Research workbench
Clathrin heavy chain N-terminal domain bound to BETA2 adaptin clathrin box motif
Analyse Clathrin heavy chain N-terminal domain bound to BETA2 adaptin clathrin box motif in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5M5R
- Type
- protein
- Length
- 374 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Clathrin heavy chain 1; Ap-2 complex subunit beta
- UniProt
- P49951, P63010
- Pockets
- 2 · best druggability 0.76
Structure
x-ray diffraction · 3 distinct chains · 8% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Clathrin heavy chain 1 | protein | 360 | 8% helix, 52% strand | P49951 |
| C | Ap-2 complex subunit beta | protein | 8 | 0% helix, 13% strand | P63010 |
| D | Ap-2 complex subunit beta | protein | 6 | 0% helix, 0% strand | P63010 |
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 684 | 0.76 | 0.81 | 69 | empty |
| 2 | 60 | 0.31 | 0.75 | 16 | empty |
Interfaces
2 interfaces between chains.
- A–C · 539 Ų buried · 8 hydrogen bonds · protein-protein
- A–D · 443 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 5M5R · Clathrin heavy chain N-terminal domain bound to beta2 adaptin clathrin box motif · the same entry in another collection · chain A against A, TM-score 1.00
- P49951 · AlphaFold monomer V2.0 prediction for clathrin heavy chain 1 (P49951) · a predicted model of the same protein · chain A against A, TM-score 0.99
- P63010 · AlphaFold monomer V2.0 prediction for ap-2 complex subunit beta (P63010) · a predicted model of the same protein · chain D against A, TM-score 0.57
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 P49951
- Every structure of UniProt P63010
- Elsewhere: RCSB PDB 5M5R · PDBe 5M5R · UniProt P49951 · UniProt P63010
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