Research workbench
Crystal structure of the DNA binding domain of SAP1 in fission yeast S.POMBE
Analyse Crystal structure of the DNA binding domain of SAP1 in fission yeast S.POMBE in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5JDK
- Type
- protein
- Length
- 104 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Switch-activating protein 1
- UniProt
- P40847
- Pockets
- 1 · best druggability 0.35
Structure
x-ray diffraction · 1 distinct chain · 75% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Switch-activating protein 1 | protein | 104 | 75% helix, 0% strand | P40847 |
Ligands and binding sites
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 84 | 0.35 | 0.75 | 17 | GOL |
Compared structures
- 5JDK · Crystal structure of the DNA binding domain of Sap1 in fission yeast S.pombe · the same entry in another collection · chain A against A, TM-score 1.00
- P40847 · AlphaFold monomer V2.0 prediction for switch-activating protein 1 (P40847) · a predicted model of the same protein · chain A 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 P40847
- Elsewhere: RCSB PDB 5JDK · PDBe 5JDK · UniProt P40847
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