Download MendeleyCrystal structure of orotidine 5'-monophosphate decarboxylase from Sulfolobus solfataricus complexed with inhibitor BMP
Fedorov, A.A., Fedorov, E.V., Desai, B., Gerlt, J.A., Almo, S.C.To be published.
4DBE
Crystal structure of orotidine 5'-monophosphate decarboxylase from Sulfolobus solfataricus complexed with inhibitor BMP
- PDB DOI: https://doi.org/10.2210/pdb4DBE/pdb
- Classification: LYASE/LYASE INHIBITOR
- Organism(s): Saccharolobus solfataricus 98/2
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2012-01-14 Released: 2013-01-16
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.79 Å
- R-Value Free: 0.236
- R-Value Work: 0.195
- R-Value Observed: 0.197
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 |
| Orotidine 5'-phosphate decarboxylase | 222 | Saccharolobus solfataricus 98/2 | Mutation(s): 0 Gene Names: pyrF, Ssol_1680 EC: 4.1.1.23 |  | |
UniProt | |||||
Find proteins for D0KT28 (Saccharolobus solfataricus (strain 98/2)) Explore D0KT28 Go to UniProtKB: D0KT28 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | D0KT28 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| BMP Query on BMP | C [auth A], G [auth B] | 6-HYDROXYURIDINE-5'-PHOSPHATE C9 H13 N2 O10 P UDOBICLZEKUKCV-YXZULKJRSA-N |  | ||
| SO4 Query on SO4 | H [auth B] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| GOL Query on GOL | D [auth A], E [auth A], F [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.79 Å
- R-Value Free: 0.236
- R-Value Work: 0.195
- R-Value Observed: 0.197
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 72.414 | α = 90 |
| b = 41.536 | β = 94.08 |
| c = 73.117 | γ = 90 |
| Software Name | Purpose |
|---|---|
| CBASS | data collection |
| PHENIX | model building |
| PHENIX | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| PHENIX | phasing |
Entry History
Deposition Data
- Released Date: 2013-01-16 Deposition Author(s): Fedorov, A.A., Fedorov, E.V., Desai, B., Gerlt, J.A., Almo, S.C.
Revision History (Full details and data files)
- Version 1.0: 2013-01-16
Type: Initial release - Version 1.1: 2023-09-13
Changes: Data collection, Database references, Derived calculations, Refinement description
