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Cryo-EM structure of a CRISPR-CAS12F binary complex

Analyse Cryo-EM structure of a CRISPR-CAS12F binary complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 7L48
Type: protein + RNA
Length: 1,185 residues
Chains: 3
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: CAS12F; Sgrna
Ligands: ZN
Pockets: 20 · best druggability 0.85

Structure

electron microscopy · 3 distinct chains · 38% helix, 14% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	CAS12F	protein	522	38% helix, 14% strand	—
B	CAS12F	protein	519	39% helix, 14% strand	—
E	Sgrna	rna	144	—	—

Ligands and binding sites

ZN · Zinc ion · metal · 4 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, 12 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	651	0.85	0.89	73	empty
2	428	0.78	0.88	40	empty
3	57	0.73	0.98	21	empty
4	446	0.65	0.79	29	empty
5	685	0.65	0.75	37	empty

Interfaces

3 interfaces between chains.

A–E · 3999 Å² buried · 80 hydrogen bonds · protein-nucleic
B–E · 2338 Å² buried · 35 hydrogen bonds · protein-nucleic
A–B · 1223 Å² buried · 6 hydrogen bonds · protein-protein

Compared structures

7L48 · Cryo-EM structure of a CRISPR-Cas12f Binary 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 7L48 · PDBe 7L48

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