ISDA: 6VGG

Deposition Date 2020-01-08

Release Date 2020-11-25

Last Version Date 2023-10-11

Entry Detail

PDB ID:

6VGG

Keywords:

TRANSCRIPTION

Title:

Crystal structure of the DNA binding domains of human transcription factor ERG, human Runx2 bound to core binding factor beta (Cbfb), and mithramycin, in complex with 16mer DNA CAGAGGATGTGGCTTC

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Escherichia coli BL21(DE3)

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

4.31 Å

R-Value Free:

0.28

R-Value Work:

0.25

R-Value Observed:

0.25

Space Group:

P 62 2 2

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Transcriptional regulator ERG
Gene (Uniprot):ERG
Chain IDs:A
Chain Length:128
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P11308 Pfam ID:PF00178

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (5'-D(P*CP*AP*GP*AP*GP*GP*AP*TP*GP*TP*GP*GP*CP*TP*TP*C)-3')
Chain IDs:B
Chain Length:16
Number of Molecules:1
Biological Source:Homo sapiens

Polymer Type:polydeoxyribonucleotide
Molecule:DNA (5'-D(P*GP*AP*AP*GP*CP*CP*AP*CP*AP*TP*CP*CP*TP*CP*TP*G)-3')
Chain IDs:C
Chain Length:16
Number of Molecules:1
Biological Source:Homo sapiens

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Runt-related transcription factor 2
Gene (Uniprot):RUNX2
Chain IDs:D
Chain Length:177
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q13950 Pfam ID:PF00853

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Core-binding factor subunit beta
Gene (Uniprot):CBFB
Chain IDs:E (auth: G)
Chain Length:156
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:Q13951 Pfam ID:PF02312

Ligand Molecules

QWP

Primary Citation

Allosteric interference in oncogenic FLI1 and ERG transactions by mithramycins.

Hou, C, Mandal, A, Rohr, J, Tsodikov, O.V.Show

Structure 29 404 412.e4 (2021)

PMID: 33275876 DOI: 10.1016/j.str.2020.11.012

Abstact

ETS family transcription factors of ERG and FLI1 play a key role in oncogenesis of prostate cancer and Ewing sarcoma by binding regulatory DNA sites and interfering with function of other factors. Mithramycin (MTM) is an anti-cancer, DNA binding natural product that functions as a potent antagonist of ERG and FLI1 by an unknown mechanism. We present a series of crystal structures of the DNA binding domain (DBD) of ERG/FLI1 culminating in a structure of a high-order complex of the ERG/FLI1 DBD, transcription factor Runx2, core-binding factor beta (Cbfβ), and MTM on a DNA enhancer site, along with supporting DNA binding studies using MTM and its analogues. Taken together, these data provide insight into allosteric mechanisms underlying ERG and FLI1 transactions and their disruption by MTM analogues.

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Primary Citation of related structures

Abstact

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