6R1U
Structure of LSD2/NPAC-linker/nucleosome core particle complex: Class 2
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A, E (A, E) | Histone H3.2 | polymer | 135 | 15303.9 | 2 | UniProt (P84233) Pfam (PF00125) | Xenopus laevis (African clawed frog) | |
| 2 | B, F (B, F) | Histone H4 | polymer | 102 | 11263.2 | 2 | UniProt (P62799) Pfam (PF15511) | Xenopus laevis (African clawed frog) | |
| 3 | C, G (C, G) | Histone H2A | polymer | 129 | 13978.2 | 2 | UniProt (Q6AZJ8) Pfam (PF00125) Pfam (PF16211) UniProt (by SIFTS) (P06897) | Xenopus laevis (African clawed frog) | |
| 4 | D, H (D, H) | Histone H2B 1.1 | polymer | 122 | 13524.8 | 2 | UniProt (P02281) Pfam (PF00125) | Xenopus laevis (African clawed frog) | H2B1.1 |
| 5 | I (I) | DNA (147-MER) | polymer | 147 | 45610.0 | 1 | synthetic construct | ||
| 6 | J (J) | DNA (147-MER) | polymer | 147 | 45138.8 | 1 | synthetic construct | ||
| 7 | K (K) | Lysine-specific histone demethylase 1B | polymer | 776 | 87051.5 | 1 | UniProt (Q8NB78) Pfam (PF07496) Pfam (PF04433) Pfam (PF01593) | Homo sapiens (Human) | Flavin-containing amine oxidase domain-containing protein 1,Lysine-specific histone demethylase 2 |
| 8 | L (L) | Putative oxidoreductase GLYR1 | polymer | 124 | 13528.3 | 1 | UniProt (Q49A26) | Homo sapiens (Human) | 3-hydroxyisobutyrate dehydrogenase-like protein,Cytokine-like nuclear factor N-PAC,Glyoxylate reductase 1 homolog,Nuclear protein NP60,Nuclear protein of 60 kDa |
| 9 | M (M) | Histone H3 | polymer | 135 | 15305.9 | 1 | UniProt (A0A310TTQ1) Pfam (PF00125) UniProt (by SIFTS) (P84233) | Xenopus laevis (African clawed frog) | |
| 10 | N (K) | FLAVIN-ADENINE DINUCLEOTIDE | non-polymer | 785.5 | 1 | Chemie (FAD) | |||
| 11 | O, P, Q (K) | ZINC ION | non-polymer | 65.4 | 3 | Chemie (ZN) |
Sequence modifications
A, E: 1 - 135 (UniProt: P84233)
D, H: 1 - 122 (UniProt: P02281)
K: 51 - 822 (UniProt: Q8NB78)
L: 152 - 268 (UniProt: Q49A26)
M: 1 - 135 (UniProt: A0A310TTQ1)
| PDB | External Database | Details |
|---|---|---|
| Ala 102 | Gly 103 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Thr 29 | Ser 33 | conflict |
| PDB | External Database | Details |
|---|---|---|
| Pro 47 | - | expression tag |
| Leu 48 | - | expression tag |
| Gly 49 | - | expression tag |
| Ser 50 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Pro 145 | - | expression tag |
| Leu 146 | - | expression tag |
| Gly 147 | - | expression tag |
| Ser 148 | - | expression tag |
| Pro 149 | - | expression tag |
| Glu 150 | - | expression tag |
| Phe 151 | - | expression tag |
| PDB | External Database | Details |
|---|---|---|
| Met 4 | Lys 5 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 13 |
| Total formula weight | 314774.9 | |
| Non-Polymers* | Number of molecules | 4 |
| Total formula weight | 981.8 | |
| All* | Total formula weight | 315756.7 |
