Download MendeleyStructural insights into the activity and regulation of human Josephin-2
Grasty, K.C., Weeks, S.D., Loll, P.J.(2019) J Struct Biol 3: 100011
6PGV
Human Josephin-2 in complex with ubiquitin
- PDB DOI: 10.2210/pdb6PGV/pdb
- Classification: HYDROLASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2019-06-24 Released: 2019-10-23
- Funding Organization(s): National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.224
- R-Value Work: 0.201
wwPDB Validation 3D Report Full Report
This is version 1.1 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Josephin-2 | A | 188 | Homo sapiens | Mutation(s): 0 Gene Names: JOSD2, SBBI54 EC: 3.4.19.12 |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q8TAC2 (Homo sapiens) Explore Q8TAC2 Go to UniProtKB: Q8TAC2 | |||||
PHAROS: Q8TAC2 GTEx: ENSG00000161677 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q8TAC2 | ||||
Protein Feature ViewExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Polyubiquitin-B | B | 75 | 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 | |||||
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Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| NEH Query on NEH | C [auth B] | ETHANAMINE C2 H7 N QUSNBJAOOMFDIB-UHFFFAOYSA-N |  | Ligand Interaction | |
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| MSE Query on MSE | A | L-PEPTIDE LINKING | C5 H11 N O2 Se |  | MET |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.30 Å
- R-Value Free: 0.224
- R-Value Work: 0.201
- Space Group: P 61 2 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 102.12 | α = 90 |
| b = 102.12 | β = 90 |
| c = 92.2 | γ = 120 |
| Software Name | Purpose |
|---|---|
| PHENIX | refinement |
| XDS | data reduction |
| XSCALE | data scaling |
| PHENIX | phasing |
Entry History & Funding Information
Deposition Data
- Deposited Date: 2019-06-24
- Released Date: 2019-10-23 Deposition Author(s): Grasty, K.C., Weeks, S.D., Loll, P.J.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS) | United States | R01NS065140 |
Revision History (Full details and data files)
- Version 1.0: 2019-10-23
Type: Initial release - Version 1.1: 2019-12-18
Changes: Author supporting evidence
