MolNFT v1 · #149915 · protein
X-ray structure of TEAD4(E263A+Y429F mutant) complexed with YAP(WILDTYPE): the role of residual flexibility and water molecules in the adaptation of a bound intrinsically disordered protein to mutations at a binding interface
6GE6 · Transcriptional enhancer factor tef-3: “X-ray structure of TEAD4(E263A+Y429F mutant) complexed with YAP(WILDTYPE): the role of residual flexibility…”. X-ray diffraction, 2 ligands (MYR, PO4), 5 pockets (best druggability 0.83).…
- PDB
- 6GE6
- Type
- protein
- Length
- 254 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transcriptional enhancer factor tef-3; Transcriptional coactivator YAP1
- UniProt
- Q15561, P46937
- Ligands
- MYR, PO4
- Pockets
- 5 · best druggability 0.83
Structure
x-ray diffraction · 2 distinct chains · 21% helix, 44% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transcriptional enhancer factor tef-3 | protein | 214 | 16% helix, 52% strand | Q15561 |
| L | Transcriptional coactivator YAP1 | protein | 40 | 45% helix, 0% strand | P46937 |
Ligands and binding sites
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 | 202 | 0.83 | 0.96 | 36 | MYR |
| 2 | 51 | 0.40 | 0.82 | 13 | empty |
| 3 | 78 | 0.32 | 0.74 | 17 | empty |
| 4 | 65 | 0.32 | 0.76 | 15 | PO4 |
| 5 | 61 | 0.26 | 0.73 | 15 | empty |
Interfaces
1 interface between chains.
- A–L · 1313 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 lipid (myristoylation).
Compared structures
- 6GE6 · X-ray structure of TEAD4(E263A+Y429F mutant) complexed with YAP(wildtype): The role of… · the same entry in another collection · chain A against A, TM-score 1.00
- Q15561 · AlphaFold monomer V2.0 prediction for transcriptional enhancer factor tef-3 (Q15561) · a predicted model of the same protein · chain A against A, TM-score 0.95
- P46937 · AlphaFold monomer V2.0 prediction for transcriptional coactivator YAP1 (P46937) · a predicted model of the same protein · chain L against A, TM-score 0.43
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 Q15561
- Every structure of UniProt P46937
- Elsewhere: RCSB PDB 6GE6 · PDBe 6GE6 · UniProt Q15561 · UniProt P46937
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