MolNFT v1 · #124799 · RNA

Structure of a 5-hydroxytryptophan aptamer

5KPY · 5-hydroxytryptophan RNA aptamer: “Structure of a 5-hydroxytryptophan aptamer”. X-ray diffraction, 3 ligands (IRI, 4PQ, MG), 1 pocket (best druggability 0.65). MolNFT v1 #124799 on GenesisL1: 3D structure, binding sites and pockets…

PDB: 5KPY
Type: RNA
Length: 71 nucleotides
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 5-hydroxytryptophan RNA aptamer
Ligands: IRI, 4PQ, MG
Pockets: 1 · best druggability 0.65

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	5-hydroxytryptophan RNA aptamer	rna	71	—	—

Ligands and binding sites

IRI · Iridium hexammine ion · ligand · 12 copies · chains A
4PQ · 5-hydroxy-L-tryptophan · ligand · chains A
MG · Magnesium ion · metal · 6 copies · chains A

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

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	744	0.65	0.75	40	4PQ, IRI

Compared structures

5KPY · Structure of a 5-hydroxytryptophan aptamer · 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 5KPY · PDBe 5KPY

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