Research workbench
Crystal structure of the N-terminal btb domain of human KCTD10
Analyse Crystal structure of the N-terminal btb domain of human KCTD10 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5FTA
- Type
- protein
- Length
- 398 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 3
- UniProt
- Q9H3F6
- Ligands
- HG
- Pockets
- 4 · best druggability 0.82
Structure
x-ray diffraction · 3 distinct chains · 43% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | BTB/POZ domain-containing adapter for CUL3-mediated rhoa degradation protein 3 | protein | 101 | 43% helix, 17% strand | Q9H3F6 |
| C | BTB/POZ domain-containing adapter for CUL3-mediated rhoa degradation protein 3 | protein | 97 | 44% helix, 16% strand | Q9H3F6 |
| D | BTB/POZ domain-containing adapter for CUL3-mediated rhoa degradation protein 3 | protein | 99 | 43% helix, 16% strand | Q9H3F6 |
Ligands and binding sites
- HG · Mercury (II) ion · metal · 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 | 1120 | 0.82 | 0.83 | 100 | HG |
| 2 | 191 | 0.50 | 0.76 | 33 | empty |
| 3 | 149 | 0.49 | 0.78 | 25 | empty |
| 4 | 72 | 0.33 | 0.75 | 19 | empty |
Interfaces
5 interfaces between chains.
- C–D · 657 Ų buried · 11 hydrogen bonds · protein-protein
- A–B · 634 Ų buried · 9 hydrogen bonds · protein-protein
- B–C · 491 Ų buried · 8 hydrogen bonds · protein-protein
- A–D · 323 Ų buried · 3 hydrogen bonds · protein-protein
- B–D · 193 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5FTA · Crystal structure of the N-terminal BTB domain of human KCTD10 · the same entry in another collection · chain D against D, TM-score 1.00
- Q9H3F6 · AlphaFold monomer V2.0 prediction for BTB/POZ domain-containing adapter for CUL3-mediated… · a predicted model of the same protein · chain C against A, TM-score 0.98
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 Q9H3F6
- Elsewhere: RCSB PDB 5FTA · PDBe 5FTA · UniProt Q9H3F6
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