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NMR structure of uridine bulged RNA duplex

Analyse NMR structure of uridine bulged RNA duplex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2K41
Type: RNA
Length: 17 nucleotides
Chains: 2
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA_(5'-R(*GP*UP*CP*GP*UP*GP*CP*UP*G)-3')_; RNA_(5'-R(*CP*AP*GP*CP*CP*GP*AP*C)-3')_
Pockets: 1 · best druggability 0.22

Structure

solution nmr · 2 distinct chains.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	RNA_(5'-R(GPUPCPGPUPGPCPUP*G)-3')_	rna	9	—	—
B	RNA_(5'-R(CPAPGPCPCPGPAPC)-3')_	rna	8	—	—

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	51	0.22	0.71	12	empty

Interfaces

1 interface between chains.

A–B · 419 Å² buried · 51 hydrogen bonds · nucleic-nucleic

Compared structures

2K41 · NMR structure of uridine bulged RNA duplex · 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 2K41 · PDBe 2K41

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