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Crystal structure of 2'-O-ME(CGCGCG)2: an RNA duplex at 1.19 a resolution. 2-methyl-2,4-pentanediol and magnesium binding.

Analyse Crystal structure of 2'-O-ME(CGCGCG)2: an RNA duplex at 1.19 a resolution.… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1I7J
Type: RNA
Length: 12 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 5'-R(*(OMC)P*(OMG)P*(OMC)P*(OMG)P*(OMC)P*(OMG))- 3'
Ligands: MG

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	5'-R((OMC)P(OMG)P(OMC)P(OMG)P(OMC)P(OMG))- 3'	rna	6	—	—

Ligands and binding sites

MG · Magnesium ion · metal · 5 copies · chains A, B
MPD · (4S)-2-methyl-2,4-pentanediol · additive · 2 copies · chains A, B

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

Interfaces

1 interface between chains.

A–B · 332 Å² buried · 31 hydrogen bonds · nucleic-nucleic

Modifications

Observed in the structure: 12 modified (nucleotide modification).

Compared structures

1I7J · Crystal structure of 2'-O-ME(CGCGCG)2: an RNA duplex at 1.19 a resolution.… · 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 1I7J · PDBe 1I7J

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