MolNFT v1 · #178755 · protein
Human DPP9-CARD8 complex
7JKQ · Dipeptidyl peptidase 9: “Human DPP9-CARD8 complex”. Electron microscopy, 20 pockets (best druggability 0.84). MolNFT v1 #178755 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7JKQ
- Type
- protein
- Length
- 2,048 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dipeptidyl peptidase 9; Caspase recruitment domain-containing protein 8
- EC
- 3.4.14.5
- UniProt
- Q86TI2, Q9Y2G2
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 4 distinct chains · 15% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Dipeptidyl peptidase 9 (EC 3.4.14.5) | protein | 827 | 17% helix, 34% strand | Q86TI2 |
| B | Caspase recruitment domain-containing protein 8 | protein | 272 | 8% helix, 38% strand | Q9Y2G2 |
| C | Caspase recruitment domain-containing protein 8 | protein | 127 | 9% helix, 35% strand | Q9Y2G2 |
| D | Dipeptidyl peptidase 9 (EC 3.4.14.5) | protein | 822 | 17% helix, 33% strand | Q86TI2 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1080 | 0.84 | 0.85 | 108 | empty |
| 2 | 195 | 0.83 | 0.97 | 34 | empty |
| 3 | 419 | 0.77 | 0.86 | 42 | empty |
| 4 | 204 | 0.76 | 0.91 | 39 | empty |
| 5 | 68 | 0.69 | 0.94 | 18 | empty |
Interfaces
5 interfaces between chains.
- A–D · 2218 Ų buried · 24 hydrogen bonds · protein-protein
- A–B · 963 Ų buried · 16 hydrogen bonds · protein-protein
- B–C · 881 Ų buried · 6 hydrogen bonds · protein-protein
- A–C · 478 Ų buried · 5 hydrogen bonds · protein-protein
- C–D · 22 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 7JKQ · Human DPP9-CARD8 complex · the same entry in another collection · chain D against D, TM-score 1.00
- Q86TI2 · AlphaFold monomer V2.0 prediction for dipeptidyl peptidase 9 (Q86TI2) · a predicted model of the same protein · chain A against A, TM-score 0.99
- Q9Y2G2 · AlphaFold monomer V2.0 prediction for caspase recruitment domain- containing protein 8… · a predicted model of the same protein · chain B against A, TM-score 0.90
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 Q86TI2
- Every structure of UniProt Q9Y2G2
- Elsewhere: RCSB PDB 7JKQ · PDBe 7JKQ · UniProt Q86TI2 · UniProt Q9Y2G2
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