Download MendeleyE3 ubiquitin ligase RNF213 employs a non-canonical zinc finger active site and is allosterically regulated by ATP
Ahel, J., Fletcher, A.J., Grabarczyk, D., Roitinger, E., Deszcz, L., Lehner, A., Virdee, S., Clausen, T.To be published.
7OIK
Mouse RNF213:UBE2L3 transthiolation intermediate, chemically stabilized
- PDB DOI: https://doi.org/10.2210/pdb7OIK/pdb
- EM Map EMD-12931: EMDB EMDataResource
- Classification: SIGNALING PROTEIN
- Organism(s): Mus musculus, Homo sapiens
- Expression System: Trichoplusia ni, Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2021-05-11 Released: 2022-06-01
- Funding Organization(s): European Research Council (ERC), Austrian Research Promotion Agency, Medical Research Council (MRC, United Kingdom), Biotechnology and Biological Sciences Research Council (BBSRC)
Experimental Data Snapshot
- Method: ELECTRON MICROSCOPY
- Resolution: 3.50 Å
- Aggregation State: PARTICLE
- Reconstruction Method: SINGLE PARTICLE
wwPDB Validation 3D Report Full Report
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 |
| E3 ubiquitin-protein ligase RNF213 | 5,161 | Mus musculus | Mutation(s): 0 Gene Names: Rnf213, Mystr EC: 2.3.2.27 (PDB Primary Data), 3.6.4 (PDB Primary Data) |  | |
UniProt | |||||
Find proteins for E9Q555 (Mus musculus) Explore E9Q555 Go to UniProtKB: E9Q555 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | E9Q555 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Ubiquitin-conjugating enzyme E2 L3 | 166 | Homo sapiens | Mutation(s): 0 Gene Names: UBE2L3, UBCE7, UBCH7 EC: 2.3.2.23 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P68036 (Homo sapiens) Explore P68036 Go to UniProtKB: P68036 | |||||
PHAROS: P68036 GTEx: ENSG00000185651 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P68036 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ATP Query on ATP | C [auth A] | ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N |  | ||
| ZN (Subject of Investigation/LOI) Query on ZN | E [auth A], F [auth A] | ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N |  | ||
| MG (Subject of Investigation/LOI) Query on MG | D [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: ELECTRON MICROSCOPY
- Resolution: 3.50 Å
- Aggregation State: PARTICLE
- Reconstruction Method: SINGLE PARTICLE
| Task | Software Package | Version |
|---|---|---|
| RECONSTRUCTION | RELION | 3.1 |
| MODEL REFINEMENT | PHENIX |
Entry History & Funding Information
Deposition Data
- Released Date: 2022-06-01 Deposition Author(s): Grabarczyk, D., Ahel, J., Clausen, T.
| Funding Organization | Location | Grant Number |
|---|---|---|
| European Research Council (ERC) | Austria | 694978 |
| Austrian Research Promotion Agency | Austria | 852936 |
| Medical Research Council (MRC, United Kingdom) | United Kingdom | MC_UU_12016/8 |
| Biotechnology and Biological Sciences Research Council (BBSRC) | United Kingdom | BB/ P003982/1 |
Revision History (Full details and data files)
- Version 1.0: 2022-06-01
Type: Initial release
