Download MendeleyCrystal structure of an APRT from Yersinia pseudotuberculosis in complex with AMP.
Pavithra, G.C., Ramagopal, U.A.To be published.
5B6H
Crystal structure of an APRT from Yersinia pseudotuberculosis in complex with AMP.
- PDB DOI: https://doi.org/10.2210/pdb5B6H/pdb
- Classification: TRANSFERASE
- Organism(s): Yersinia pseudotuberculosis IP 32953
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2016-05-27 Released: 2017-05-31
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.212
- R-Value Work: 0.187
- R-Value Observed: 0.188
Starting Model: experimental
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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 |
| Adenine phosphoribosyltransferase | 181 | Yersinia pseudotuberculosis IP 32953 | Mutation(s): 0 Gene Names: apt, YPTB0991 EC: 2.4.2.7 |  | |
UniProt | |||||
Find proteins for Q66DQ2 (Yersinia pseudotuberculosis serotype I (strain IP32953)) Explore Q66DQ2 Go to UniProtKB: Q66DQ2 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q66DQ2 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| AMP Query on AMP | B [auth A] | ADENOSINE MONOPHOSPHATE C10 H14 N5 O7 P UDMBCSSLTHHNCD-KQYNXXCUSA-N |  | ||
| CL Query on CL | E [auth A] | CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M |  | ||
| NA Query on NA | C [auth A], D [auth A] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.90 Å
- R-Value Free: 0.212
- R-Value Work: 0.187
- R-Value Observed: 0.188
- Space Group: C 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 60.875 | α = 90 |
| b = 78.554 | β = 116.56 |
| c = 53.885 | γ = 90 |
| Software Name | Purpose |
|---|---|
| SCALEPACK | data scaling |
| REFMAC | refinement |
| PDB_EXTRACT | data extraction |
| DENZO | data reduction |
| MOLREP | model building |
Entry History
Deposition Data
- Released Date: 2017-05-31 Deposition Author(s): Pavithra, G.C., Ramagopal, U.A.
Revision History (Full details and data files)
- Version 1.0: 2017-05-31
Type: Initial release - Version 1.1: 2023-11-08
Changes: Data collection, Database references, Derived calculations, Refinement description
