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The crystal structure of the trigonal decamer C-G-a-T-C-G- 6MEA-T-C-G: a B-DNA helix with 10.6 base-pairs per turn

Analyse The crystal structure of the trigonal decamer C-G-a-T-C-G- 6MEA-T-C-G: a B-DNA… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1DA3
Type: DNA
Length: 20 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA (5'-D(*CP*GP*AP*TP*CP*GP*(6MA)P*TP*CP*G)-3')
Ligands: MG, CL

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	DNA (5'-D(CPGPAPTPCPGP(6MA)PTPCPG)-3')	dna	10	—	—

Ligands and binding sites

MG · Magnesium ion · metal · 2 copies · chains B
CL · Chloride ion · ion · chains B

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

Interfaces

1 interface between chains.

A–B · 469 Å² buried · 51 hydrogen bonds · nucleic-nucleic

Modifications

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

Compared structures

1DA3 · The crystal structure of the trigonal decamer C-G-a-T-C-G-6MEA-T-C-G: a B-DNA helix with… · 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 1DA3 · PDBe 1DA3

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