Download MendeleyControl of ADAR2 Dimerization and RNA Editing Efficiency by Site-specific 2'-Fluoro Modification of Guide RNAs
Campbell, K.B., Ouye, R.B., Wong, B.L., Jiang, A., Okada, K., McKenney, R.J., Fisher, A.J., Beal, P.A.To be published.
9OP3 | pdb_00009op3
Structure of Human ADAR2-R2D complexed with dsRNA containing 8-azaN and 2'-Deoxy-2'-fluorouridine
- PDB DOI: https://doi.org/10.2210/pdb9OP3/pdb
- Classification: RNA BINDING PROTEIN/RNA
- Organism(s): Homo sapiens
- Expression System: Saccharomyces cerevisiae
- Mutation(s): Yes
- Deposited: 2025-05-16 Released: 2025-10-08
- Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.59 Å
- R-Value Free: 0.220 (Depositor), 0.220 (DCC)
- R-Value Work: 0.178 (Depositor), 0.178 (DCC)
- R-Value Observed: 0.180 (Depositor)
Starting Model: experimental
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This is version 1.0 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 |
| Double-stranded RNA-specific editase 1 | 488 | Homo sapiens | Mutation(s): 1 Gene Names: ADARB1, ADAR2, DRADA2, RED1 EC: 3.5.4.37 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P78563 (Homo sapiens) Go to UniProtKB: P78563 | |||||
PHAROS: P78563 GTEx: ENSG00000197381 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P78563-4 | ||||
Sequence AnnotationsExpand | |||||
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Find similar nucleic acids by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| RNA 32mer Top Strand | 32 | Homo sapiens |  | ||
Sequence AnnotationsExpand | |||||
| |||||
Find similar nucleic acids by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| RNA 32mer 2F Bottom Strand | 32 | Homo sapiens |  | ||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 4 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| IHP Query on IHP | E [auth A], K [auth B] | INOSITOL HEXAKISPHOSPHATE C6 H18 O24 P6 IMQLKJBTEOYOSI-GPIVLXJGSA-N |  | ||
| ZN Query on ZN | F [auth A], L [auth B] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
| EDO Query on EDO | G [auth A], H [auth A], I [auth A] | 1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N |  | ||
| NA Query on NA | J [auth A] | SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.59 Å
- R-Value Free: 0.220 (Depositor), 0.220 (DCC)
- R-Value Work: 0.178 (Depositor), 0.178 (DCC)
- R-Value Observed: 0.180 (Depositor)
Space Group: C 1 2 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 170 | α = 90 |
| b = 63.21 | β = 118.13 |
| c = 142.2 | γ = 90 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| Aimless | data scaling |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2025-10-08 Deposition Author(s): Campbell, K.B., Ouye, R.B., Wong, B.L., Jiang, A., Okada, K., McKenney, R.J., Fisher, A.J., Beal, P.A.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) | United States | R35GM141907 |
| National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) | United States | R01GM149799 |
Revision History (Full details and data files)
- Version 1.0: 2025-10-08
Type: Initial release
