Research workbench
Crystal structure of TRIM24 phd-bromo complexed with H3(23-31)K27AC peptide
Analyse Crystal structure of TRIM24 phd-bromo complexed with H3(23-31)K27AC peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3O35
- Type
- protein
- Length
- 361 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcription intermediary factor 1-alpha; Histone H3.1
- UniProt
- O15164, P68431
- Ligands
- ALY, ZN
- Pockets
- 4 · best druggability 0.58
Structure
x-ray diffraction · 3 distinct chains · 42% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcription intermediary factor 1-alpha | protein | 178 | 42% helix, 2% strand | O15164 |
| B | Transcription intermediary factor 1-alpha | protein | 178 | 43% helix, 2% strand | O15164 |
| E | Histone H3.1 | protein | 5 | 0% helix, 0% strand | P68431 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 316 | 0.58 | 0.77 | 39 | empty |
| 2 | 138 | 0.44 | 0.76 | 21 | empty |
| 3 | 53 | 0.42 | 0.82 | 16 | ALY |
| 4 | 103 | 0.37 | 0.75 | 21 | empty |
Interfaces
3 interfaces between chains.
- A–B · 497 Ų buried · 6 hydrogen bonds · protein-protein
- A–E · 300 Ų buried · 1 hydrogen bond · protein-protein
- B–E · 19 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (acetylation).
Compared structures
- 3O35 · Crystal structure of TRIM24 PHD-Bromo complexed with H3(23-31)K27ac peptide · the same entry in another collection · chain A against A, TM-score 1.00
- O15164 · AlphaFold monomer V2.0 prediction for transcription intermediary factor 1-alpha (O15164) · a predicted model of the same protein · chain B against A, TM-score 0.97
- P68431 · AlphaFold monomer V2.0 prediction for histone H3.1 (P68431) · a predicted model of the same protein · chain E against A, TM-score 0.75
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt O15164
- Every structure of UniProt P68431
- Elsewhere: RCSB PDB 3O35 · PDBe 3O35 · UniProt O15164 · UniProt P68431
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