ISDA

Deposition Date 2005-06-30

Release Date 2005-07-26

Last Version Date 2024-05-01

Entry Detail

PDB ID:

2A5R

Keywords:

DNA

Title:

Complex of tetra-(4-n-methylpyridyl) porphin with monomeric parallel-stranded DNA tetraplex, snap-back 3+1 3' G-tetrad, single-residue chain reversal loops, GAG triad in the context of GAAG diagonal loop, C-MYC promoter, NMR, 6 struct.

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Method Details:

Experimental Method:

SOLUTION NMR

Conformers Calculated:

Conformers Submitted:

Selection Criteria:

structures with the least restraint violations

Download Validation Report

Macromolecular Entities

Polymer Type:polydeoxyribonucleotide
Molecule:5'-D(*TP*GP*AP*GP*GP*GP*TP*GP*GP*IP*GP*AP*GP*GP*GP*TP*GP*GP*GP*GP*AP*AP*GP*G)-3'
Chain IDs:A
Chain Length:24
Number of Molecules:1
Biological Source:Homo sapiens

Ligand Molecules

POH

Primary Citation

Small-molecule interaction with a five-guanine-tract G-quadruplex structure from the human MYC promoter.

Phan, A.T, Kuryavyi, V, Gaw, H.Y, Patel, D.J.Show

Nat.Chem.Biol. 1 167 173 (2005)

PMID: 16408022 DOI: 10.1038/nchembio723

Abstact

It has been widely accepted that DNA can adopt other biologically relevant structures beside the Watson-Crick double helix. One recent important example is the guanine-quadruplex (G-quadruplex) structure formed by guanine tracts found in the MYC (or c-myc) promoter region, which regulates the transcription of the MYC oncogene. Stabilization of this G-quadruplex by ligands, such as the cationic porphyrin TMPyP4, decreases the transcriptional level of MYC. Here, we report the first structure of a DNA fragment containing five guanine tracts from this region. An unusual G-quadruplex fold, which was derived from NMR restraints using unambiguous model-independent resonance assignment approaches, involves a core of three stacked guanine tetrads formed by four parallel guanine tracts with all anti guanines and a snapback 3'-end syn guanine. We have determined the structure of the complex formed between this G-quadruplex and TMPyP4. This structural information, combined with details of small-molecule interaction, provides a platform for the design of anticancer drugs targeting multi-guanine-tract sequences that are found in the MYC and other oncogenic promoters, as well as in telomeres.

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Protein

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Primary Citation of related structures