MolNFT v1 · #140008 · protein
Crystal structure of the four N-terminal immunoglogulin domains of sidekick-2 protein
5XX0 · Protein sidekick-2: “Crystal structure of the four N-terminal immunoglogulin domains of sidekick-2 protein”. X-ray diffraction, 6 pockets (best druggability 0.73). MolNFT v1 #140008 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5XX0
- Type
- protein
- Length
- 741 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein sidekick-2
- UniProt
- Q6V4S5
- Pockets
- 6 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 4% helix, 53% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein sidekick-2 | protein | 377 | 3% helix, 53% strand | Q6V4S5 |
| B | Protein sidekick-2 | protein | 364 | 4% helix, 53% strand | Q6V4S5 |
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1005 | 0.73 | 0.77 | 78 | empty |
| 2 | 268 | 0.71 | 0.86 | 51 | empty |
| 3 | 634 | 0.70 | 0.78 | 61 | empty |
| 4 | 167 | 0.60 | 0.83 | 23 | empty |
| 5 | 50 | 0.35 | 0.79 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 1423 Ų buried · 21 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 5XX0 · Crystal structure of the four N-terminal immunoglogulin domains of Sidekick-2 protein · the same entry in another collection · chain A against A, TM-score 1.00
- Q6V4S5 · AlphaFold monomer V2.0 prediction for protein sidekick-2 (Q6V4S5) · a predicted model of the same protein · chain A against A, TM-score 0.89
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 Q6V4S5
- Elsewhere: RCSB PDB 5XX0 · PDBe 5XX0 · UniProt Q6V4S5
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