0H3AIG7 | ||||
Protein Feature ViewExpand | |||||
| |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ATP Query on ATP | B [auth A] | ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N |  | Ligand Interaction | |
| SO4 Query on SO4 | F [auth A], G [auth A], H [auth A], I [auth A], J [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | Ligand Interaction | |
| GOL Query on GOL | C [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | Ligand Interaction | |
| MG Query on MG | D [auth A], E [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.78 Å
- R-Value Free: 0.192
- R-Value Work: 0.181
- R-Value Observed: 0.181
- Space Group: P 43 2 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 128.68 | α = 90 |
| b = 128.68 | β = 90 |
| c = 76.82 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PROTEUM PLUS | data collection |
| MOLREP | phasing |
| BUSTER | refinement |
| XDS | data reduction |
| SCALA | data scaling |
Entry History
Deposition Data
- Released Date: 2012-08-29 Deposition Author(s): Durand, E., Audoly, G., Derrez, E., Spinelli, S., Ortiz-Lombardia, M., Cascales, E., Raoult, D., Cambillau, C.
Revision History (Full details and data files)
- Version 1.0: 2012-08-29
Type: Initial release
