MolNFT v1 · #82733 · protein
NDP52 in complex with LC3C
3VVW · Calcium-binding and coiled-coil domain-containing protein 2: “NDP52 in complex with LC3C”. X-ray diffraction, 1 pocket (best druggability 0.39). MolNFT v1 #82733 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3VVW
- Type
- protein
- Length
- 224 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Calcium-binding and coiled-coil domain-containing protein 2; Microtubule-associated…
- UniProt
- Q13137, Q9BXW4
- Pockets
- 1 · best druggability 0.39
Structure
x-ray diffraction · 2 distinct chains · 17% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Calcium-binding and coiled-coil domain-containing protein 2 | protein | 110 | 5% helix, 40% strand | Q13137 |
| B | Microtubule-associated proteins 1A/1B light chain 3C | protein | 114 | 28% helix, 23% strand | Q9BXW4 |
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 131 | 0.39 | 0.74 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 542 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 3VVW · NDP52 in complex with LC3C · the same entry in another collection · chain A against A, TM-score 1.00
- Q9BXW4 · AlphaFold monomer V2.0 prediction for microtubule-associated proteins 1A/1B light chain… · a predicted model of the same protein · chain B against A, TM-score 0.90
- Q13137 · AlphaFold monomer V2.0 prediction for calcium-binding and coiled-coil domain-containing… · a predicted model of the same protein · chain A against A, TM-score 0.90
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 Q13137
- Every structure of UniProt Q9BXW4
- Elsewhere: RCSB PDB 3VVW · PDBe 3VVW · UniProt Q13137 · UniProt Q9BXW4
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