Research workbench
Crystal structure of a ced-9/EGL-1 complex
Analyse Crystal structure of a ced-9/EGL-1 complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1TY4
- Type
- protein
- Length
- 386 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Apoptosis regulator ced-9; Egg laying defective egl-1, programmed cell death activator
- UniProt
- P41958, O61667
- Pockets
- 4 · best druggability 0.68
Structure
x-ray diffraction · 4 distinct chains · 72% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Apoptosis regulator ced-9 | protein | 164 | 70% helix, 0% strand | P41958 |
| B | Apoptosis regulator ced-9 | protein | 166 | 71% helix, 0% strand | P41958 |
| C | Egg laying defective egl-1, programmed cell death activator | protein | 29 | 79% helix, 0% strand | O61667 |
| D | Egg laying defective egl-1, programmed cell death activator | protein | 27 | 78% helix, 0% strand | O61667 |
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 84 | 0.68 | 0.92 | 15 | empty |
| 2 | 98 | 0.66 | 0.90 | 17 | empty |
| 3 | 302 | 0.53 | 0.74 | 38 | empty |
| 4 | 103 | 0.46 | 0.80 | 23 | empty |
Interfaces
4 interfaces between chains.
- A–C · 1233 Ų buried · 12 hydrogen bonds · protein-protein
- B–D · 1203 Ų buried · 12 hydrogen bonds · protein-protein
- B–C · 240 Ų buried · 1 hydrogen bond · protein-protein
- A–B · 11 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 24 modified (engineered).
Compared structures
- 1TY4 · Crystal structure of a CED-9/EGL-1 complex · the same entry in another collection · chain D against D, TM-score 1.00
- P41958 · AlphaFold monomer V2.0 prediction for apoptosis regulator ced-9 (P41958) · a predicted model of the same protein · chain B against A, TM-score 0.92
- O61667 · AlphaFold monomer V2.0 prediction for programmed cell death activator egl-1 (O61667) · a predicted model of the same protein · chain D against A, TM-score 0.79
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 P41958
- Every structure of UniProt O61667
- Elsewhere: RCSB PDB 1TY4 · PDBe 1TY4 · UniProt P41958 · UniProt O61667
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