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The CAS13D binary complex

Analyse The CAS13D binary complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6IV9
Type: protein + RNA
Length: 924 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: CAS13D; Crrna (50-mer)
UniProt: A0A1C5SD84
Ligands: MG
Pockets: 15 · best druggability 0.84

Structure

x-ray diffraction · 2 distinct chains · 63% helix, 5% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	CAS13D	protein	874	63% helix, 5% strand	A0A1C5SD84
B	Crrna (50-mer)	rna	50	—	—

Ligands and binding sites

MG · Magnesium ion · metal · 2 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

15 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	638	0.84	0.89	66	empty
2	616	0.84	0.89	77	MG
3	140	0.77	0.95	33	empty
4	320	0.63	0.79	28	empty
5	166	0.60	0.83	29	empty

Interfaces

1 interface between chains.

A–B · 4056 Å² buried · 94 hydrogen bonds · protein-nucleic

Compared structures

6IV9 · the Cas13d 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
Every structure of UniProt A0A1C5SD84
Elsewhere: RCSB PDB 6IV9 · PDBe 6IV9 · UniProt A0A1C5SD84

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