Download MendeleyAlike but Different: Adenylate kinases from E. Coli, Aquifex, and P. profundum
Cho, Y.-J., Kerns, S.J., Kern, D.To be published.
4K46
Crystal Structure of Adenylate Kinase from Photobacterium profundum
- PDB DOI: https://doi.org/10.2210/pdb4K46/pdb
- Classification: TRANSFERASE
- Organism(s): Photobacterium profundum
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2013-04-12 Released: 2014-07-16
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.01 Å
- R-Value Free: 0.223
- R-Value Work: 0.167
- R-Value Observed: 0.170
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 |
| Adenylate kinase | 214 | Photobacterium profundum | Mutation(s): 0 Gene Names: adk, PBPRA1024 EC: 2.7.4.3 |  | |
UniProt | |||||
Find proteins for Q6LTE1 (Photobacterium profundum (strain SS9)) Explore Q6LTE1 Go to UniProtKB: Q6LTE1 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q6LTE1 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ADP Query on ADP | B [auth A] | ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N |  | ||
| AMP Query on AMP | C [auth A] | ADENOSINE MONOPHOSPHATE C10 H14 N5 O7 P UDMBCSSLTHHNCD-KQYNXXCUSA-N |  | ||
| PO4 Query on PO4 | D [auth A] | PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.01 Å
- R-Value Free: 0.223
- R-Value Work: 0.167
- R-Value Observed: 0.170
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 42.59 | α = 90 |
| b = 70.23 | β = 90 |
| c = 71.68 | γ = 90 |
| Software Name | Purpose |
|---|---|
| MOSFLM | data reduction |
| SCALA | data scaling |
| PHASER | phasing |
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
Entry History
Deposition Data
- Released Date: 2014-07-16 Deposition Author(s): Cho, Y.-J., Kerns, S.J., Kern, D.
Revision History (Full details and data files)
- Version 1.0: 2014-07-16
Type: Initial release - Version 1.1: 2024-02-28
Changes: Data collection, Database references, Derived calculations
