Download MendeleyCrystal structure of PanE/ApbA family ketopantoate reductase (YP_299159.1) from Ralstonia eutropha JMP134 at 2.15 A resolution
Joint Center for Structural Genomics (JCSG)To be published.
3HWR | pdb_00003hwr
Crystal structure of PanE/ApbA family ketopantoate reductase (YP_299159.1) from Ralstonia eutropha JMP134 at 2.15 A resolution
- PDB DOI: https://doi.org/10.2210/pdb3HWR/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Cupriavidus pinatubonensis JMP134
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2009-06-18 Released: 2009-06-30
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.15 Å
- R-Value Free: 0.226 (Depositor), 0.230 (DCC)
- R-Value Work: 0.183 (Depositor), 0.180 (DCC)
- R-Value Observed: 0.186 (Depositor)
This is version 1.5 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 |
| 2-dehydropantoate 2-reductase | 318 | Cupriavidus pinatubonensis JMP134 | Mutation(s): 0 Gene Names: Reut_B4967, YP_299159.1 EC: 1.1.1.169 |  | |
UniProt | |||||
Find proteins for Q46RB9 (Cupriavidus pinatubonensis (strain JMP 134 / LMG 1197)) Explore Q46RB9 Go to UniProtKB: Q46RB9 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q46RB9 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NDP Query on NDP | C [auth A], F [auth B] | NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H30 N7 O17 P3 ACFIXJIJDZMPPO-NNYOXOHSSA-N |  | ||
| BCN Query on BCN | D [auth A], G [auth B] | BICINE C6 H13 N O4 FSVCELGFZIQNCK-UHFFFAOYSA-N |  | ||
| MRD Query on MRD | E [auth A], H [auth B] | (4R)-2-METHYLPENTANE-2,4-DIOL C6 H14 O2 SVTBMSDMJJWYQN-RXMQYKEDSA-N |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.15 Å
- R-Value Free: 0.226 (Depositor), 0.230 (DCC)
- R-Value Work: 0.183 (Depositor), 0.180 (DCC)
- R-Value Observed: 0.186 (Depositor)
Diffraction Data: https://doi.org/10.18430/M33HWR
Space Group: P 61
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 116.21 | α = 90 |
| b = 116.21 | β = 90 |
| c = 95.604 | γ = 120 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| PHENIX | refinement |
| SHELX | phasing |
| MolProbity | model building |
| SCALA | data scaling |
| PDB_EXTRACT | data extraction |
| MOSFLM | data reduction |
| XDS | data reduction |
| XSCALE | data scaling |
| SHELXD | phasing |
| autoSHARP | phasing |
Entry History
Deposition Data
- Released Date: 2009-06-30 Deposition Author(s): Joint Center for Structural Genomics (JCSG)
Revision History (Full details and data files)
- Version 1.0: 2009-06-30
Type: Initial release - Version 1.1: 2011-07-13
Changes: Advisory, Source and taxonomy, Version format compliance - Version 1.2: 2017-11-01
Changes: Refinement description - Version 1.3: 2019-07-24
Changes: Data collection, Derived calculations, Refinement description - Version 1.4: 2023-02-01
Changes: Database references, Derived calculations - Version 1.5: 2024-11-20
Changes: Data collection, Refinement description, Structure summary
