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Crystal structure of a B-form DNA duplex containing (L)-alpha- threofuranosyl (3'-2') nucleosides: a four-carbon sugar is easily accommodated into the backbone of DNA

Analyse Crystal structure of a B-form DNA duplex containing (L)-alpha- threofuranosyl… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1N1O
Type: DNA
Length: 22 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: 5'-D(*CP*GP*CP*GP*AP*AP*(TFT)P*TP*CP*GP*CP*G)-3'
Ligands: TFT, MG

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	5'-D(CPGPCPGPAPAP(TFT)PTPCPGPCPG)-3'	dna	11	—	—

Ligands and binding sites

TFT · (L)-alpha-threofuranosyl-thymine-3'-monophosphate · ligand · 2 copies · chains A, B
MG · Magnesium ion · metal · 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 · 562 Å² buried · 43 hydrogen bonds · nucleic-nucleic

Modifications

Observed in the structure: 4 covalent (covalent ligand).

Compared structures

1N1O · Crystal Structure of a B-form DNA Duplex Containing (L)-alpha-threofuranosyl (3'-2')… · 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 1N1O · PDBe 1N1O

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