Download MendeleyKinetic, Spectral and Structural Characterization of the Slow Binding Inhibitor Acetopyruvate with Dihydrodipicolinate Synthase from Escherichia coli.
Chooback, L., Thomas, L.M., Karsten, W.E., Fleming, C.D., Seabourn, P.To be published.
5T26
Kinetic, Spectral and Structural Characterization of the Slow Binding Inhibitor Acetopyruvate with Dihydrodipicolinate Synthase from Escherichia coli.
- PDB DOI: https://doi.org/10.2210/pdb5T26/pdb
- Classification: LYASE
- Organism(s): Escherichia coli IAI1
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2016-08-23 Released: 2016-10-05
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.207
- R-Value Work: 0.168
- R-Value Observed: 0.170
wwPDB Validation 3D Report Full Report
This is version 2.3 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 |
| 4-hydroxy-tetrahydrodipicolinate synthase | 294 | Escherichia coli IAI1 | Mutation(s): 0 Gene Names: dapA, ECIAI1_2529 EC: 4.3.3.7 |  | |
UniProt | |||||
Find proteins for P0A6L2 (Escherichia coli (strain K12)) Explore P0A6L2 Go to UniProtKB: P0A6L2 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P0A6L2 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| TLA Query on TLA | J [auth B] | L(+)-TARTARIC ACID C4 H6 O6 FEWJPZIEWOKRBE-JCYAYHJZSA-N |  | ||
| GOL Query on GOL | K [auth B] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| NA Query on NA | C [auth A] D [auth A] E [auth A] F [auth A] G [auth A] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| 74P Query on 74P | A, B | L-PEPTIDE LINKING | C11 H18 N2 O5 |  | LYS |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.10 Å
- R-Value Free: 0.207
- R-Value Work: 0.168
- R-Value Observed: 0.170
- Space Group: C 2 2 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 56.714 | α = 90 |
| b = 161.492 | β = 90 |
| c = 137.325 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| HKL-3000 | data reduction |
| SCALEPACK | data scaling |
| PHASER | phasing |
Entry History
Deposition Data
- Released Date: 2016-10-05 Deposition Author(s): Chooback, L., Thomas, L.M., Karsten, W.E., Fleming, C.D., Seabourn, P.
Revision History (Full details and data files)
- Version 1.0: 2016-10-05
Type: Initial release - Version 1.1: 2017-05-17
Changes: Non-polymer description - Version 1.2: 2017-08-23
Changes: Data collection - Version 1.3: 2018-05-30
Changes: Data collection, Derived calculations - Version 2.0: 2019-08-07
Type: Coordinate replacement
Reason: Model completeness
Changes: Advisory, Atomic model, Author supporting evidence, Data collection, Derived calculations, Refinement description, Structure summary - Version 2.1: 2019-10-02
Changes: Data collection, Derived calculations - Version 2.2: 2023-10-04
Changes: Data collection, Database references, Derived calculations, Refinement description - Version 2.3: 2023-11-15
Changes: Data collection, Derived calculations
