Download MendeleyThe crystal structure of Lys48-linked di-ubiquitin
Osipiuk, J., Tesar, C., Lanham, B.T., Wydorski, P., Fushman, D., Joachimiak, L., Joachimiak, A.To be published.
7S6O
The crystal structure of Lys48-linked di-ubiquitin
- PDB DOI: https://doi.org/10.2210/pdb7S6O/pdb
- Classification: SIGNALING PROTEIN
- Organism(s): Homo sapiens
- Expression System: Escherichia coli BL21
- Mutation(s): Yes
- Deposited: 2021-09-14 Released: 2021-09-22
- Funding Organization(s): Department of Energy (DOE, United States)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.25 Å
- R-Value Free: 0.175
- R-Value Work: 0.129
- R-Value Observed: 0.131
wwPDB Validation 3D Report Full Report
This is version 2.0 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 |
| Ubiquitin | A | 76 | Homo sapiens | Mutation(s): 1 Gene Names: UBB |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P0CG47 (Homo sapiens) Explore P0CG47 Go to UniProtKB: P0CG47 | |||||
PHAROS: P0CG47 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P0CG47 | ||||
Protein Feature ViewExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Ubiquitin | B | 77 | Homo sapiens | Mutation(s): 0 Gene Names: UBB |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P0CG47 (Homo sapiens) Explore P0CG47 Go to UniProtKB: P0CG47 | |||||
PHAROS: P0CG47 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P0CG47 | ||||
Protein Feature ViewExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ACT Query on ACT | C [auth B], D [auth B] | ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.25 Å
- R-Value Free: 0.175
- R-Value Work: 0.129
- R-Value Observed: 0.131
- Space Group: P 1 21 1
- Diffraction Data: https://doi.org/10.18430/M37S6O
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 23.804 | α = 90 |
| b = 56.577 | β = 93.37 |
| c = 46.201 | γ = 90 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| HKL-3000 | data scaling |
| PDB_EXTRACT | data extraction |
| HKL-3000 | data reduction |
| HKL-3000 | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2021-09-22 Deposition Author(s): Osipiuk, J., Tesar, C., Lanham, B.T., Wydorski, P., Fushman, D., Joachimiak, L., Joachimiak, A.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Department of Energy (DOE, United States) | United States | DE-AC02-06CH11357 |
Revision History (Full details and data files)
- Version 1.0: 2021-09-22
Type: Initial release - Version 1.1: 2021-12-15
Changes: Author supporting evidence, Structure summary - Version 2.0: 2022-03-16
Type: Coordinate replacement
Reason: Model orientation/position
Changes: Advisory, Atomic model, Author supporting evidence, Data collection, Database references, Derived calculations, Non-polymer description, Polymer sequence, Refinement description, Source and taxonomy, Structure summary
