Download Mendeley1-deoxy-D-xylulose 5-phosphate reductoisomerase from Yersinia pestis in complex with NADPH .
Osipiuk, J., Mulligan, R., Stam, J., Anderson, W.F., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)To be published.
5DUL
1-deoxy-D-xylulose 5-phosphate reductoisomerase from Yersinia pestis in complex with NADPH
- PDB DOI: https://doi.org/10.2210/pdb5DUL/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Yersinia pestis
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2015-09-18 Released: 2015-09-30
- Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.60 Å
- R-Value Free: 0.238
- R-Value Work: 0.194
- R-Value Observed: 0.196
This is version 1.3 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 |
| 1-deoxy-D-xylulose 5-phosphate reductoisomerase | 401 | Yersinia pestis | Mutation(s): 0 Gene Names: dxr, YPO1048, y3131, YP_2802 EC: 1.1.1.267 |  | |
UniProt | |||||
Find proteins for Q8ZH62 (Yersinia pestis) Explore Q8ZH62 Go to UniProtKB: Q8ZH62 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q8ZH62 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NDP Query on NDP | E [auth A], F [auth B], G [auth C], H [auth D] | NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C21 H30 N7 O17 P3 ACFIXJIJDZMPPO-NNYOXOHSSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.60 Å
- R-Value Free: 0.238
- R-Value Work: 0.194
- R-Value Observed: 0.196
- Space Group: P 32
- Diffraction Data: https://doi.org/10.18430/M35DUL
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 121.306 | α = 90 |
| b = 121.306 | β = 90 |
| c = 86.827 | γ = 120 |
| Software Name | Purpose |
|---|---|
| HKL-3000 | data scaling |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| HKL-3000 | data reduction |
| HKL-3000 | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2015-09-30 Deposition Author(s): Osipiuk, J., Mulligan, R., Stam, J., Anderson, W.F., Joachimiak, A., Center for Structural Genomics of Infectious Diseases (CSGID)
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) | United States | HHSN272200700058C |
| National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID) | United States | HHSN272201200026C |
Revision History (Full details and data files)
- Version 1.0: 2015-09-30
Type: Initial release - Version 1.1: 2017-09-27
Changes: Author supporting evidence, Derived calculations - Version 1.2: 2019-12-11
Changes: Author supporting evidence - Version 1.3: 2023-09-27
Changes: Data collection, Database references, Refinement description
