Research workbench
Transactivation domain of P53 in complex with S100P, using annexin A2 as crystallization chaperone
Analyse Transactivation domain of P53 in complex with S100P, using annexin A2 as… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7NMI
- Type
- protein
- Length
- 520 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cellular tumor antigen P53; S100P-ANXA2 chimera
- UniProt
- P04637, P25815, P07355
- Ligands
- CA
- Pockets
- 10 · best druggability 0.58
Structure
x-ray diffraction · 2 distinct chains · 70% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cellular tumor antigen P53 | protein | 32 | 56% helix, 0% strand | P04637 |
| B | S100P-ANXA2 chimera | protein | 488 | 70% helix, 3% strand | P25815, P07355 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 259 | 0.58 | 0.78 | 41 | empty |
| 2 | 184 | 0.52 | 0.77 | 18 | empty |
| 3 | 89 | 0.49 | 0.82 | 21 | empty |
| 4 | 107 | 0.48 | 0.81 | 27 | GOL |
| 5 | 169 | 0.47 | 0.76 | 23 | empty |
Interfaces
1 interface between chains.
- A–B · 1409 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 7NMI · Transactivation domain of p53 in complex with S100P, using annexin A2 as crystallization… · the same entry in another collection · chain A against A, TM-score 1.00
- P07355 · AlphaFold monomer V2.0 prediction for annexin A2 (P07355) · a predicted model of the same protein · chain B against A, TM-score 0.63
- P25815 · AlphaFold monomer V2.0 prediction for protein S100-P (P25815) · a predicted model of the same protein · chain B against A, TM-score 0.19
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 P04637
- Every structure of UniProt P25815
- Every structure of UniProt P07355
- Elsewhere: RCSB PDB 7NMI · PDBe 7NMI · UniProt P04637 · UniProt P25815 · UniProt P07355
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