MolNFT v1 · #30325 · DNA

Base-pair opening and spermine binding-B-DNA features displayed in the crystal structure of a gal operon fragment: implications for protein-DNA recognition

206D · DNA (5'-D(*CP*GP*GP*TP*GP*G)-3'): “Base-pair opening and spermine binding-B-DNA features displayed in the crystal structure of a gal operon…”. X-ray diffraction, 1 ligand (SPM). MolNFT v1 #30325 on GenesisL1: 3D structure, binding…

PDB: 206D
Type: DNA
Length: 12 nucleotides
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: DNA (5'-D(*CP*GP*GP*TP*GP*G)-3'); DNA (5'-D(*CP*CP*AP*CP*CP*G)-3')
Ligands: SPM

Structure

x-ray diffraction · 2 distinct chains.

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

Ligands and binding sites

SPM · Spermine · ligand · 2 copies

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

Interfaces

1 interface between chains.

A–B · 314 Å² buried · 24 hydrogen bonds · nucleic-nucleic

Compared structures

206D · Base-pair opening and spermine binding-B-DNA features displayed in the 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 206D · PDBe 206D

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