Download MendeleyThe crystal structure of xylulose kinase from Yersinia pseudotuberculosis
Zhang, Z., Burley, S.K., Swaminathan, S.To be published.
3L0Q
The crystal structure of xlylulose kinase from Yersinia pseudotuberculosis
- PDB DOI: https://doi.org/10.2210/pdb3L0Q/pdb
- Classification: TRANSFERASE
- Organism(s): Yersinia pseudotuberculosis
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2009-12-10 Released: 2010-01-05
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.61 ?
- R-Value Free: 0.222
- R-Value Work: 0.192
- R-Value Observed: 0.193
Starting Model: experimental
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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 |
| xylulose kinase | 554 | Yersinia pseudotuberculosis | Mutation(s): 0 Gene Names: araB2, y0231, YPTB3592, YP_3910 |  | |
UniProt | |||||
Find proteins for Q665C6 (Yersinia pseudotuberculosis serotype I (strain IP32953)) Explore Q665C6 Go to UniProtKB: Q665C6 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q665C6 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| EPE Query on EPE | D [auth B] | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N |  | ||
| XUL Query on XUL | C [auth A] | D-XYLULOSE C5 H10 O5 ZAQJHHRNXZUBTE-WUJLRWPWSA-N |  | ||
| GOL Query on GOL | E [auth B] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-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: 1.61 ?
- R-Value Free: 0.222
- R-Value Work: 0.192
- R-Value Observed: 0.193
- Space Group: P 1 21 1
Unit Cell:
| Length ( ? ) | Angle ( ? ) |
|---|---|
| a = 61.876 | ¦Á = 90 |
| b = 110.005 | ¦Â = 99.71 |
| c = 80.532 | ¦Ă = 90 |
| Software Name | Purpose |
|---|---|
| CBASS | data collection |
| PHASER | phasing |
| PHENIX | refinement |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
Entry History
Deposition Data
- Released Date: 2010-01-05 Deposition Author(s): Zhang, Z., Burley, S.K., Swaminathan, S., New York SGX Research Center for Structural Genomics (NYSGXRC)
Revision History (Full details and data files)
- Version 1.0: 2010-01-05
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2021-02-10
Changes: Database references, Derived calculations, Structure summary - Version 1.3: 2023-09-06
Changes: Data collection, Database references, Refinement description - Version 1.4: 2023-11-22
Changes: Data collection - Version 1.5: 2024-11-06
Changes: Structure summary
