Research workbench
Structure of ATTPC1(DDE) reconstituted in saposin a with CAT06 Fab
Analyse Structure of ATTPC1(DDE) reconstituted in saposin a with CAT06 Fab in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6E1K
- Type
- protein
- Length
- 1,450 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Two pore calcium channel protein 1; CAT06 light chain; CAT06 heavy chain
- UniProt
- Q94KI8
- Ligands
- PLM, CA
- Pockets
- 20 · best druggability 0.88
Structure
electron microscopy · 3 distinct chains · 41% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Two pore calcium channel protein 1 | protein | 536 | 55% helix, 0% strand | Q94KI8 |
| C, E | CAT06 light chain | protein | 75 | 0% helix, 40% strand | — |
| D, F | CAT06 heavy chain | protein | 114 | 0% helix, 28% strand | — |
Ligands and binding sites
- PLM · Palmitic acid · ligand · 14 copies · chains A, B
- CA · Calcium ion · metal · 7 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 16 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 701 | 0.88 | 0.91 | 54 | CA |
| 2 | 731 | 0.76 | 0.81 | 58 | empty |
| 3 | 819 | 0.75 | 0.79 | 78 | empty |
| 4 | 58 | 0.69 | 0.96 | 16 | empty |
| 5 | 476 | 0.69 | 0.79 | 43 | PLM |
Interfaces
7 interfaces between chains.
- A–B · 3219 Ų buried · 14 hydrogen bonds · protein-protein
- C–D · 1004 Ų buried · 14 hydrogen bonds · protein-protein
- E–F · 996 Ų buried · 15 hydrogen bonds · protein-protein
- B–D · 866 Ų buried · 11 hydrogen bonds · protein-protein
- A–F · 862 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified, 4 disulfide, 3 lipid (phosphorylation, disulfide, palmitoylation).
Compared structures
- 6E1K · Structure of AtTPC1(DDE) reconstituted in saposin A with cat06 Fab · the same entry in another collection · chain C against C, TM-score 1.00
- Q94KI8 · AlphaFold monomer V2.0 prediction for two pore calcium channel protein 1 (Q94KI8) · a predicted model of the same protein · chain A against A, TM-score 0.94
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 Q94KI8
- Elsewhere: RCSB PDB 6E1K · PDBe 6E1K · UniProt Q94KI8
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