Download MendeleyAllosteric Activation of Pyruvate Decarboxylases. A Never-Ending Story.
Konig, S., Spinka, M., Kutter, S.(2014) J Mol Catal B Enzym 61: 100
2VK4
Crystal structure of pyruvate decarboxylase from Kluyveromyces lactis
- PDB DOI: https://doi.org/10.2210/pdb2VK4/pdb
- Entry: 2VK4 supersedes: 2G1I
- Classification: LYASE
- Organism(s): Kluyveromyces lactis
- Mutation(s): No
- Deposited: 2007-12-17 Released: 2009-01-27
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.95 Å
- R-Value Free: 0.230
- R-Value Work: 0.178
- R-Value Observed: 0.180
Starting Model: experimental
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This is version 1.7 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 |
| PYRUVATE DECARBOXYLASE | 563 | Kluyveromyces lactis | Mutation(s): 0 EC: 4.1.1.1 |  | |
UniProt | |||||
Find proteins for Q12629 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)) Explore Q12629 Go to UniProtKB: Q12629 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q12629 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| TPP Query on TPP | E [auth A], G [auth B], I [auth C], K [auth D] | THIAMINE DIPHOSPHATE C12 H19 N4 O7 P2 S AYEKOFBPNLCAJY-UHFFFAOYSA-O |  | ||
| MG Query on MG | F [auth A], H [auth B], J [auth C], L [auth D] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.95 Å
- R-Value Free: 0.230
- R-Value Work: 0.178
- R-Value Observed: 0.180
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 78.709 | α = 90 |
| b = 203.175 | β = 91.81 |
| c = 79.815 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| MOSFLM | data reduction |
| SCALA | data scaling |
| MOLREP | phasing |
Entry History
Deposition Data
- Released Date: 2009-01-27 Deposition Author(s): Kutter, S., Relle, S., Wille, G., Weiss, M.S., Konig, S.
- This entry supersedes: 2G1I
Revision History (Full details and data files)
- Version 1.0: 2009-01-27
Type: Initial release - Version 1.1: 2011-05-08
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 1.3: 2019-01-30
Changes: Data collection, Experimental preparation, Other - Version 1.4: 2019-02-06
Changes: Data collection, Experimental preparation - Version 1.5: 2019-07-10
Changes: Data collection - Version 1.6: 2019-07-24
Changes: Data collection - Version 1.7: 2023-12-13
Changes: Data collection, Database references, Derived calculations, Other, Refinement description
