MolNFT v1 · #105433 · RNA

Crystal structure of the vs ribozyme - G638A mutant

4R4V · Vs ribozyme RNA: “Crystal structure of the vs ribozyme - G638A mutant”. X-ray diffraction, 2 ligands (MG, K), 6 pockets (best druggability 0.59). MolNFT v1 #105433 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4R4V
Type: RNA
Length: 186 nucleotides
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Vs ribozyme RNA
Ligands: MG, K
Pockets: 6 · best druggability 0.59

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Vs ribozyme RNA	rna	186	—	—

Ligands and binding sites

MG · Magnesium ion · metal · 9 copies · chains A
K · Potassium ion · metal · 5 copies · chains A

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

Pockets

6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	565	0.59	0.74	37	MG
2	277	0.50	0.75	20	K
3	261	0.46	0.73	21	empty
4	163	0.42	0.75	13	empty
5	201	0.40	0.72	19	empty

Modifications

Observed in the structure: 1 modified (nucleotide modification).

Compared structures

4R4V · Crystal structure of the VS ribozyme - G638A mutant · 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 4R4V · PDBe 4R4V

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