MolNFT v1 · #84967 · RNA

Crystal structure of a 16-mer RNA duplex with non-adjacent A(ANTI).G(SYN) mismatches

420D · RNA (5'- R(*GP*CP*AP*GP*AP*GP*UP*UP*AP*AP*AP*UP*CP*UP*GP*C)…: “Crystal structure of a 16-mer RNA duplex with non-adjacent A(ANTI).G(SYN) mismatches”. X-ray diffraction, 1 ligand (NA), 1 pocket (best druggability 0.29). MolNFT v1…

PDB: 420D
Type: RNA
Length: 32 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA (5'- R(*GP*CP*AP*GP*AP*GP*UP*UP*AP*AP*AP*UP*CP*UP*GP*C)-3')
Ligands: NA
Pockets: 1 · best druggability 0.29

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	RNA (5'- R(GPCPAPGPAPGPUPUPAPAPAPUPCPUPGPC)-3')	rna	16	—	—

Ligands and binding sites

NA · Sodium ion · metal · 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, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	103	0.29	0.72	14	empty

Interfaces

1 interface between chains.

A–B · 747 Å² buried · 71 hydrogen bonds · nucleic-nucleic

Compared structures

420D · Crystal structure of a 16-mer RNA duplex with non-adjacent A(ANTI).G(SYN) mismatches · 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 420D · PDBe 420D

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