Research workbench
Structure of P73 DNA binding domain complex with 12 bp DNA
Analyse Structure of P73 DNA binding domain complex with 12 bp DNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4GUO
- Type
- protein + DNA
- Length
- 1,692 residues
- Chains
- 16
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tumor protein P73; DNA (5'-D(*CP*GP*GP*GP*CP*AP*AP*GP*CP*CP*CP*G)-3'); DNA…
- UniProt
- O15350
- Ligands
- ZN
- Pockets
- 20 · best druggability 0.84
Structure
x-ray diffraction · 8 distinct chains · 9% helix, 32% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Tumor protein P73 | protein | 201 | 10% helix, 33% strand | O15350 |
| B, D | Tumor protein P73 | protein | 198 | 10% helix, 35% strand | O15350 |
| I | Tumor protein P73 | protein | 198 | 9% helix, 33% strand | O15350 |
| J | Tumor protein P73 | protein | 199 | 11% helix, 29% strand | O15350 |
| K, L | Tumor protein P73 | protein | 201 | 7% helix, 32% strand | O15350 |
| E, M, O | DNA (5'-D(*CP*GP*GP*GP*CP*AP*AP*GP*CP*CP*CP*G)-3') | dna | 12 | — | — |
| F, H, N, P | DNA (5'-D(*CP*GP*GP*GP*CP*TP*TP*GP*CP*CP*CP*G)-3') | dna | 12 | — | — |
| G | DNA (5'-D(*CP*GP*GP*GP*CP*AP*AP*GP*CP*CP*CP*G)-3') | dna | 11 | — | — |
Ligands and binding sites
- ZN · Zinc ion · metal · 8 copies · chains A, B, C, D, I, J, K, L
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 13 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1103 | 0.84 | 0.84 | 113 | empty |
| 2 | 958 | 0.77 | 0.80 | 97 | empty |
| 3 | 456 | 0.76 | 0.85 | 38 | empty |
| 4 | 450 | 0.75 | 0.85 | 40 | empty |
| 5 | 695 | 0.75 | 0.81 | 68 | empty |
Interfaces
42 interfaces between chains.
- B–I · 805 Ų buried · 5 hydrogen bonds · protein-protein
- J–K · 631 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 593 Ų buried · 9 hydrogen bonds · protein-protein
- M–N · 566 Ų buried · 61 hydrogen bonds · nucleic-nucleic
- O–P · 564 Ų buried · 66 hydrogen bonds · nucleic-nucleic
Compared structures
- 4GUO · structure of p73 DNA binding domain complex with 12 bp DNA · 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 4GUO · PDBe 4GUO · UniProt O15350
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