Research workbench
Structural and functional insights into the ligand binding domain of a non-duplicated rxr from the invertebrate chordate amphioxus
Analyse Structural and functional insights into the ligand binding domain of a… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3EYB
- Type
- protein
- Length
- 796 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Nuclear hormone receptor rxr
- UniProt
- Q8MX78
- Pockets
- 9 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 66% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Nuclear hormone receptor rxr | protein | 199 | 66% helix, 1% strand | Q8MX78 |
Pockets
9 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 487 | 0.73 | 0.82 | 63 | empty |
| 2 | 145 | 0.63 | 0.86 | 25 | empty |
| 3 | 126 | 0.62 | 0.86 | 21 | empty |
| 4 | 240 | 0.62 | 0.81 | 30 | empty |
| 5 | 134 | 0.62 | 0.86 | 24 | empty |
Interfaces
4 interfaces between chains.
- A–B · 1270 Ų buried · 15 hydrogen bonds · protein-protein
- C–D · 1255 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 670 Ų buried · 4 hydrogen bonds · protein-protein
- A–D · 659 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 3EYB · Structural and functional insights into the ligand binding domain of a non-duplicated RXR… · the same entry in another collection · chain A against A, 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 Q8MX78
- Elsewhere: RCSB PDB 3EYB · PDBe 3EYB · UniProt Q8MX78
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