Research workbench
The tam domain of BAZ2A in complex with a 12MER mcg DNA
Analyse The tam domain of BAZ2A in complex with a 12MER mcg DNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7MWL
- Type
- protein + DNA
- Length
- 237 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bromodomain adjacent to zinc finger domain protein 2A; DNA…
- UniProt
- Q9UIF9
- Pockets
- 4 · best druggability 0.66
Structure
x-ray diffraction · 3 distinct chains · 26% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bromodomain adjacent to zinc finger domain protein 2A | protein | 108 | 26% helix, 30% strand | Q9UIF9 |
| B | Bromodomain adjacent to zinc finger domain protein 2A | protein | 105 | 27% helix, 30% strand | Q9UIF9 |
| E, F | DNA (5'-D(*GP*CP*CP*AP*AP*(5CM)P*GP*TP*TP*GP*GP*C)-3') | dna | 12 | — | — |
Ligands and binding sites
- GOL · Glycerol · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 622 | 0.66 | 0.76 | 47 | GOL |
| 2 | 153 | 0.58 | 0.82 | 22 | empty |
| 3 | 150 | 0.57 | 0.82 | 20 | empty |
| 4 | 57 | 0.32 | 0.76 | 16 | empty |
Interfaces
6 interfaces between chains.
- A–B · 834 Ų buried · 12 hydrogen bonds · protein-protein
- E–F · 536 Ų buried · 47 hydrogen bonds · nucleic-nucleic
- B–E · 154 Ų buried · 0 hydrogen bonds · protein-nucleic
- A–F · 58 Ų buried · 0 hydrogen bonds · protein-nucleic
- B–F · 27 Ų buried · 0 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 2 modified (nucleotide modification).
Compared structures
- 7MWL · The TAM domain of BAZ2A in complex with a 12mer mCG DNA · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UIF9 · AlphaFold monomer V2.0 prediction for bromodomain adjacent to zinc finger domain protein… · a predicted model of the same protein · chain B against A, TM-score 0.93
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 Q9UIF9
- Elsewhere: RCSB PDB 7MWL · PDBe 7MWL · UniProt Q9UIF9
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