Research workbench
Tir-dsdna complex, the initial binding state
Analyse Tir-dsdna complex, the initial binding state in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7X5K
- Type
- protein + DNA
- Length
- 2,892 residues
- Chains
- 20
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (43-mer); Flax rust resistance protein
- UniProt
- Q9XEH4
- Pockets
- 20 · best druggability 0.83
Structure
electron microscopy · 3 distinct chains · 41% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, Q | DNA (43-mer) | dna | 43 | — | — |
| E, S | DNA (43-mer) | dna | 43 | — | — |
| C, A, I, D, M, F, J, P, N, G, K, R, O, H, L, T | Flax rust resistance protein | protein | 170 | 41% helix, 7% strand | Q9XEH4 |
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 | 1140 | 0.83 | 0.84 | 95 | empty |
| 2 | 603 | 0.76 | 0.83 | 55 | empty |
| 3 | 460 | 0.75 | 0.84 | 49 | empty |
| 4 | 245 | 0.74 | 0.88 | 27 | empty |
| 5 | 269 | 0.74 | 0.87 | 33 | empty |
Interfaces
47 interfaces between chains.
- Q–S · 1853 Ų buried · 79 hydrogen bonds · nucleic-nucleic
- B–E · 1691 Ų buried · 54 hydrogen bonds · nucleic-nucleic
- A–J · 1022 Ų buried · 11 hydrogen bonds · protein-protein
- C–D · 1014 Ų buried · 12 hydrogen bonds · protein-protein
- O–T · 1012 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 7X5K · Tir-dsDNA complex, the initial binding state · the same entry in another collection · chain B against B, 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 Q9XEH4
- Elsewhere: RCSB PDB 7X5K · PDBe 7X5K · UniProt Q9XEH4
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