MolNFT v1 · #70805 · protein
Crystal structure of a clathrin heavy chain and clathrin light chain complex
3LVH · Clathrin heavy chain 1: “Crystal structure of a clathrin heavy chain and clathrin light chain complex”. X-ray diffraction, 20 pockets (best druggability 0.82). MolNFT v1 #70805 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 3LVH
- Type
- protein
- Length
- 1,989 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Clathrin heavy chain 1; Clathrin light chain B
- UniProt
- P49951, P04975
- Pockets
- 20 · best druggability 0.82
Structure
x-ray diffraction · 4 distinct chains · 52% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Clathrin heavy chain 1 | protein | 554 | 46% helix, 0% strand | P49951 |
| D | Clathrin light chain B | protein | 113 | 62% helix, 1% strand | P04975 |
| E | Clathrin light chain B | protein | 102 | 65% helix, 0% strand | P04975 |
| F | Clathrin light chain B | protein | 112 | 63% helix, 0% strand | P04975 |
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 | 1125 | 0.82 | 0.83 | 77 | empty |
| 2 | 247 | 0.73 | 0.87 | 44 | empty |
| 3 | 247 | 0.72 | 0.87 | 39 | empty |
| 4 | 311 | 0.72 | 0.85 | 39 | empty |
| 5 | 354 | 0.70 | 0.82 | 37 | empty |
Interfaces
9 interfaces between chains.
- A–F · 2334 Ų buried · 70 hydrogen bonds · protein-protein
- B–D · 2332 Ų buried · 64 hydrogen bonds · protein-protein
- C–E · 1259 Ų buried · 10 hydrogen bonds · protein-protein
- A–B · 619 Ų buried · 12 hydrogen bonds · protein-protein
- B–C · 503 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 3LVH · Crystal structure of a clathrin heavy chain and clathrin light chain complex · the same entry in another collection · chain F against F, TM-score 1.00
- P49951 · AlphaFold monomer V2.0 prediction for clathrin heavy chain 1 (P49951) · a predicted model of the same protein · chain C against A, TM-score 0.79
- P04975 · AlphaFold monomer V2.0 prediction for clathrin light chain B (P04975) · a predicted model of the same protein · chain D against A, TM-score 0.50
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 3LVH · PDBe 3LVH · UniProt P49951 · UniProt P04975
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