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Download EndnoteCrystal structure of a human ubiquitin E1-ubiquitin complex reveals conserved functional elements essential for activity.
Lv, Z., Williams, K.M., Yuan, L., Atkison, J.H., Olsen, S.K.(2018) J. Biol. Chem. 293: 18337-18352
- PubMed: 30279270
6DC6
Crystal structure of human ubiquitin activating enzyme E1 (Uba1) in complex with ubiquitin
- DOI: 10.2210/pdb6DC6/pdb
- Classification: SIGNALING PROTEIN/LIGASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): 1
- Deposited: 2018-05-04 Released: 2018-10-10
- Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 3.14 Å
- R-Value Free: 0.250
- R-Value Work: 0.212
wwPDB Validation 3D Report Full Report
This is version 1.2 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by: Sequence | Structure
Entity ID: 1 | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details |
| Ubiquitin-like modifier-activating enzyme 1 | A, C | 1015 | Homo sapiens | Mutation(s): 1 Gene Names: UBA1 (A1S9T, UBE1) EC: 6.2.1.45 |
Find proteins for P22314 (Homo sapiens) Go to Gene View: UBA1 Go to UniProtKB: P22314 | ||||
Entity ID: 2 | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details |
| Ubiquitin | B, D | 80 | Homo sapiens | Mutation(s): 0 Gene Names: RPS27A (UBA80, UBCEP1) |
Find proteins for P62979 (Homo sapiens) Go to Gene View: RPS27A Go to UniProtKB: P62979 | ||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| POP Query on POP | A, C | PYROPHOSPHATE 2- H2 O7 P2 XPPKVPWEQAFLFU-UHFFFAOYSA-L |  | Ligand Interaction | |
| MG Query on MG | A, C | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | Ligand Interaction | |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 3.14 Å
- R-Value Free: 0.250
- R-Value Work: 0.212
- Space Group: P 1 21 1
Unit Cell:
| Length (Å) | Angle (°) |
|---|---|
| a = 104.999 | α = 90.00 |
| b = 70.438 | β = 95.19 |
| c = 188.851 | γ = 90.00 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| HKL-2000 | data reduction |
| PHASER | phasing |
| PDB_EXTRACT | data extraction |
| HKL-2000 | data scaling |
Entry History & Funding Information
Deposition Data
- Deposited Date: 2018-05-04
- Released Date: 2018-10-10
- Deposition Author(s): Lv, Z., Yuan, L., Williams, K.M., Atkison, J.H., Olsen, S.K.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute of General Medical Sciences | United States | R01GM115568 |
Revision History
- Version 1.0: 2018-10-10
Type: Initial release - Version 1.1: 2018-10-17
Type: Data collection, Database references, Structure summary - Version 1.2: 2018-12-05
Type: Data collection, Database references
