1M1A: Ligand Binding Alters The Structure And Dynamics Of Nucleosomal Dna

Citation:
Abstract
We determined the crystal structures of three nucleosome core particles in complex with site-specific DNA-binding ligands, the pyrrole-imidazole polyamides. While the structure of the histone octamer and its interaction with the DNA remain unaffected by ligand binding, nucleosomal DNA undergoes significant structural changes at the ligand-binding sites and in adjacent regions to accommodate the ligands. Our findings suggest that twist diffusion occurs over long distances through tightly bound nucleosomal DNA. This may be relevant to the mechanism of ATP-dependent and spontaneous nucleosome translocation, and to the effect of bound factors on nucleosome dynamics.
PDB ID: 1M1ADownload
MMDB ID: 106031
PDB Deposition Date: 2002/6/18
Updated in MMDB: 2012/12
Experimental Method:
x-ray diffraction
Resolution: 2.65  Å
Source Organism:
Xenopus laevis
Similar Structures:
Biological Unit for 1M1A: decameric; determined by author
Molecular Components in 1M1A
Label Count Molecule
Proteins (8 molecules)
2
Histone H3.2
Molecule annotation
2
Histone H4
Molecule annotation
2
Histone H2a.1(Gene symbol: h2afx.L)
Molecule annotation
2
Histone H2b.1(Gene symbol: hist1h2bj.S)
Molecule annotation
Nucleotide(1 molecule)
2
Palindromic 146 Base Pair DNA Fragment
Molecule annotation
Chemicals (21 molecules)
1
10
2
2
3
6
4
1
5
1
6
1
* Click molecule labels to explore molecular sequence information.

Citing MMDB
.