4D6S
crystal structure of human JMJD2D in complex with N-OXALYLGLYCINE and bound 5,6-Dimethylbenzimidazole
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | LYSINE-SPECIFIC DEMETHYLASE 4D | polymer | 343 | 39578.9 | 1 | UniProt (Q6B0I6) Pfam (PF02375) Pfam (PF02373) | HOMO SAPIENS (HUMAN) | JMJC DOMAIN-CONTAINING HISTONE DEMETHYLATION PROTEIN 3D, JUMONJI DOMAIN-CONTAINING PROTEIN 2D, JMJD2D |
| 2 | B (A) | ZINC ION | non-polymer | 65.4 | 1 | Chemie (ZN) | |||
| 3 | C (A) | NICKEL (II) ION | non-polymer | 58.7 | 1 | Chemie (NI) | |||
| 4 | D (A) | 5,6-DIMETHYLBENZIMIDAZOLE | non-polymer | 146.2 | 1 | Chemie (DMD) | |||
| 5 | E (A) | N-OXALYLGLYCINE | non-polymer | 147.1 | 1 | Chemie (OGA) | |||
| 6 | F, G, H, I, J... (A) | 1,2-ETHANEDIOL | non-polymer | 62.1 | 10 | Chemie (EDO) | |||
| 7 | P (A) | DIMETHYL SULFOXIDE | non-polymer | 78.1 | 1 | Chemie (DMS) | |||
| 8 | Q (A) | SULFATE ION | non-polymer | 96.1 | 1 | Chemie (SO4) | |||
| 9 | R (A) | water | water | 18.0 | 390 | Chemie (HOH) |
Sequence modifications
A: 1 - 342 (UniProt: Q6B0I6)
| PDB | External Database | Details |
|---|---|---|
| Ser 0 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 1 |
| Total formula weight | 39578.9 | |
| Non-Polymers* | Number of molecules | 16 |
| Total formula weight | 1212.3 | |
| All* | Total formula weight | 40791.1 |
