Research workbench
Suprafacial orientation of the SCFCDC4 dimer accommodates multiple geometries for substrate ubiquitination
Analyse Suprafacial orientation of the SCFCDC4 dimer accommodates multiple geometries… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2P63
- Type
- protein
- Length
- 207 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cell division control protein 4
- UniProt
- P07834
- Pockets
- 1 · best druggability 0.77
Structure
x-ray diffraction · 4 distinct chains · 69% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Cell division control protein 4 | protein | 52 | 73% helix, 0% strand | P07834 |
| B | Cell division control protein 4 | protein | 51 | 65% helix, 0% strand | P07834 |
| C | Cell division control protein 4 | protein | 53 | 66% helix, 0% strand | P07834 |
| D | Cell division control protein 4 | protein | 51 | 71% helix, 0% strand | P07834 |
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 829 | 0.77 | 0.81 | 55 | empty |
Interfaces
5 interfaces between chains.
- C–D · 1612 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 1470 Ų buried · 13 hydrogen bonds · protein-protein
- B–D · 560 Ų buried · 12 hydrogen bonds · protein-protein
- B–C · 56 Ų buried · 2 hydrogen bonds · protein-protein
- A–D · 37 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 modified (engineered).
Compared structures
- 2P63 · Suprafacial orientation of the SCFCdc4 dimer accommodates multiple geometries for… · the same entry in another collection · chain D against D, TM-score 1.00
- P07834 · AlphaFold monomer V2.0 prediction for cell division control protein 4 (P07834) · a predicted model of the same protein · chain A against A, TM-score 0.68
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 P07834
- Elsewhere: RCSB PDB 2P63 · PDBe 2P63 · UniProt P07834
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