Research workbench
Asymmetric vertex of the clathrin minicoat cage
Analyse Asymmetric vertex of the clathrin minicoat cage in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6WCJ
- Type
- protein
- Length
- 5,007 residues
- Chains
- 15
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Clathrin heavy chain 1; Clathrin light chain B
- UniProt
- P49951, P04975
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 5 distinct chains · 69% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, D | Clathrin heavy chain 1 | protein | 394 | 75% helix, 0% strand | P49951 |
| B, E, F | Clathrin light chain B | protein | 109 | 83% helix, 0% strand | P04975 |
| O, J, N | Clathrin light chain B | protein | 59 | 90% helix, 0% strand | P04975 |
| L, G, I | Clathrin heavy chain 1 | protein | 666 | 66% helix, 0% strand | P49951 |
| M, H, K | Clathrin heavy chain 1 | protein | 441 | 63% helix, 0% strand | P49951 |
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 | 591 | 0.84 | 0.89 | 55 | empty |
| 2 | 1048 | 0.81 | 0.83 | 133 | empty |
| 3 | 691 | 0.80 | 0.84 | 106 | empty |
| 4 | 898 | 0.79 | 0.82 | 97 | empty |
| 5 | 1102 | 0.74 | 0.77 | 116 | empty |
Interfaces
39 interfaces between chains.
- A–B · 2029 Ų buried · 13 hydrogen bonds · protein-protein
- D–F · 1927 Ų buried · 11 hydrogen bonds · protein-protein
- C–E · 1898 Ų buried · 7 hydrogen bonds · protein-protein
- A–G · 1800 Ų buried · 29 hydrogen bonds · protein-protein
- L–M · 1723 Ų buried · 24 hydrogen bonds · protein-protein
Compared structures
- 6WCJ · Asymmetric vertex of the clathrin minicoat cage · the same entry in another collection · chain J against J, 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 P49951
- Every structure of UniProt P04975
- Elsewhere: RCSB PDB 6WCJ · PDBe 6WCJ · UniProt P49951 · UniProt P04975
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