Evidence map›Paper›PMID 23990460›Full record

ArticleThe Journal of biological chemistry2013

Functional specificity of CpG DNA-binding CXXC domains in mixed lineage leukemia.

Laurie E Risner, Aravinda Kuntimaddi, Alyson A Lokken, Nicholas J Achille, Noah W Birch, Kelly Schoenfelt, John H Bushweller, Nancy J Zeleznik-Le

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.

0numbers the graph read from it
0cells of the map it votes in
17citing papers in PubMed
1.6field-weighted citation impact, top 18% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

17 citing papers in PubMed, 31 citations in OpenAlex.

  1. Article
  2. Review
  3. Article
  4. Article
  5. Review
  6. Understanding the interplay between CpG island-associated gene promoters and H3K4 methylation.Biochimica et biophysica acta. Gene regulatory mechanisms · 2020
    Review
  7. Review
  8. Article
  9. Article
  10. Review
  11. Article
  12. SET/MLL family proteins in hematopoiesis and leukemia.International journal of hematology · 2017
    Review
  13. Article
  14. Review
  15. Article
  16. Review
  17. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

8 authors at 3 institutions in 1 country.

Laurie E RisnerFrom the Molecular Biology Program, Loyola University Medical Center, Maywood, Illinois 60153.
Aravinda Kuntimaddi
Alyson A Lokken
Nicholas J Achille
Noah W Birch
Kelly Schoenfelt
John H Bushweller
Nancy J Zeleznik-Le
Loyola University Medical Center · USUniversity of Virginia · USRadiation Oncology Institute · US

Funding

RETROVIRUS PACKAGING, CONCENTRATING AND TITERINGP01CA105049 · NCI · LOYOLA UNIVERSITY CHICAGO · PI DIAZ, MANUEL ORESTES · 2005 to 2009
$6.5M
Experimental Immunology Training GrantT32AI007508 · NIAID · LOYOLA UNIVERSITY CHICAGO · PI KNIGHT, KATHERINE L. · 1997 to 2022
$4.0M
Structure/Function of AF9 and MLL-AF9R01CA155328 · NCI · UNIVERSITY OF VIRGINIA · PI BUSHWELLER, JOHN HACKETT, HEMENWAY, CHARLES STANLEY · 2011 to 2015
$2.3M
Training in Molecular BiophysicsT32GM080186 · NIGMS · UNIVERSITY OF VIRGINIA · PI NAKAMOTO, ROBERT K. · 2008 to 2019
$1.5M
MLL in maintenance and regulation of HOX gene expressionR01HL087188 · NHLBI · LOYOLA UNIVERSITY CHICAGO · PI ZELEZNIK-LE, NANCY J · 2009 to 2012
$1.3M
Critical functions specified by the MLL CXXC domain determine leukemogenic capaciF30HL103208 · NHLBI · LOYOLA UNIVERSITY CHICAGO · PI BIRCH, NOAH WARREN · 2010 to 2012
$111k
NCI NIH HHS CA105049NCI NIH HHS P01 CA105049NCI NIH HHS R01 CA155328NHLBI NIH HHS 1F30HL103208-01NHLBI NIH HHS F30 HL103208NHLBI NIH HHS HL087188NHLBI NIH HHS R01 HL087188NIAID NIH HHS T32 AI007508NIAID NIH HHS T32 AI007508-11A1NIGMS NIH HHS T32 GM080186
6 · The paper itself

Abstract

The MLL CXXC domain binds nonmethylated CpG-containing DNA and is essential for the oncogenic properties of MLL fusion proteins. To determine potential functional promiscuity of similar DNA binding domains, we replaced the MLL CXXC domain in the context of the leukemogenic MLL-AF9 fusion with CXXC domains from DNMT1, CGBP (CFP1), and MBD1, or with a methyl-CpG-binding domain (MBD) from MBD1. MLL(DNMT1 CXXC)-AF9 shows robust in vitro colony forming activity and in vivo leukemogenesis, similar to MLL-AF9. However, colony forming ability and leukemogenicity are abrogated in MLL-AF9 containing either the CGBP or MBD1 CXXC domains or the MBD1 MBD domain. Direct comparison of in vitro DNA binding affinity of the isolated CXXC or MBD domains demonstrated that MLL, DNMT1, and CGBP CXXC domains could each bind to unmethylated DNA but with differing affinity. In contrast, the isolated MBD1 CXXC and MBD1 MBD domains were unable to bind to the same DNA. However, all substituted domains still allowed targeting of the MLL fusions to the functionally important Hoxa9 locus in primary bone marrow progenitor cells. In addition to DNA binding activity, it was critical that specific CpG residues in the Hoxa9 locus were protected from methylation for leukemia development. This ultimately prevented histone 3 lysine 9 trimethylation (H3K9me3) of the locus and enabled Hoxa9 expression. These were properties shared by MLL and DNMT1 CXXC domains but not by CGBP CXXC or the other swapped fusions tested. We demonstrate that similar CXXC domains can be mechanistically distinguished by specificity of CpG nucleotides preferentially protected from DNA methylation.

Indexed as

CpG IslandsAmino Acid SequenceAnimalsBinding SitesCell LineCells, CulturedChromatin ImmunoprecipitationDNADNA-Binding ProteinsDNA (Cytosine-5-)-Methyltransferase 1DNA (Cytosine-5-)-MethyltransferasesDNA MethylationHistone-Lysine N-MethyltransferaseHistonesHomeodomain ProteinsHumansDNADNA-Binding ProteinsDNA (Cytosine-5-)-Methyltransferase 1DNA (Cytosine-5-)-MethyltransferasesDNMT1 protein, humanDnmt1 protein, mouseHistone-Lysine N-MethyltransferaseHistoneshomeobox protein HOXA9Homeodomain ProteinsKMT2A protein, humanLysineMBD1 protein, humanMLL-AF9 fusion protein, humanMyeloid-Lymphoid Leukemia ProteinOncogene Proteins, FusionTranscription FactorsChromatin Histone ModificationChromatin RegulationCXXC DomainDNA MethyltransferaseEpigeneticsLeukemiaMLL

Identifiers

PMID23990460
PMCPMC3795288
OpenAlexW2040352541

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.