MolNFT v1 · #3817 · DNA

Base specific binding of COPPER(II) to Z-DNA: the 1.3- ångströms single crystal structure of D(M5CGUAM5CG) in the presence of CUCL2

1D40 · DNA (5'-D(*(5CM)P*(CU)GP*UP*AP*(5CM)P*(CU)G)-3'): “Base specific binding of COPPER(II) to Z-DNA: the 1.3- ångströms single crystal structure of D(M5CGUAM5CG) in…”. X-ray diffraction, 2 ligands (CUL, CU). MolNFT v1 #3817 on…

PDB: 1D40
Type: DNA
Length: 12 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA (5'-D(*(5CM)P*(CU)GP*UP*AP*(5CM)P*(CU)G)-3')
Ligands: CUL, CU

Structure

x-ray diffraction · 1 distinct chain.

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	DNA (5'-D((5CM)P(CU)GPUPAP(5CM)P(CU)G)-3')	dna	6	—	—

Ligands and binding sites

CUL · Copper (II) chloride · ligand · chains B
CU · Copper (II) ion · metal · 3 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 · 337 Å² buried · 28 hydrogen bonds · nucleic-nucleic

Modifications

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

Compared structures

1D40 · Base specific binding of COPPER(II) to Z-DNA: the 1.3-ångströms single crystal structure… · 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 1D40 · PDBe 1D40

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