Download MendeleyCrystal structure of L-lactate dehydrogenase from Bacillus subtilis complexed with FBP and NAD+
zhang, Y., Garavito, R.M.To be published.
3PQD
Crystal structure of L-lactate dehydrogenase from Bacillus subtilis complexed with FBP and NAD+
- PDB DOI: 10.2210/pdb3PQD/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Bacillus subtilis
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2010-11-26 Released: 2012-01-18
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.38 Å
- R-Value Free: 0.269
- R-Value Work: 0.214
- R-Value Observed: 0.215
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 |
| L-lactate dehydrogenase | 326 | Bacillus subtilis | Mutation(s): 0 Gene Names: ldh, lctE, BSU03050 EC: 1.1.1.27 |  | |
UniProt | |||||
Find proteins for P13714 (Bacillus subtilis (strain 168)) Explore P13714 Go to UniProtKB: P13714 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P13714 | ||||
Protein Feature ViewExpand | |||||
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Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAD Query on NAD | J [auth D] | NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N |  | Ligand Interaction | |
| FBP Query on FBP | I [auth C], K [auth D], L [auth F], M [auth G] | 1,6-di-O-phosphono-beta-D-fructofuranose C6 H14 O12 P2 RNBGYGVWRKECFJ-ARQDHWQXSA-N |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.38 Å
- R-Value Free: 0.269
- R-Value Work: 0.214
- R-Value Observed: 0.215
- Space Group: P 31
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 171.041 | α = 90 |
| b = 171.041 | β = 90 |
| c = 96.272 | γ = 120 |
| Software Name | Purpose |
|---|---|
| HKL-2000 | data collection |
| AMoRE | phasing |
| PHENIX | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
Entry History
Deposition Data
- Released Date: 2012-01-18 Deposition Author(s): Zhang, Y., Garavito, R.M.
Revision History (Full details and data files)
- Version 1.0: 2012-01-18
Type: Initial release - Version 1.1: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Data collection, Database references, Derived calculations, Structure summary
