Download MendeleyCrystal Structure of Short-chain dehydrogenase/reductase SDR from Burkholderia phymatum in complex with NADP
Delker, S.L., Edwards, T.E., Lorimer, D.To be published.
5VA8
Crystal Structure of Short-chain dehydrogenase/reductase SDR from Burkholderia phymatum in complex with NADP
- PDB DOI: https://doi.org/10.2210/pdb5VA8/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Paraburkholderia phymatum STM815
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2017-03-24 Released: 2017-04-26
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.60 Å
- R-Value Free: 0.177
- R-Value Work: 0.149
- R-Value Observed: 0.149
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 |
| Short-chain dehydrogenase/reductase SDR | 267 | Paraburkholderia phymatum STM815 | Mutation(s): 0 Gene Names: Bphy_2062 |  | |
UniProt | |||||
Find proteins for B2JE32 (Paraburkholderia phymatum (strain DSM 17167 / CIP 108236 / LMG 21445 / STM815)) Explore B2JE32 Go to UniProtKB: B2JE32 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | B2JE32 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NAP Query on NAP | E [auth A], H [auth B], J [auth C], M [auth D] | NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H28 N7 O17 P3 XJLXINKUBYWONI-NNYOXOHSSA-N |  | ||
| TCE Query on TCE | F [auth A], I [auth B], K [auth C], N [auth D] | 3,3',3''-phosphanetriyltripropanoic acid C9 H15 O6 P PZBFGYYEXUXCOF-UHFFFAOYSA-N |  | ||
| MPO Query on MPO | G [auth A], L [auth C], O [auth D] | 3[N-MORPHOLINO]PROPANE SULFONIC ACID C7 H15 N O4 S DVLFYONBTKHTER-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.60 Å
- R-Value Free: 0.177
- R-Value Work: 0.149
- R-Value Observed: 0.149
- Space Group: P 21 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 133.56 | α = 90 |
| b = 75.13 | β = 90 |
| c = 109.88 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XDS | data reduction |
| XDS | data scaling |
| PHENIX | phasing |
Entry History
Deposition Data
- Released Date: 2017-04-26 Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)
Revision History (Full details and data files)
- Version 1.0: 2017-04-26
Type: Initial release - Version 1.1: 2023-10-04
Changes: Data collection, Database references, Other, Refinement description
