MolNFT v1 · #120702 · protein
Crystal structure of an asc-binding nanobody in complex with the card domain of asc
5H8O · Vhh nanobody: “Crystal structure of an asc-binding nanobody in complex with the card domain of asc”. X-ray diffraction, 4 pockets (best druggability 0.64). MolNFT v1 #120702 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 5H8O
- Type
- protein
- Length
- 181 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Vhh nanobody; Apoptosis-associated speck-like protein containing a card
- UniProt
- Q9ULZ3
- Pockets
- 4 · best druggability 0.64
Structure
x-ray diffraction · 2 distinct chains · 25% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Vhh nanobody | protein | 107 | 0% helix, 50% strand | — |
| B | Apoptosis-associated speck-like protein containing a card | protein | 74 | 61% helix, 0% strand | Q9ULZ3 |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 166 | 0.64 | 0.85 | 40 | empty |
| 2 | 427 | 0.63 | 0.77 | 37 | empty |
| 3 | 104 | 0.47 | 0.80 | 23 | empty |
| 4 | 52 | 0.28 | 0.75 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 241 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 5H8O · Crystal structure of an ASC-binding nanobody in complex with the CARD domain of ASC · the same entry in another collection · chain A against A, TM-score 1.00
- Q9ULZ3 · AlphaFold monomer V2.0 prediction for apoptosis-associated speck-like protein containing… · a predicted model of the same protein · chain B against A, TM-score 0.74
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 Q9ULZ3
- Elsewhere: RCSB PDB 5H8O · PDBe 5H8O · UniProt Q9ULZ3
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