MolNFT v1 · #35773 · DNA

The rare crystallographic structure of D(CGCGCG)2: the natural spermidine molecule bound to the minor groove of left-handed Z-DNA D(CGCGCG)2 at 10 degree celsius

2ELG · DNA (5'-D(*DCP*DGP*DCP*DGP*DCP*DG)-3'): “The rare crystallographic structure of D(CGCGCG)2: the natural spermidine molecule bound to the minor groove…”. X-ray diffraction, 3 ligands (SPD, MG, NA). MolNFT v1 #35773 on GenesisL1: 3D…

PDB: 2ELG
Type: DNA
Length: 12 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA (5'-D(*DCP*DGP*DCP*DGP*DCP*DG)-3')
Ligands: SPD, MG, NA

Structure

x-ray diffraction · 1 distinct chain.

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

Ligands and binding sites

SPD · Spermidine · ligand
MG · Magnesium ion · metal · 3 copies · chains A, B
NA · Sodium ion · metal · chains A

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

Interfaces

1 interface between chains.

A–B · 323 Å² buried · 24 hydrogen bonds · nucleic-nucleic

Compared structures

2ELG · The rare crystallographic structure of d(CGCGCG)2: The natural spermidine molecule bound… · 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 2ELG · PDBe 2ELG

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