MolNFT v1 · #114571 · RNA

Fusobacterium ulcerans ztp riboswitch bound to zmp

5BTP · RNA (62-mer): “Fusobacterium ulcerans ztp riboswitch bound to zmp”. X-ray diffraction, 3 ligands (AMZ, MG, K), 3 pockets (best druggability 0.68). MolNFT v1 #114571 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5BTP
Type: RNA
Length: 124 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA (62-mer)
Ligands: AMZ, MG, K
Pockets: 3 · best druggability 0.68

Structure

x-ray diffraction · 2 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	RNA (62-mer)	rna	62	—	—
A	RNA (62-mer)	rna	62	—	—

Ligands and binding sites

AMZ · Aminoimidazole 4-carboxamide ribonucleotide · ligand · 2 copies · chains B, A
MG · Magnesium ion · metal · 12 copies · chains B, A
K · Potassium ion · metal · chains B

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

Pockets

3 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	504	0.68	0.80	30	MG, AMZ
2	513	0.68	0.79	30	MG, AMZ, K
3	137	0.37	0.73	15	MG

Interfaces

1 interface between chains.

B–A · 585 Å² buried · 27 hydrogen bonds · nucleic-nucleic

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Elsewhere: RCSB PDB 5BTP · PDBe 5BTP

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.