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Crystal structure of tricyclo-DNA: an unusual compensatory change of two adjacent backbone torsion angles

Analyse Crystal structure of tricyclo-DNA: an unusual compensatory change of two… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2RF3
Type: DNA
Length: 24 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 5'-D(CGCG(TCY)ATTCGCG)-3'
Ligands: SPM, ZN

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	5'-D(CGCG(TCY)ATTCGCG)-3'	dna	12	—	—

Ligands and binding sites

SPM · Spermine · ligand · chains A, B
ZN · Zinc ion · metal · chains B

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

Interfaces

1 interface between chains.

A–B · 473 Å² buried · 46 hydrogen bonds · nucleic-nucleic

Modifications

Observed in the structure: 2 modified (nucleotide modification).

Compared structures

2RF3 · Crystal Structure of Tricyclo-DNA: An Unusual Compensatory Change of Two Adjacent… · 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 2RF3 · PDBe 2RF3

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