MolNFT v1 · #104159 · protein
Crystal structure of the plectin 1 and 2 repeats of the human periplakin. northeast structural genomics consortium (nesg) target HR9083A
4Q28: “Crystal structure of the plectin 1 and 2 repeats of the human periplakin. northeast structural genomics…”. X-ray diffraction, 11 pockets (best druggability 0.52). MolNFT v1 #104159 on GenesisL1: 3D structure, binding sites and…
- PDB
- 4Q28
- Type
- protein
- Length
- 438 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Periplakin
- UniProt
- O60437
- Pockets
- 11 · best druggability 0.52
Structure
x-ray diffraction · 2 distinct chains · 33% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Periplakin | protein | 110 | 33% helix, 33% strand | O60437 |
| C, D | Periplakin | protein | 109 | 34% helix, 34% strand | O60437 |
Pockets
11 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 94 | 0.52 | 0.84 | 20 | empty |
| 2 | 55 | 0.50 | 0.87 | 16 | empty |
| 3 | 154 | 0.46 | 0.77 | 22 | empty |
| 4 | 63 | 0.45 | 0.83 | 17 | empty |
| 5 | 93 | 0.43 | 0.79 | 19 | empty |
Interfaces
5 interfaces between chains.
- A–D · 1235 Ų buried · 21 hydrogen bonds · protein-protein
- B–C · 1173 Ų buried · 19 hydrogen bonds · protein-protein
- A–B · 911 Ų buried · 11 hydrogen bonds · protein-protein
- B–D · 141 Ų buried · 1 hydrogen bond · protein-protein
- A–C · 130 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 modified (engineered).
Compared structures
- 4Q28 · Crystal Structure of the Plectin 1 and 2 Repeats of the Human Periplakin. Northeast… · the same entry in another collection · chain A against A, TM-score 1.00
- O60437 · AlphaFold monomer V2.0 prediction for periplakin (O60437) · a predicted model of the same protein · chain A against A, TM-score 0.80
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 O60437
- Elsewhere: RCSB PDB 4Q28 · PDBe 4Q28 · UniProt O60437
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