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The crystal structure of human supernatant protein factor
Analyse The crystal structure of human supernatant protein factor in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1O6U
- Type
- protein
- Length
- 1,175 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SEC14-like protein 2
- UniProt
- O76054
- Ligands
- PLM
- Pockets
- 20 · best druggability 0.88
Structure
x-ray diffraction · 3 distinct chains · 38% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | SEC14-like protein 2 | protein | 393 | 39% helix, 24% strand | O76054 |
| C | SEC14-like protein 2 | protein | 386 | 38% helix, 25% strand | O76054 |
| E | SEC14-like protein 2 | protein | 396 | 37% helix, 25% strand | O76054 |
Ligands and binding sites
- PLM · Palmitic acid · ligand · 3 copies · chains A, C, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 444 | 0.88 | 0.94 | 48 | PLM |
| 2 | 439 | 0.88 | 0.94 | 48 | PLM |
| 3 | 410 | 0.87 | 0.95 | 45 | PLM |
| 4 | 631 | 0.70 | 0.78 | 47 | empty |
| 5 | 631 | 0.68 | 0.77 | 46 | empty |
Interfaces
3 interfaces between chains.
- A–E · 708 Ų buried · 14 hydrogen bonds · protein-protein
- A–C · 653 Ų buried · 12 hydrogen bonds · protein-protein
- C–E · 68 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 31 modified (engineered).
Compared structures
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 O76054
- Elsewhere: RCSB PDB 1O6U · PDBe 1O6U · UniProt O76054
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