Research workbench
Structural basis of cytosolic DNA recognition by innate immune receptors
Analyse Structural basis of cytosolic DNA recognition by innate immune receptors in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3RN2
- Type
- protein + DNA
- Length
- 427 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Interferon-inducible protein AIM2; DNA (5'- D(*CP*CP*AP*TP*CP*AP*AP*AP*GP*AP*TP*CP*TP*TP*T…
- UniProt
- O14862
- Pockets
- 6 · best druggability 0.77
Structure
x-ray diffraction · 3 distinct chains · 9% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Interferon-inducible protein AIM2 | protein | 194 | 9% helix, 50% strand | O14862 |
| B | Interferon-inducible protein AIM2 | protein | 193 | 9% helix, 47% strand | O14862 |
| K, L | DNA (5'- D(*CP*CP*AP*TP*CP*AP*AP*AP*GP*AP*TP*CP*TP*TP*TP*GP*AP*TP*GP*G)-3') | dna | 20 | — | — |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 6 copies · chains A, B, K, L
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 686 | 0.77 | 0.82 | 57 | empty |
| 2 | 509 | 0.77 | 0.84 | 59 | EDO |
| 3 | 161 | 0.45 | 0.75 | 23 | empty |
| 4 | 55 | 0.38 | 0.80 | 13 | empty |
| 5 | 124 | 0.38 | 0.74 | 24 | empty |
Interfaces
5 interfaces between chains.
- K–L · 885 Ų buried · 97 hydrogen bonds · nucleic-nucleic
- B–L · 337 Ų buried · 10 hydrogen bonds · protein-nucleic
- A–K · 289 Ų buried · 7 hydrogen bonds · protein-nucleic
- A–L · 272 Ų buried · 9 hydrogen bonds · protein-nucleic
- B–K · 210 Ų buried · 4 hydrogen bonds · protein-nucleic
Compared structures
- 3RN2 · Structural Basis of Cytosolic DNA Recognition by Innate Immune Receptors · the same entry in another collection · chain A against A, TM-score 1.00
- O14862 · AlphaFold monomer V2.0 prediction for interferon-inducible protein AIM2 (O14862) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 O14862
- Elsewhere: RCSB PDB 3RN2 · PDBe 3RN2 · UniProt O14862
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