Research workbench
Reconstitution and structure of a plant nlr resistosome conferring immunity
Analyse Reconstitution and structure of a plant nlr resistosome conferring immunity in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6J5T
- Type
- protein
- Length
- 6,650 residues
- Chains
- 15
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Probable SERINE/THREONINE-protein kinase PBL2; Protein kinase superfamily protein…
- EC
- 2.7.11.1
- UniProt
- O49839, Q9SVY5, Q38834
- Ligands
- DTP
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 3 distinct chains · 38% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| I, A, D, J, M | Probable SERINE/THREONINE-protein kinase PBL2 (EC 2.7.11.1) | protein | 195 | 33% helix, 3% strand | O49839 |
| H, B, E, K, N | Protein kinase superfamily protein | protein | 327 | 39% helix, 14% strand | Q9SVY5 |
| G, C, F, L, O | Disease resistance RPP13-like protein 4 | protein | 808 | 39% helix, 12% strand | Q38834 |
Ligands and binding sites
- DTP · 2'-deoxyadenosine 5'-triphosphate · ligand · 5 copies · chains G, C, F, L, O
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 998 | 0.84 | 0.85 | 123 | empty |
| 2 | 939 | 0.84 | 0.85 | 106 | empty |
| 3 | 651 | 0.83 | 0.88 | 89 | empty |
| 4 | 1062 | 0.83 | 0.84 | 97 | DTP |
| 5 | 586 | 0.82 | 0.88 | 91 | empty |
Interfaces
15 interfaces between chains.
- L–O · 2413 Ų buried · 22 hydrogen bonds · protein-protein
- F–L · 2411 Ų buried · 22 hydrogen bonds · protein-protein
- C–F · 2410 Ų buried · 23 hydrogen bonds · protein-protein
- G–C · 2408 Ų buried · 22 hydrogen bonds · protein-protein
- G–O · 2397 Ų buried · 22 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 modified (nonstandard).
Compared structures
- 6J5T · Reconstitution and structure of a plant NLR resistosome conferring immunity · the same entry in another collection · chain E against E, 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 O49839
- Every structure of UniProt Q9SVY5
- Every structure of UniProt Q38834
- Elsewhere: RCSB PDB 6J5T · PDBe 6J5T · UniProt O49839 · UniProt Q9SVY5 · UniProt Q38834
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.