MolNFT v1 · #170665 · protein
Crystal structure of type I-D CRISPR-CAS nuclease CAS10D
6YES · CRISPR-associated protein, csca: “Crystal structure of type I-D CRISPR-CAS nuclease CAS10D”. X-ray diffraction, 1 ligand (ZN), 20 pockets (best druggability 0.78). MolNFT v1 #170665 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6YES
- Type
- protein
- Length
- 1,567 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CRISPR-associated protein, csca
- UniProt
- M9U4Y8
- Ligands
- ZN
- Pockets
- 20 · best druggability 0.78
Structure
x-ray diffraction · 2 distinct chains · 54% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CRISPR-associated protein, csca | protein | 791 | 55% helix, 7% strand | M9U4Y8 |
| B | CRISPR-associated protein, csca | protein | 776 | 53% helix, 7% strand | M9U4Y8 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 431 | 0.78 | 0.86 | 50 | empty |
| 2 | 579 | 0.78 | 0.84 | 55 | empty |
| 3 | 98 | 0.77 | 0.97 | 27 | empty |
| 4 | 90 | 0.75 | 0.96 | 21 | empty |
| 5 | 65 | 0.73 | 0.97 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 560 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 6YES · Crystal structure of type I-D CRISPR-Cas nuclease Cas10d · the same entry in another collection · chain A against A, 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 M9U4Y8
- Elsewhere: RCSB PDB 6YES · PDBe 6YES · UniProt M9U4Y8
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