MolNFT v1 · #122312 · protein
Crystal structure of protease domain of DEG2 linked with the PDZ domain of DEG9
5ILB · Protease do-like 2, CHLOROPLASTIC,PROTEASE do-like 9: “Crystal structure of protease domain of DEG2 linked with the PDZ domain of DEG9”. X-ray diffraction, 10 pockets (best druggability 0.73). MolNFT v1 #122312 on GenesisL1: 3D…
- 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
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