Download MendeleyAnalysis of the Dimer Interface in Crystal Structures of Vaccinia Virus Uracil DNA Glycosylase
Schormann, N., Sommers, C.I., Ricciardi, R.P., Chattopadhyay, D.To be published.
4DOG
Structures of Vaccinia Virus Uracil-DNA Glycosylase in New Crystal Forms
- PDB DOI: https://doi.org/10.2210/pdb4DOG/pdb
- Classification: HYDROLASE
- Organism(s): Vaccinia virus Western Reserve
- Expression System: Escherichia coli
- Mutation(s): Yes
- Deposited: 2012-02-09 Released: 2013-02-20
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.276
- R-Value Work: 0.234
- R-Value Observed: 0.236
wwPDB Validation 3D Report Full Report
This is version 1.2 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 |
| Uracil-DNA glycosylase | 221 | Vaccinia virus Western Reserve | Mutation(s): 1 Gene Names: D4R, VACWR109 EC: 3.2.2.27 |  | |
UniProt | |||||
Find proteins for P04303 (Vaccinia virus (strain Western Reserve)) Explore P04303 Go to UniProtKB: P04303 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P04303 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| SO4 Query on SO4 | B [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
| EDO Query on EDO | C [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.276
- R-Value Work: 0.234
- R-Value Observed: 0.236
- Space Group: P 64 2 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 85.79 | α = 90 |
| b = 85.79 | β = 90 |
| c = 123.46 | γ = 120 |
| Software Name | Purpose |
|---|---|
| StructureStudio | data collection |
| PHASER | phasing |
| REFMAC | refinement |
| d*TREK | data reduction |
| d*TREK | data scaling |
Entry History
Deposition Data
- Released Date: 2013-02-20 Deposition Author(s): Schormann, N., Chattopadhyay, D.
Revision History (Full details and data files)
- Version 1.0: 2013-02-20
Type: Initial release - Version 1.1: 2016-06-29
Changes: Source and taxonomy - Version 1.2: 2023-09-13
Changes: Data collection, Database references, Derived calculations, Refinement description
