Download MendeleyWheat dwarf virus Rep domain complexed with a single-stranded DNA 8-mer comprising the cleavage site
Tompkins, K.To be published.
6WE1
Wheat dwarf virus Rep domain complexed with a single-stranded DNA 8-mer comprising the cleavage site
- DOI: 10.2210/pdb6WE1/pdb
- NDB: 6WE1
- Classification: REPLICATION/DNA
- Organism(s): Wheat dwarf virus
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): Yes
- Deposited: 2020-04-01 Released: 2020-12-16
- Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.61 Å
- R-Value Free: 0.243
- R-Value Work: 0.188
- R-Value Observed: 0.191
wwPDB Validation 3D Report Full Report
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Replication-associated protein | A, D | 139 | Wheat dwarf virus | Mutation(s): 1 Gene Names: rep EC: 3.1.21 |  |
Find proteins for A0A0F6N3D1 (Wheat dwarf virus) Explore A0A0F6N3D1 Go to UniProtKB: A0A0F6N3D1 | |||||
Protein Feature ViewExpand | |||||
| |||||
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| DNA (5'-D(*AP*AP*TP*AP*TP*TP*AP*C)-3') | C, F | 8 | Wheat dwarf virus |  | |
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| MN Query on MN | A, C, D | MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.61 Å
- R-Value Free: 0.243
- R-Value Work: 0.188
- R-Value Observed: 0.191
- Space Group: P 41 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 50.626 | α = 90 |
| b = 50.626 | β = 90 |
| c = 241.977 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| PHENIX | phasing |
| Coot | model building |
Entry History & Funding Information
Deposition Data
- Deposited Date: 2020-04-01
- Released Date: 2020-12-16 Deposition Author(s): Tompkins, K., Litzau, L.A., Pornschloegl, L., Nelson, A.T., Evans III, R.L., Gordon, W.R.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) | United States | GM119483 |
