Download MendeleyX-RAY STRUCTURE OF SPERMIDINE SYNTHASE FROM ARABIDOPSIS THALIANA GENE AT1G23820
Center for Eukaryotic Structural GenomicsTo be published.
1XJ5
X-RAY STRUCTURE OF SPERMIDINE SYNTHASE FROM ARABIDOPSIS THALIANA GENE AT1G23820
- PDB DOI: https://doi.org/10.2210/pdb1XJ5/pdb
- Classification: TRANSFERASE
- Organism(s): Arabidopsis thaliana
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2004-09-22 Released: 2004-10-05
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.245
- R-Value Work: 0.188
wwPDB Validation 3D Report Full Report
This is version 1.5 of the entry. See complete history.
Re-refinement Note
A newer entry is available that reflects an alternative modeling of the original data: 2Q41
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Spermidine synthase 1 | 334 | Arabidopsis thaliana | Mutation(s): 8 Gene Names: AT1G23820 EC: 2.5.1.16 |  | |
UniProt | |||||
Find proteins for Q9ZUB3 (Arabidopsis thaliana) Explore Q9ZUB3 Go to UniProtKB: Q9ZUB3 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q9ZUB3 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A, B, C, D | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.70 Å
- R-Value Free: 0.245
- R-Value Work: 0.188
- Space Group: P 1 21 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 88.814 | α = 90 |
| b = 95.207 | β = 104.96 |
| c = 89.164 | γ = 90 |
| Software Name | Purpose |
|---|---|
| DENZO | data reduction |
| SCALEPACK | data scaling |
| CNS | phasing |
| RESOLVE | phasing |
| MOLREP | phasing |
| CNS | refinement |
| PHENIX | phasing |
Entry History
Deposition Data
- Released Date: 2004-10-05 Deposition Author(s): Wesenberg, G.E., Smith, D.W., Phillips Jr., G.N., Bitto, E., Bingman, C.A., Allard, S.T.M., Center for Eukaryotic Structural Genomics (CESG)
Revision History (Full details and data files)
- Version 1.0: 2004-10-05
Type: Initial release - Version 1.1: 2008-02-01
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 1.3: 2017-10-11
Changes: Refinement description - Version 1.4: 2023-08-23
Changes: Data collection, Database references, Derived calculations, Refinement description - Version 1.5: 2023-11-15
Changes: Data collection
