Download MendeleyDiscovery of new non-covalent ubiquitin binding sites on UbcH5
Middleton, A.J., Wright, J.D., Day, C.L.To be published.
5ULF
Crystal Structure of a UbcH5b~Ub conjugate
- PDB DOI: 10.2210/pdb5ULF/pdb
- Classification: TRANSFERASE/SIGNALING PROTEIN
- Organism(s): Homo sapiens
- Expression System: Escherichia coli BL21
- Mutation(s): Yes
- Deposited: 2017-01-24 Released: 2017-06-07
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.261
- R-Value Work: 0.227
- R-Value Observed: 0.229
wwPDB Validation 3D Report Full Report
This is version 1.1 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-conjugating enzyme E2 D2 | A, C | 152 | Homo sapiens | Mutation(s): 5 Gene Names: UBE2D2, PUBC1, UBC4, UBC5B, UBCH4, UBCH5B EC: 2.3.2.23 (PDB Primary Data), 2.3.2.24 (PDB Primary Data) |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P62837 (Homo sapiens) Explore P62837 Go to UniProtKB: P62837 | |||||
PHAROS: P62837 GTEx: ENSG00000131508 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P62837 | ||||
Protein Feature ViewExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Ubiquitin | B, D | 76 | 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 | |
| GOL Query on GOL | E [auth A], F [auth A], G [auth C], H [auth C], I [auth C] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.80 Å
- R-Value Free: 0.261
- R-Value Work: 0.227
- R-Value Observed: 0.229
- Space Group: P 1
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 29.336 | α = 102.84 |
| b = 61.356 | β = 91.66 |
| c = 62.824 | γ = 90.02 |
| Software Name | Purpose |
|---|---|
| REFMAC | refinement |
| Aimless | data scaling |
| PHASER | phasing |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| PHASER | phasing |
Entry History
Deposition Data
- Deposited Date: 2017-01-24
- Released Date: 2017-06-07 Deposition Author(s): Middleton, A.J., Day, C.L., Wright, J.D.
Revision History (Full details and data files)
- Version 1.0: 2017-06-07
Type: Initial release - Version 1.1: 2017-09-27
Changes: Author supporting evidence
