Research workbench
14-3-3 sigma with RELA/P65 binding site PS45 and covalently bound TCF521-192
Analyse 14-3-3 sigma with RELA/P65 binding site PS45 and covalently bound TCF521-192 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7O59
- Type
- protein
- Length
- 236 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 14-3-3 protein sigma; Transcription factor P65
- UniProt
- P31947, Q04206
- Ligands
- V2N, V2K, CL
- Pockets
- 1 · best druggability 0.54
Structure
x-ray diffraction · 2 distinct chains · 81% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 14-3-3 protein sigma | protein | 227 | 84% helix, 0% strand | P31947 |
| P | Transcription factor P65 | protein | 9 | 0% helix, 0% strand | Q04206 |
Ligands and binding sites
- V2N · 4-(6-methoxy-2-methyl-benzimidazol-1-yl)benzaldehyde · ligand · chains A, P
- V2K · 4-(5-methoxy-2-methyl-benzimidazol-1-yl)benzaldehyde · ligand · chains A, P
- CL · Chloride ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 183 | 0.54 | 0.79 | 27 | V2N, V2K |
Interfaces
1 interface between chains.
- A–P · 650 Ų buried · 16 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 covalent, 2 modified (covalent ligand, oxidation, phosphorylation).
Compared structures
- 7O59 · 14-3-3 sigma with RelA/p65 binding site pS45 and covalently bound TCF521-192 · the same entry in another collection · chain A against A, TM-score 1.00
- P31947 · AlphaFold monomer V2.0 prediction for 14-3-3 protein sigma (P31947) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 P31947
- Every structure of UniProt Q04206
- Elsewhere: RCSB PDB 7O59 · PDBe 7O59 · UniProt P31947 · UniProt Q04206
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