Research workbench
CBF3
Analyse CBF3 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7K79
- Type
- protein
- Length
- 1,601 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Centromere DNA-binding protein complex CBF3 subunit C; Centromere DNA-binding protein…
- UniProt
- P35203, P40969, P52286
- Pockets
- 20 · best druggability 0.89
Structure
electron microscopy · 4 distinct chains · 49% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| K | Centromere DNA-binding protein complex CBF3 subunit C | protein | 408 | 25% helix, 12% strand | P35203 |
| L | Centromere DNA-binding protein complex CBF3 subunit B | protein | 525 | 60% helix, 1% strand | P40969 |
| O | Centromere DNA-binding protein complex CBF3 subunit B | protein | 517 | 59% helix, 1% strand | P40969 |
| N | Suppressor of kinetochore protein 1 | protein | 151 | 38% helix, 2% strand | P52286 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1114 | 0.89 | 0.90 | 156 | empty |
| 2 | 762 | 0.82 | 0.85 | 88 | empty |
| 3 | 113 | 0.75 | 0.94 | 19 | empty |
| 4 | 101 | 0.75 | 0.95 | 22 | empty |
| 5 | 299 | 0.74 | 0.87 | 39 | empty |
Interfaces
4 interfaces between chains.
- L–O · 2960 Ų buried · 36 hydrogen bonds · protein-protein
- K–N · 2193 Ų buried · 22 hydrogen bonds · protein-protein
- K–L · 1384 Ų buried · 9 hydrogen bonds · protein-protein
- L–N · 854 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 7K79 · CBF3 · the same entry in another collection · chain N against N, TM-score 1.00
- P40969 · AlphaFold monomer V2.0 prediction for centromere DNA-binding protein complex CBF3 subunit… · a predicted model of the same protein · chain O against A, TM-score 0.97
- P35203 · AlphaFold monomer V2.0 prediction for centromere DNA-binding protein complex CBF3 subunit… · a predicted model of the same protein · chain K against A, TM-score 0.91
- P52286 · AlphaFold monomer V2.0 prediction for suppressor of kinetochore protein 1 (P52286) · a predicted model of the same protein · chain N against A, TM-score 0.80
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 P35203
- Every structure of UniProt P40969
- Every structure of UniProt P52286
- Elsewhere: RCSB PDB 7K79 · PDBe 7K79 · UniProt P35203 · UniProt P40969 · UniProt P52286
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