Research workbench
The crystal structure of the acyl transferase domain of spnd
Analyse The crystal structure of the acyl transferase domain of spnd in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5YDA
- Type
- protein
- Length
- 409 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pks
- UniProt
- A0A0E3JLZ0
- Pockets
- 5 · best druggability 0.77
Structure
x-ray diffraction · 1 distinct chain · 48% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pks | protein | 409 | 48% helix, 14% strand | A0A0E3JLZ0 |
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 522 | 0.77 | 0.84 | 56 | empty |
| 2 | 159 | 0.55 | 0.81 | 18 | empty |
| 3 | 148 | 0.44 | 0.75 | 27 | empty |
| 4 | 92 | 0.40 | 0.77 | 18 | empty |
| 5 | 73 | 0.36 | 0.77 | 19 | empty |
Compared structures
- 5YDA · The crystal structure of the Acyl Transferase domain of SpnD · the same entry in another collection · chain A against A, TM-score 1.00
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 A0A0E3JLZ0
- Elsewhere: RCSB PDB 5YDA · PDBe 5YDA · UniProt A0A0E3JLZ0
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