MolNFT v1 · #115572 · RNA

Crystal structure-guided design of self-assembling RNA nano triangles

5CNR · RNA (5'-R(*GP*UP*CP*UP*AP*CP*CP*CP*AP*CP*CP*UP*CP*GP*CP*C)…: “Crystal structure-guided design of self-assembling RNA nano triangles”. X-ray diffraction, 1 ligand (CL), 2 pockets (best druggability 0.37). MolNFT v1 #115572 on…

PDB: 5CNR
Type: RNA
Length: 54 nucleotides
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA (5'-R(*GP*UP*CP*UP*AP*CP*CP*CP*AP*CP*CP*UP*CP*GP*CP*C)- 3'); RNA…
Ligands: CL
Pockets: 2 · best druggability 0.37

Structure

x-ray diffraction · 2 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, E	RNA (5'-R(GPUPCPUPAPCPCPCPAPCPCPUPCPGPCPC)- 3')	rna	16	—	—
B, F	RNA (5'-R(APGPAPGPGPAPCPGPGPCP*G)-3')	rna	11	—	—

Ligands and binding sites

CL · Chloride ion · ion · chains A, B

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

Pockets

2 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	101	0.37	0.76	11	empty
2	53	0.33	0.78	11	empty

Interfaces

2 interfaces between chains.

A–B · 502 Å² buried · 35 hydrogen bonds · nucleic-nucleic
E–F · 479 Å² buried · 33 hydrogen bonds · nucleic-nucleic

Compared structures

5CNR · Crystal structure-guided design of self-assembling RNA nano triangles · 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 5CNR · PDBe 5CNR

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