Research workbench
Ancestral caspase 6
Analyse Ancestral caspase 6 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6PPM
- Type
- protein
- Length
- 974 residues
- Chains
- 12
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ancestral caspase-6 large subunit; Ancestral caspase-6 small subunit; Val-glu-ile-asp…
- EC
- 3.4.22.59
- Pockets
- 9 · best druggability 0.77
Structure
x-ray diffraction · 8 distinct chains · 27% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, G | Ancestral caspase-6 large subunit (EC 3.4.22.59) | protein | 151 | 23% helix, 26% strand | — |
| B, H | Ancestral caspase-6 small subunit (EC 3.4.22.59) | protein | 94 | 31% helix, 20% strand | — |
| E, I, L | Val-glu-ile-asp inhibitor | protein | 4 | 0% helix, 50% strand | — |
| C | Ancestral caspase-6 large subunit (EC 3.4.22.59) | protein | 145 | 26% helix, 26% strand | — |
| D | Ancestral caspase-6 small subunit (EC 3.4.22.59) | protein | 94 | 29% helix, 17% strand | — |
| J | Ancestral caspase-6 large subunit (EC 3.4.22.59) | protein | 144 | 27% helix, 24% strand | — |
| K | Ancestral caspase-6 small subunit (EC 3.4.22.59) | protein | 88 | 30% helix, 19% strand | — |
| F | Val-glu-ile-asp inhibitor | protein | 1 | 0% helix, 0% strand | — |
Pockets
9 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 625 | 0.77 | 0.83 | 57 | empty |
| 2 | 73 | 0.68 | 0.94 | 31 | empty |
| 3 | 56 | 0.44 | 0.84 | 17 | empty |
| 4 | 132 | 0.38 | 0.74 | 21 | empty |
| 5 | 53 | 0.37 | 0.80 | 15 | empty |
Interfaces
20 interfaces between chains.
- G–H · 2322 Ų buried · 39 hydrogen bonds · protein-protein
- A–B · 2293 Ų buried · 36 hydrogen bonds · protein-protein
- C–D · 2242 Ų buried · 29 hydrogen bonds · protein-protein
- J–K · 2231 Ų buried · 35 hydrogen bonds · protein-protein
- B–D · 1173 Ų buried · 16 hydrogen bonds · protein-protein
Compared structures
- 6PPM · Ancestral Caspase 6 · 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
- Elsewhere: RCSB PDB 6PPM · PDBe 6PPM
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