Research workbench
Cryo-EM structure of casphi-2 (CAS12J) bound to crrna
Analyse Cryo-EM structure of casphi-2 (CAS12J) bound to crrna in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7M5O
- Type
- protein + RNA
- Length
- 692 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Casphi; Crrna
- Ligands
- ZN
- Pockets
- 10 · best druggability 0.85
Structure
electron microscopy · 2 distinct chains · 40% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Casphi | protein | 655 | 40% helix, 13% strand | — |
| B | Crrna | rna | 37 | — | — |
Ligands and binding sites
- ZN · Zinc ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 884 | 0.85 | 0.88 | 95 | empty |
| 2 | 399 | 0.74 | 0.85 | 37 | empty |
| 3 | 744 | 0.68 | 0.76 | 53 | empty |
| 4 | 127 | 0.56 | 0.84 | 26 | empty |
| 5 | 70 | 0.54 | 0.87 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 4612 Ų buried · 95 hydrogen bonds · protein-nucleic
Compared structures
- 7M5O · Cryo-EM structure of CasPhi-2 (Cas12j) bound to crRNA · 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
- Elsewhere: RCSB PDB 7M5O · PDBe 7M5O
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