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Solution structure of an RNA 2'-O-methylated RNA duplex containing an RNA/DNA hybrid segment at the center, NMR, minimized average structure

Analyse Solution structure of an RNA 2'-O-methylated RNA duplex containing an RNA/DNA… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1NAO
Type: RNA
Length: 18 nucleotides
Chains: 2
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA (5'-R(*GP*GP*AP*GP*AP*UP*GP*AP*C)-3'); DNA/RNA (5'-R(*OMGP*OMUP*OMC)-D(P*AP*TP*CP*T)…
Pockets: 1 · best druggability 0.24

Structure

solution nmr · 2 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	RNA (5'-R(GPGPAPGPAPUPGPAP*C)-3')	rna	9	—	—
B	DNA/RNA (5'-R(OMGPOMUPOMC)-D(PAPTPCPT)- R(POMCP*OMC)-3')	rna	9	—	—

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	58	0.24	0.72	10	empty

Interfaces

1 interface between chains.

A–B · 423 Å² buried · 42 hydrogen bonds · nucleic-nucleic

Modifications

Observed in the structure: 5 modified (nucleotide modification).

Compared structures

1NAO · Solution structure of an RNA 2'-O-methylated RNA duplex containing an RNA/DNA hybrid… · the same entry in another collection · chain A against A, TM-score 1.00

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Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Elsewhere: RCSB PDB 1NAO · PDBe 1NAO

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