MolNFT v1 · #102320 · protein + DNA
Rage is a nucleic acid receptor that promotes inflammatory responses to DNA.
4OI8 · Advanced glycosylation end product-specific receptor: “Rage is a nucleic acid receptor that promotes inflammatory responses to DNA.”. X-ray diffraction, 5 pockets (best druggability 0.79). MolNFT v1 #102320 on GenesisL1: 3D…
- PDB
- 4OI8
- Type
- protein + DNA
- Length
- 472 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Advanced glycosylation end product-specific receptor…
- UniProt
- Q15109
- Pockets
- 5 · best druggability 0.79
Structure
x-ray diffraction · 4 distinct chains · 3% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Advanced glycosylation end product-specific receptor | protein | 211 | 3% helix, 49% strand | Q15109 |
| B | Advanced glycosylation end product-specific receptor | protein | 215 | 3% helix, 45% strand | Q15109 |
| E | 5'-D(*CP*CP*AP*TP*GP*AP*CP*TP*GP*TP*AP*GP*GP*AP*AP*AP*CP*TP *CP*TP*AP*GP*A)-3' | dna | 23 | — | — |
| F | 5'-D(*CP*TP*CP*TP*AP*GP*AP*GP*TP*TP*TP*CP*CP*TP*AP*CP*AP*GP *TP*CP*AP*TP*G)-3' | dna | 23 | — | — |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1053 | 0.79 | 0.81 | 83 | empty |
| 2 | 151 | 0.52 | 0.80 | 23 | empty |
| 3 | 124 | 0.47 | 0.78 | 25 | empty |
| 4 | 105 | 0.43 | 0.78 | 23 | empty |
| 5 | 74 | 0.38 | 0.77 | 18 | empty |
Interfaces
6 interfaces between chains.
- E–F · 1030 Ų buried · 118 hydrogen bonds · nucleic-nucleic
- A–B · 587 Ų buried · 4 hydrogen bonds · protein-protein
- A–E · 307 Ų buried · 7 hydrogen bonds · protein-nucleic
- A–F · 302 Ų buried · 8 hydrogen bonds · protein-nucleic
- B–E · 216 Ų buried · 5 hydrogen bonds · protein-nucleic
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 4OI8 · RAGE is a nucleic acid receptor that promotes inflammatory responses to DNA. · the same entry in another collection · chain A against A, TM-score 1.00
- Q15109 · AlphaFold monomer V2.0 prediction for advanced glycosylation end product-specific… · a predicted model of the same protein · chain A against A, TM-score 0.96
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 Q15109
- Elsewhere: RCSB PDB 4OI8 · PDBe 4OI8 · UniProt Q15109
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