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Crystal structure analysis of the RNA dodecamer cgc-NF2- aauuggcg, with an incorporated 2,4-difluorotoluyl residue (NF2)

Analyse Crystal structure analysis of the RNA dodecamer cgc-NF2- aauuggcg, with an… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2Q1O
Type: RNA
Length: 48 nucleotides
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: RNA (5'-R(*CP*GP*CP*(NF2) P*AP*AP*UP*UP*GP*GP*CP*G)-3')
Pockets: 2 · best druggability 0.46

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D	RNA (5'-R(CPGPCP(NF2) PAPAPUPUPGPGPCPG)-3')	rna	12	—	—

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	253	0.46	0.73	21	empty
2	218	0.45	0.74	20	empty

Interfaces

2 interfaces between chains.

A–B · 602 Å² buried · 43 hydrogen bonds · nucleic-nucleic
C–D · 597 Å² buried · 41 hydrogen bonds · nucleic-nucleic

Modifications

Observed in the structure: 4 modified (nucleotide modification).

Compared structures

2Q1O · Crystal Structure Analysis of the RNA Dodecamer CGC-NF2-AAUUGGCG, with an Incorporated… · 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 2Q1O · PDBe 2Q1O

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