Download MendeleyThe crystal structures of pyruvate decarboxylase from Kluyveromyces lactis in the absence of ligands and in the presence of the substrate surrogate pyruvamide
Kutter, S., Konig, S.To be published.
6EFG
Pyruvate decarboxylase from Kluyveromyces lactis
- PDB DOI: https://doi.org/10.2210/pdb6EFG/pdb
- Classification: LYASE
- Organism(s): Kluyveromyces lactis NRRL Y-1140
- Mutation(s): No
- Deposited: 2018-08-16 Released: 2018-08-29
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.04 ?
- R-Value Free: 0.290
- R-Value Work: 0.221
- R-Value Observed: 0.221
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 |
| Pyruvate decarboxylase | A, B, C [auth D], D [auth E] | 563 | Kluyveromyces lactis NRRL Y-1140 | 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 D], K [auth E] | THIAMINE DIPHOSPHATE C12 H19 N4 O7 P2 S AYEKOFBPNLCAJY-UHFFFAOYSA-O |  | ||
| MG Query on MG | F [auth A], H [auth B], J [auth D], L [auth E] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.04 ?
- R-Value Free: 0.290
- R-Value Work: 0.221
- R-Value Observed: 0.221
- Space Group: P 1
Unit Cell:
| Length ( ? ) | Angle ( ? ) |
|---|---|
| a = 78.36 | ¦Á = 80.1 |
| b = 78.48 | ¦Â = 67.72 |
| c = 100.57 | ¦Ă = 77.4 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| xia2 | data reduction |
| XDS | data reduction |
| Aimless | data scaling |
| MOLREP | phasing |
Entry History
Deposition Data
- Released Date: 2018-08-29 Deposition Author(s): Kutter, S., Konig, S.
Revision History (Full details and data files)
- Version 1.0: 2018-08-29
Type: Initial release - Version 1.1: 2023-10-11
Changes: Data collection, Database references, Derived calculations, Refinement description
