Research workbench
Structure of a fragment of the rod domain of plectin
Analyse Structure of a fragment of the rod domain of plectin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4GDO
- Type
- protein
- Length
- 223 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Plectin
- UniProt
- Q15149
- Pockets
- 3 · best druggability 0.51
Structure
x-ray diffraction · 5 distinct chains · 88% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Plectin | protein | 42 | 83% helix, 0% strand | Q15149 |
| B, D | Plectin | protein | 41 | 85% helix, 0% strand | Q15149 |
| C | Plectin | protein | 38 | 89% helix, 0% strand | Q15149 |
| E | Plectin | protein | 31 | 94% helix, 0% strand | Q15149 |
| F | Plectin | protein | 30 | 93% helix, 0% strand | Q15149 |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 218 | 0.51 | 0.76 | 39 | empty |
| 2 | 75 | 0.36 | 0.76 | 15 | empty |
| 3 | 61 | 0.28 | 0.74 | 15 | empty |
Interfaces
10 interfaces between chains.
- A–B · 976 Ų buried · 4 hydrogen bonds · protein-protein
- C–D · 898 Ų buried · 8 hydrogen bonds · protein-protein
- E–F · 514 Ų buried · 1 hydrogen bond · protein-protein
- A–D · 476 Ų buried · 5 hydrogen bonds · protein-protein
- A–C · 426 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 4GDO · Structure of a fragment of the rod domain of plectin · 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 Q15149
- Elsewhere: RCSB PDB 4GDO · PDBe 4GDO · UniProt Q15149
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