Research workbench
Crystal structure of the btb domain of KCTD13
Analyse Crystal structure of the btb domain of KCTD13 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4UIJ
- Type
- protein
- Length
- 410 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- BTB/POZ domain-containing adapter for CUL3-mediated rhoa degradation protein 1
- UniProt
- Q8WZ19
- Ligands
- CL
- Pockets
- 4 · best druggability 0.85
Structure
x-ray diffraction · 4 distinct chains · 45% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | BTB/POZ domain-containing adapter for CUL3-mediated rhoa degradation protein 1 | protein | 104 | 44% helix, 15% strand | Q8WZ19 |
| B | BTB/POZ domain-containing adapter for CUL3-mediated rhoa degradation protein 1 | protein | 103 | 45% helix, 16% strand | Q8WZ19 |
| C | BTB/POZ domain-containing adapter for CUL3-mediated rhoa degradation protein 1 | protein | 102 | 45% helix, 17% strand | Q8WZ19 |
| D | BTB/POZ domain-containing adapter for CUL3-mediated rhoa degradation protein 1 | protein | 101 | 46% helix, 17% strand | Q8WZ19 |
Ligands and binding sites
- CL · Chloride ion · ion · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1073 | 0.85 | 0.87 | 111 | empty |
| 2 | 106 | 0.39 | 0.75 | 19 | empty |
| 3 | 52 | 0.32 | 0.76 | 14 | empty |
| 4 | 58 | 0.27 | 0.74 | 14 | empty |
Interfaces
5 interfaces between chains.
- B–D · 676 Ų buried · 12 hydrogen bonds · protein-protein
- A–C · 671 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 411 Ų buried · 8 hydrogen bonds · protein-protein
- A–D · 349 Ų buried · 3 hydrogen bonds · protein-protein
- A–B · 233 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 4UIJ · Crystal structure of the BTB domain of KCTD13 · the same entry in another collection · chain D against D, TM-score 1.00
- Q8WZ19 · AlphaFold monomer V2.0 prediction for BTB/POZ domain-containing adapter for CUL3-mediated… · a predicted model of the same protein · chain B 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 Q8WZ19
- Elsewhere: RCSB PDB 4UIJ · PDBe 4UIJ · UniProt Q8WZ19
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