Research workbench
Structure of MEF2A bound to DNA reveals a completely folded mads- BOX/MEF2 domain that recognizes DNA and recruits transcription co- factors
Analyse Structure of MEF2A bound to DNA reveals a completely folded mads- BOX/MEF2… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3KOV
- Type
- protein + DNA
- Length
- 412 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Myocyte-specific enhancer factor 2A; DNA (5'-D(*AP*AP*CP*TP*AP*TP*TP*TP*AP*TP*AP*AP*G)-3')…
- UniProt
- Q02078
- Pockets
- 7 · best druggability 0.54
Structure
x-ray diffraction · 3 distinct chains · 49% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, I, J | Myocyte-specific enhancer factor 2A | protein | 90 | 49% helix, 18% strand | Q02078 |
| C, K | DNA (5'-D(*AP*AP*CP*TP*AP*TP*TP*TP*AP*TP*AP*AP*G)-3') | dna | 13 | — | — |
| D, L | DNA (5'-D(*TP*CP*TP*TP*AP*TP*AP*AP*AP*TP*AP*GP*T)-3') | dna | 13 | — | — |
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 100 | 0.54 | 0.84 | 22 | empty |
| 2 | 236 | 0.50 | 0.75 | 20 | empty |
| 3 | 243 | 0.47 | 0.73 | 26 | empty |
| 4 | 199 | 0.47 | 0.75 | 20 | empty |
| 5 | 92 | 0.45 | 0.80 | 19 | empty |
Interfaces
12 interfaces between chains.
- A–B · 3132 Ų buried · 37 hydrogen bonds · protein-protein
- I–J · 3115 Ų buried · 37 hydrogen bonds · protein-protein
- B–C · 563 Ų buried · 11 hydrogen bonds · protein-nucleic
- A–D · 547 Ų buried · 11 hydrogen bonds · protein-nucleic
- K–L · 547 Ų buried · 54 hydrogen bonds · nucleic-nucleic
Compared structures
- 3KOV · Structure of MEF2A bound to DNA reveals a completely folded MADS-box/MEF2 domain that… · the same entry in another collection · chain L against L, TM-score 1.00
- Q02078 · AlphaFold monomer V2.0 prediction for myocyte-specific enhancer factor 2A (Q02078) · a predicted model of the same protein · chain A against A, TM-score 0.95
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
- Elsewhere: RCSB PDB 3KOV · PDBe 3KOV · UniProt Q02078
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