MolNFT v1 · #4617 · protein
Crystal structure of nova-2 KH3 K-homology RNA-binding domain
1DTJ · RNA-binding neurooncological ventral antigen 2: “Crystal structure of nova-2 KH3 K-homology RNA-binding domain”. X-ray diffraction, 3 pockets (best druggability 0.47). MolNFT v1 #4617 on GenesisL1: 3D structure, binding sites and…
- PDB
- 1DTJ
- Type
- protein
- Length
- 266 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RNA-binding neurooncological ventral antigen 2
- UniProt
- Q9UNW9
- Pockets
- 3 · best druggability 0.47
Structure
x-ray diffraction · 4 distinct chains · 47% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RNA-binding neurooncological ventral antigen 2 | protein | 74 | 39% helix, 27% strand | Q9UNW9 |
| B | RNA-binding neurooncological ventral antigen 2 | protein | 62 | 44% helix, 32% strand | Q9UNW9 |
| C | RNA-binding neurooncological ventral antigen 2 | protein | 66 | 52% helix, 30% strand | Q9UNW9 |
| D | RNA-binding neurooncological ventral antigen 2 | protein | 64 | 55% helix, 31% strand | Q9UNW9 |
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 177 | 0.47 | 0.75 | 27 | empty |
| 2 | 86 | 0.45 | 0.80 | 27 | empty |
| 3 | 52 | 0.30 | 0.76 | 11 | empty |
Interfaces
6 interfaces between chains.
- B–C · 558 Ų buried · 8 hydrogen bonds · protein-protein
- A–D · 491 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 463 Ų buried · 7 hydrogen bonds · protein-protein
- C–D · 433 Ų buried · 7 hydrogen bonds · protein-protein
- A–C · 44 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
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 Q9UNW9
- Elsewhere: RCSB PDB 1DTJ · PDBe 1DTJ · UniProt Q9UNW9
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