Research workbench
Crystal structure of protease domain of DEG2 linked with the PDZ domain of DEG9
Analyse Crystal structure of protease domain of DEG2 linked with the PDZ domain of DEG9 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5ILB
- Type
- protein
- Length
- 929 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protease do-like 2, CHLOROPLASTIC,PROTEASE do-like 9
- EC
- 3.4.21.-
- UniProt
- O82261, Q9FL12
- Pockets
- 10 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 17% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protease do-like 2, CHLOROPLASTIC,PROTEASE do-like 9 (EC 3.4.21.-) | protein | 466 | 18% helix, 36% strand | O82261, Q9FL12 |
| B | Protease do-like 2, CHLOROPLASTIC,PROTEASE do-like 9 (EC 3.4.21.-) | protein | 463 | 17% helix, 37% strand | O82261, Q9FL12 |
Pockets
10 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 977 | 0.73 | 0.77 | 107 | empty |
| 2 | 754 | 0.72 | 0.78 | 80 | empty |
| 3 | 201 | 0.49 | 0.76 | 33 | empty |
| 4 | 121 | 0.43 | 0.76 | 20 | empty |
| 5 | 98 | 0.41 | 0.77 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 1478 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 5ILB · Crystal structure of protease domain of Deg2 linked with the PDZ domain of Deg9 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9FL12 · AlphaFold monomer V2.0 prediction for protease do-like 9 (Q9FL12) · a predicted model of the same protein · chain B against A, TM-score 0.98
- O82261 · AlphaFold monomer V2.0 prediction for protease do-like 2, chloroplastic (O82261) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 O82261
- Every structure of UniProt Q9FL12
- Elsewhere: RCSB PDB 5ILB · PDBe 5ILB · UniProt O82261 · UniProt Q9FL12
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.