MolNFT v1 · #12980 · RNA

Crystal structure of a RNA molecule containing domain 5 and 6 of the yeast AI5G group II self-splicing intron

1KXK: “Crystal structure of a RNA molecule containing domain 5 and 6 of the yeast AI5G group II self-splicing intron”. X-ray diffraction, 1 ligand (MG), 3 pockets (best druggability 0.46). MolNFT v1 #12980 on GenesisL1: 3D structure…

PDB: 1KXK
Type: RNA
Length: 70 nucleotides
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: AI5G group II self-splicing intron
Ligands: MG
Pockets: 3 · best druggability 0.46

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	AI5G group II self-splicing intron	rna	70	—	—

Ligands and binding sites

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

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

Pockets

3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	293	0.46	0.72	28	empty
2	183	0.39	0.72	19	empty
3	54	0.27	0.75	11	empty

Compared structures

1KXK · Crystal Structure of a RNA Molecule Containing Domain 5 and 6 of the Yeast ai5g Group II… · 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 1KXK · PDBe 1KXK

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