Download MendeleyThe Histone Arginine Demethylase JMJD5
Liu, H.L., Wang, C., Dege, C., Ning, F.K., Weisz, J., Hansen, K., Zang, J.Y., Pan, C.H., Marrack, P., Kappler, J., Hagmen, J., Zhang, G.Y.To be published.
4QU1
Crystal structure of human JMJD5 jmj-c domain
- PDB DOI: https://doi.org/10.2210/pdb4QU1/pdb
- Classification: OXIDOREDUCTASE
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2014-07-10 Released: 2015-07-15
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.57 Å
- R-Value Free: 0.174
- R-Value Work: 0.149
- R-Value Observed: 0.150
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 |
| Lysine-specific demethylase 8 | 236 | Homo sapiens | Mutation(s): 0 Gene Names: KDM8, JMJD5 EC: 1.14.11.27 (PDB Primary Data), 3.4 (UniProt), 1.14.11.73 (UniProt) |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q8N371 (Homo sapiens) Explore Q8N371 Go to UniProtKB: Q8N371 | |||||
PHAROS: Q8N371 GTEx: ENSG00000155666 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q8N371 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| AKG Query on AKG | C [auth A] | 2-OXOGLUTARIC ACID C5 H6 O5 KPGXRSRHYNQIFN-UHFFFAOYSA-N |  | ||
| GOL Query on GOL | D [auth A] | GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N |  | ||
| NI Query on NI | B [auth A] | NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.57 Å
- R-Value Free: 0.174
- R-Value Work: 0.149
- R-Value Observed: 0.150
- Space Group: P 21 21 21
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 49.627 | α = 90 |
| b = 65.03 | β = 90 |
| c = 77.782 | γ = 90 |
| Software Name | Purpose |
|---|---|
| ADSC | data collection |
| AMoRE | phasing |
| PHENIX | refinement |
| HKL-3000 | data reduction |
| HKL-3000 | data scaling |
Entry History
Deposition Data
- Released Date: 2015-07-15 Deposition Author(s): Liu, H.L., Wang, C., Zhang, G.Y.
Revision History (Full details and data files)
- Version 1.0: 2015-07-15
Type: Initial release - Version 1.1: 2024-02-28
Changes: Data collection, Database references, Derived calculations
