MolNFT v1 · #92437 · protein + DNA
Crystal structure of P73 DNA-binding domain tetramer bound to a full response-element
4G82 · Tumor protein P73: “Crystal structure of P73 DNA-binding domain tetramer bound to a full response-element”. X-ray diffraction, 1 ligand (ZN), 5 pockets (best druggability 0.74). MolNFT v1 #92437 on GenesisL1: 3D structure, binding…
- PDB
- 4G82
- Type
- protein + DNA
- Length
- 421 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tumor protein P73; DNA (5'-D(P*GP*AP*AP*CP*AP*TP*GP*TP*TP*C)-3')
- UniProt
- O15350
- Ligands
- ZN
- Pockets
- 5 · best druggability 0.74
Structure
x-ray diffraction · 3 distinct chains · 10% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Tumor protein P73 | protein | 201 | 11% helix, 35% strand | O15350 |
| B | Tumor protein P73 | protein | 200 | 9% helix, 32% strand | O15350 |
| E, F | DNA (5'-D(P*GP*AP*AP*CP*AP*TP*GP*TP*TP*C)-3') | dna | 10 | — | — |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 734 | 0.74 | 0.80 | 75 | empty |
| 2 | 120 | 0.47 | 0.79 | 18 | empty |
| 3 | 109 | 0.42 | 0.77 | 18 | empty |
| 4 | 75 | 0.36 | 0.77 | 14 | empty |
| 5 | 62 | 0.29 | 0.75 | 14 | empty |
Interfaces
6 interfaces between chains.
- E–F · 455 Ų buried · 42 hydrogen bonds · nucleic-nucleic
- B–E · 326 Ų buried · 8 hydrogen bonds · protein-nucleic
- A–F · 296 Ų buried · 5 hydrogen bonds · protein-nucleic
- A–B · 239 Ų buried · 3 hydrogen bonds · protein-protein
- B–F · 180 Ų buried · 0 hydrogen bonds · protein-nucleic
Compared structures
- 4G82 · Crystal Structure of p73 DNA-Binding Domain Tetramer bound to a Full Response-Element · the same entry in another collection · chain A against A, 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 O15350
- Elsewhere: RCSB PDB 4G82 · PDBe 4G82 · UniProt O15350
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