Research workbench
Structure of dodecameric unphosphorylated pediculus humanus (pH) PINK1 D357A mutant
Analyse Structure of dodecameric unphosphorylated pediculus humanus (pH) PINK1 D357A… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7T4M
- Type
- protein
- Length
- 4,854 residues
- Chains
- 12
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SERINE/THREONINE-protein kinase PINK1, putative
- EC
- 2.7.11.1
- UniProt
- E0W1I1
- Pockets
- 20 · best druggability 0.82
Structure
electron microscopy · 2 distinct chains · 39% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G, I, K | SERINE/THREONINE-protein kinase PINK1, putative (EC 2.7.11.1) | protein | 408 | 39% helix, 14% strand | E0W1I1 |
| B, D, F, H, J, L | SERINE/THREONINE-protein kinase PINK1, putative (EC 2.7.11.1) | protein | 401 | 39% helix, 15% strand | E0W1I1 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1031 | 0.82 | 0.83 | 117 | empty |
| 2 | 1020 | 0.81 | 0.82 | 93 | empty |
| 3 | 1036 | 0.81 | 0.82 | 83 | empty |
| 4 | 1036 | 0.81 | 0.82 | 97 | empty |
| 5 | 1015 | 0.81 | 0.82 | 92 | empty |
Interfaces
24 interfaces between chains.
- G–H · 1754 Ų buried · 31 hydrogen bonds · protein-protein
- E–F · 1753 Ų buried · 30 hydrogen bonds · protein-protein
- I–J · 1750 Ų buried · 30 hydrogen bonds · protein-protein
- A–B · 1749 Ų buried · 30 hydrogen bonds · protein-protein
- C–D · 1748 Ų buried · 29 hydrogen bonds · protein-protein
Compared structures
- 7T4M · Structure of dodecameric unphosphorylated Pediculus humanus (Ph) PINK1 D357A mutant · 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 E0W1I1
- Elsewhere: RCSB PDB 7T4M · PDBe 7T4M · UniProt E0W1I1
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