Download MendeleyCrystal structure of adenylate kinase variant AKlse1.
Bannen, R.M., Bae, E., McCoy, J.G., Phillips Jr., G.N.To be published.
3DKV
Crystal structure of adenylate kinase variant AKlse1
- PDB DOI: https://doi.org/10.2210/pdb3DKV/pdb
- Classification: TRANSFERASE
- Organism(s): Bacillus subtilis
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2008-06-26 Released: 2009-06-09
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.82 ?
- R-Value Free: 0.231
- R-Value Work: 0.174
- R-Value Observed: 0.177
Starting Model: experimental
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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 |
| Adenylate kinase | 217 | Bacillus subtilis | Mutation(s): 0 Gene Names: ADK EC: 2.7.4.3 |  | |
UniProt | |||||
Find proteins for P16304 (Bacillus subtilis (strain 168)) Explore P16304 Go to UniProtKB: P16304 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P16304 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| AP5 Query on AP5 | D [auth A] | BIS(ADENOSINE)-5'-PENTAPHOSPHATE C20 H29 N10 O22 P5 OIMACDRJUANHTJ-XPWFQUROSA-N |  | ||
| ZN Query on ZN | B [auth A] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
| EDO Query on EDO | E [auth A], F [auth A], G [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| MG Query on MG | C [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.82 ?
- R-Value Free: 0.231
- R-Value Work: 0.174
- R-Value Observed: 0.177
- Space Group: P 21 21 21
Unit Cell:
| Length ( ? ) | Angle ( ? ) |
|---|---|
| a = 44.624 | ¦Á = 90 |
| b = 62.056 | ¦Â = 90 |
| c = 86.995 | ¦Ă = 90 |
| Software Name | Purpose |
|---|---|
| MOLREP | phasing |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| MAR345 | data collection |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
Entry History
Deposition Data
- Released Date: 2009-06-09 Deposition Author(s): Bannen, R.M., Bianchetti, C.M., Bingman, C.A., Bitto, E.B.
Revision History (Full details and data files)
- Version 1.0: 2009-06-09
Type: Initial release - Version 1.1: 2011-07-13
Changes: Advisory, Version format compliance - Version 1.2: 2017-10-25
Changes: Refinement description - Version 1.3: 2023-08-30
Changes: Data collection, Database references, Derived calculations, Refinement description
