Research workbench
Structure of an ARRESTIN/CLATHRIN complex reveals a novel clathrin binding domain that modulates receptor trafficking
Analyse Structure of an ARRESTIN/CLATHRIN complex reveals a novel clathrin binding… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3GD1
- Type
- protein
- Length
- 1,011 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-arrestin-1; Clathrin heavy chain 1; Clathrin
- UniProt
- P17870, P49951
- Pockets
- 13 · best druggability 0.75
Structure
x-ray diffraction · 4 distinct chains · 5% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | Beta-arrestin-1 | protein | 345 | 4% helix, 47% strand | P17870 |
| E | Beta-arrestin-1 | protein | 300 | 2% helix, 47% strand | P17870 |
| I | Clathrin heavy chain 1 | protein | 358 | 8% helix, 46% strand | P49951 |
| Z | Clathrin | protein | 8 | 0% helix, 13% strand | — |
Pockets
13 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 780 | 0.75 | 0.80 | 72 | empty |
| 2 | 601 | 0.64 | 0.75 | 46 | empty |
| 3 | 87 | 0.62 | 0.90 | 24 | empty |
| 4 | 164 | 0.55 | 0.81 | 33 | empty |
| 5 | 87 | 0.46 | 0.81 | 15 | empty |
Interfaces
4 interfaces between chains.
- C–E · 744 Ų buried · 16 hydrogen bonds · protein-protein
- E–I · 474 Ų buried · 2 hydrogen bonds · protein-protein
- I–Z · 447 Ų buried · 6 hydrogen bonds · protein-protein
- C–I · 107 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 3GD1 · Structure of an Arrestin/Clathrin complex reveals a novel clathrin binding domain that… · the same entry in another collection · chain C against C, TM-score 1.00
- P49951 · AlphaFold monomer V2.0 prediction for clathrin heavy chain 1 (P49951) · a predicted model of the same protein · chain I against A, TM-score 0.99
- P17870 · AlphaFold monomer V2.0 prediction for beta-arrestin-1 (P17870) · a predicted model of the same protein · chain C against A, TM-score 0.98
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 P17870
- Every structure of UniProt P49951
- Elsewhere: RCSB PDB 3GD1 · PDBe 3GD1 · UniProt P17870 · UniProt P49951
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