2YBP: JMJD2A COMPLEXED WITH R-2-HYDROXYGLUTARATE AND HISTONE H3K36me3 PEPTIDE (30-41)

PDB ID: 2YBPDownload
MMDB ID: 89492
PDB Deposition Date: 2011/3/9
Updated in MMDB: 2023/12
Experimental Method:
x-ray diffraction
Resolution: 2.02  Å
Source Organism:
Similar Structures:
Biological Unit for 2YBP: dimeric; determined by author and by software (PISA)
Molecular Components in 2YBP
Label Count Molecule
Proteins (2 molecules)
1
Lysine-specific Demethylase 4A
(Gene symbol: KDM4A)
Molecule annotation
1
Histone H3.1t
(Gene symbol: H3-4)
Molecule annotation
Chemicals and Non-standard biopolymers (4 molecules)
1
1
NICKEL (II) IONNICKEL (II) ION
2
1
ZINC IONZINC ION
3
1
GLYCEROLGLYCEROL
4
1
(2R)-2-hydroxypentanedioic acid(2R)-2-hydroxypentanedioic acid
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303