Research workbench
Cryo-EM structure of CAS12G ternary complex
Analyse Cryo-EM structure of CAS12G ternary complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6XMG
- Type
- protein + RNA
- Length
- 792 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CRISPR-CAS; RNA (130-mer); RNA (5'- R(P*UP*UP*AP*AP*UP*GP*CP*GP*GP*UP*AP*GP*UP*UP*UP*AP*UP…
- Ligands
- ZN
- Pockets
- 17 · best druggability 0.87
Structure
electron microscopy · 3 distinct chains · 43% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CRISPR-CAS | protein | 638 | 43% helix, 9% strand | — |
| C | RNA (130-mer) | rna | 130 | — | — |
| E | RNA (5'- R(P*UP*UP*AP*AP*UP*GP*CP*GP*GP*UP*AP*GP*UP*UP*UP*AP*UP*CP*AP*CP*AP*GP *UP*U)-3') | rna | 24 | — | — |
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
17 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 843 | 0.87 | 0.90 | 88 | empty |
| 2 | 848 | 0.83 | 0.85 | 88 | empty |
| 3 | 493 | 0.80 | 0.87 | 46 | empty |
| 4 | 421 | 0.79 | 0.87 | 52 | empty |
| 5 | 702 | 0.70 | 0.78 | 40 | empty |
Interfaces
3 interfaces between chains.
- A–C · 4505 Ų buried · 99 hydrogen bonds · protein-nucleic
- A–E · 1437 Ų buried · 24 hydrogen bonds · protein-nucleic
- C–E · 1172 Ų buried · 89 hydrogen bonds · nucleic-nucleic
Compared structures
- 6XMG · Cryo-EM structure of Cas12g ternary complex · 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 6XMG · PDBe 6XMG
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