Research workbench
Crystal structure of the P300 TAZ2 domain bound to MEF2 on DNA
Analyse Crystal structure of the P300 TAZ2 domain bound to MEF2 on DNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3P57
- Type
- protein + DNA
- Length
- 733 residues
- Chains
- 13
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Myocyte-specific enhancer factor 2A; DNA (5'-D(*A*AP*AP*CP*TP*AP*TP*TP*TP*AP*TP*AP*AP*GP*A…
- EC
- 2.3.1.48
- UniProt
- Q02078, Q09472
- Ligands
- ZN
- Pockets
- 19 · best druggability 0.63
Structure
x-ray diffraction · 6 distinct chains · 59% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, I, J | Myocyte-specific enhancer factor 2A | protein | 90 | 51% helix, 16% strand | Q02078 |
| E | DNA (5'-D(*A*AP*AP*CP*TP*AP*TP*TP*TP*AP*TP*AP*AP*GP*A)-3') | dna | 14 | — | — |
| F, L | DNA (5'-D(*TP*TP*CP*TP*TP*AP*TP*AP*AP*AP*TP*AP*GP*TP*T)- 3') | dna | 15 | — | — |
| G, K | DNA (5'-D(*A*AP*AP*CP*TP*AP*TP*TP*TP*AP*TP*AP*AP*GP*A)-3') | dna | 15 | — | — |
| H | DNA (5'-D(*TP*TP*CP*TP*TP*AP*TP*AP*AP*AP*TP*AP*GP*TP*T)- 3') | dna | 14 | — | — |
| P | Histone acetyltransferase P300 (EC 2.3.1.48) | protein | 105 | 67% helix, 0% strand | Q09472 |
Ligands and binding sites
- ZN · Zinc ion · metal · 3 copies · chains P
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
19 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 396 | 0.63 | 0.78 | 40 | empty |
| 2 | 342 | 0.63 | 0.79 | 27 | empty |
| 3 | 450 | 0.61 | 0.76 | 48 | empty |
| 4 | 380 | 0.59 | 0.76 | 42 | empty |
| 5 | 285 | 0.56 | 0.77 | 20 | empty |
Interfaces
24 interfaces between chains.
- A–B · 3093 Ų buried · 35 hydrogen bonds · protein-protein
- I–J · 3053 Ų buried · 38 hydrogen bonds · protein-protein
- C–D · 3051 Ų buried · 37 hydrogen bonds · protein-protein
- G–H · 624 Ų buried · 46 hydrogen bonds · nucleic-nucleic
- E–F · 622 Ų buried · 54 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 3P57 · Crystal structure of the p300 TAZ2 domain bound to MEF2 on DNA · the same entry in another collection · chain P against P, TM-score 1.00
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 Q02078
- Every structure of UniProt Q09472
- Elsewhere: RCSB PDB 3P57 · PDBe 3P57 · UniProt Q02078 · UniProt Q09472
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