Research workbench
Crystal structure of the tir domain from the arabidopsis thaliana disease resistance protein RPP1
Analyse Crystal structure of the tir domain from the arabidopsis thaliana disease… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5TEB
- Type
- protein
- Length
- 1,315 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Recognition of peronospora parasitica 1
- UniProt
- D9IW02
- Pockets
- 20 · best druggability 0.68
Structure
x-ray diffraction · 3 distinct chains · 54% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | Recognition of peronospora parasitica 1 | protein | 166 | 59% helix, 14% strand | D9IW02 |
| G | Recognition of peronospora parasitica 1 | protein | 159 | 51% helix, 13% strand | D9IW02 |
| H | Recognition of peronospora parasitica 1 | protein | 160 | 51% helix, 16% strand | D9IW02 |
Pockets
20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 282 | 0.68 | 0.83 | 26 | empty |
| 2 | 545 | 0.68 | 0.78 | 41 | empty |
| 3 | 317 | 0.67 | 0.81 | 39 | empty |
| 4 | 193 | 0.66 | 0.85 | 32 | empty |
| 5 | 429 | 0.64 | 0.78 | 39 | empty |
Interfaces
11 interfaces between chains.
- A–B · 666 Ų buried · 7 hydrogen bonds · protein-protein
- D–E · 615 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 468 Ų buried · 3 hydrogen bonds · protein-protein
- E–H · 461 Ų buried · 5 hydrogen bonds · protein-protein
- D–G · 454 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 5TEB · Crystal Structure of the TIR domain from the Arabidopsis Thaliana disease resistance… · 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
- Every structure of UniProt D9IW02
- Elsewhere: RCSB PDB 5TEB · PDBe 5TEB · UniProt D9IW02
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.