Research workbench
A de novo designed heptameric coiled coil cc-hept
Analyse A de novo designed heptameric coiled coil cc-hept in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4PNA
- Type
- protein
- Length
- 208 residues
- Chains
- 7
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cc-hept
- Ligands
- ACE
- Pockets
- 1 · best druggability 0.88
Structure
x-ray diffraction · 2 distinct chains · 93% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, G | Cc-hept | protein | 30 | 93% helix, 0% strand | — |
| E, F | Cc-hept | protein | 29 | 93% helix, 0% strand | — |
Ligands and binding sites
- ACE · Acetyl group · ligand · 7 copies · chains A, C, B, G, D, E, F
- GOL · Glycerol · additive · 4 copies · chains B, C, E, G, A, D, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 781 | 0.88 | 0.89 | 56 | GOL |
Interfaces
7 interfaces between chains.
- D–E · 821 Ų buried · 5 hydrogen bonds · protein-protein
- B–E · 800 Ų buried · 4 hydrogen bonds · protein-protein
- A–C · 798 Ų buried · 3 hydrogen bonds · protein-protein
- F–G · 792 Ų buried · 9 hydrogen bonds · protein-protein
- C–D · 788 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 7 covalent (covalent ligand).
Compared structures
- 4PNA · A de novo designed heptameric coiled coil CC-Hept · 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
- Elsewhere: RCSB PDB 4PNA · PDBe 4PNA
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