MolNFT v1 · #90087 · RNA

Structure of oceanobacillus iheyensis group II intron in a ligand-free state in the presence of cs+ and MG2+

4E8R · Group iic intron: “Structure of oceanobacillus iheyensis group II intron in a ligand-free state in the presence of cs+ and MG2+”. X-ray diffraction, 2 ligands (CS, MG), 16 pockets (best druggability 0.71). MolNFT v1 #90087 on…

PDB: 4E8R
Type: RNA
Length: 392 nucleotides
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Group iic intron
Ligands: CS, MG
Pockets: 16 · best druggability 0.71

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Group iic intron	rna	392	—	—

Ligands and binding sites

CS · Cesium ion · metal · 35 copies · chains A
MG · Magnesium ion · metal · 23 copies · chains A
EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · 5 copies · chains A

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

Pockets

16 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	591	0.71	0.80	45	CS
2	414	0.67	0.81	37	MG, CS
3	787	0.66	0.75	54	MG, CS, EPE
4	749	0.66	0.75	48	CS
5	429	0.65	0.79	28	MG

Compared structures

4E8R · Structure of Oceanobacillus iheyensis group II intron in a ligand-free state in the… · 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 4E8R · PDBe 4E8R

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