MolNFT v1 · #59394 · RNA

Crystal structure of a self-spliced group II intron

3BWP · Group iic intron: “Crystal structure of a self-spliced group II intron”. X-ray diffraction, 2 ligands (MG, K), 11 pockets (best druggability 0.73). MolNFT v1 #59394 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3BWP
Type: RNA
Length: 356 nucleotides
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Group iic intron
Ligands: MG, K
Pockets: 11 · best druggability 0.73

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Group iic intron	rna	356	—	—

Ligands and binding sites

MG · Magnesium ion · metal · 7 copies · chains A
K · Potassium ion · metal · 2 copies · chains A

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

Pockets

11 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1126	0.73	0.78	72	MG
2	408	0.66	0.81	37	MG
3	727	0.66	0.76	46	empty
4	428	0.66	0.80	28	empty
5	555	0.62	0.75	40	empty

Compared structures

3BWP · Crystal structure of a self-spliced group II intron · 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 3BWP · PDBe 3BWP

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