Research workbench
BETA2 appendage domain of AP2 bound to terminal domains beneath the hub of the 28 triskelia mini clathrin coat complex, class 15
Analyse BETA2 appendage domain of AP2 bound to terminal domains beneath the hub of the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7OM8
- Type
- protein
- Length
- 539 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Clathrin heavy chain; Ap-2 complex subunit beta
- UniProt
- I3LGD4, P63010
- Pockets
- 6 · best druggability 0.67
Structure
electron microscopy · 3 distinct chains · 9% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| Y | Clathrin heavy chain | protein | 157 | 2% helix, 47% strand | I3LGD4 |
| Z | Clathrin heavy chain | protein | 149 | 2% helix, 48% strand | I3LGD4 |
| B | Ap-2 complex subunit beta | protein | 233 | 18% helix, 41% strand | P63010 |
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 511 | 0.67 | 0.78 | 41 | empty |
| 2 | 427 | 0.61 | 0.76 | 48 | empty |
| 3 | 180 | 0.45 | 0.74 | 30 | empty |
| 4 | 85 | 0.36 | 0.75 | 18 | empty |
| 5 | 60 | 0.35 | 0.78 | 18 | empty |
Interfaces
2 interfaces between chains.
- Y–B · 540 Ų buried · 3 hydrogen bonds · protein-protein
- Z–B · 380 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 7OM8 · Beta2 appendage domain of AP2 bound to terminal domains beneath the hub of the 28… · the same entry in another collection · chain Y against Y, TM-score 1.00
- P63010 · AlphaFold monomer V2.0 prediction for ap-2 complex subunit beta (P63010) · a predicted model of the same protein · chain B against A, TM-score 0.99
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 I3LGD4
- Every structure of UniProt P63010
- Elsewhere: RCSB PDB 7OM8 · PDBe 7OM8 · UniProt I3LGD4 · UniProt P63010
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