Jumonji domain containing histone demethylases. Medical search. Frequent questions

Chromatin-bound KGDH catalyzes α-KG decarboxylation and thus may limit its local availability to KGDH-coupled JMJs, inhibiting histone demethylation. (bvsalud.org)
Jumonji (JmjC) domain proteins (see Jarid2 ) influence gene expression and chromatin organization by way of histone demethylation, which provides a means to regulate the activity of genes across the genome. (sdbonline.org)
FBXL10 is a conserved and ubiquitously expressed member of the JmjC domain-containing histone demethylase family and is implicated in the demethylation of H3K4me3 and H3K36me2 and thereby removing active chromatin marks. (uni-luebeck.de)
The JumonjiC (JmjC)-containing histone demethylases (HDMs) catalyze the demethylation of methylated lysine residues on histone tails. (ox.ac.uk)
Reconstitution of nucleosome demethylation and catalytic properties of a Jumonji histone demethylase. (ucsf.edu)
2006). Emerging evidences indicate that they also catalyze demethylation reaction on the arginine residues and proteolytic removal of histone tails. (jmcb.info)
KDM5A-mediated histone H3 lysine 4 demethylation contributes to silencing of retinoblastoma target genes (Chicas et al. (atlasgeneticsoncology.org)
Histone methylation and demethylation regulate genes, either by relaxing histone tails to permit transcription factors and other proteins to contact the DNA, or by wrapping histone tails around the DNA, thereby blocking access. (encyclopedia.pub)

This gene is a member of the SMCY homolog family and encodes a protein with one ARID domain, one JmjC domain, one JmjN domain and two PHD-type zinc fingers. (novusbio.com)
The JmjN and JmjC domains are two non-adjacent domains which have been identified in the jumonji family of transcription factors. (embl-heidelberg.de)
Based on the crystal structure of JmjC domain containing protein FIH and JHDM3A/JMJD2A, the JmjC domain forms an enzymatically active pocket that coordinates Fe(III) and alphaKG. (embl-heidelberg.de)
There are 36166 JmjC domains in 36140 proteins in SMART's nrdb database. (embl-heidelberg.de)
Taxonomic distribution of proteins containing JmjC domain. (embl-heidelberg.de)
The complete taxonomic breakdown of all proteins with JmjC domain is also avaliable . (embl-heidelberg.de)
Click on the protein counts, or double click on taxonomic names to display all proteins containing JmjC domain in the selected taxonomic class. (embl-heidelberg.de)
In 2005 it was predicted that there exists a second class of histone demethylases that contain a jumonji C (Jmjc) website (19) a motif present in many proteins that are known to regulate transcription. (sciencepop.org)
The recognition of the amino oxidase LSD1 and of the Jmjc domain-containing hydroxylases demonstrates that histone methylation is normally reversible and dynamically controlled (23). (sciencepop.org)
the E-value for the JmjC domain shown below is 5.22e-47. (embl.de)
Jumonji domain (JmjC)-containing proteins have been characterized as lysine demethylases (KDMs) in a certain degree (Klose et al. (jmcb.info)
Linking of 2-oxoglutarate and substrate binding sites enables potent and highly selective inhibition of JmjC histone demethylases. (ox.ac.uk)

Compared to fungal and moss NAS that comprise merely a core-NAS domain (class III), NA biosynthetic activities of the four paralogous Arabidopsis thaliana NAS proteins were far lower. (bvsalud.org)
No detectable NA biosynthesis was mediated by two representative plant NAS proteins that naturally lack the C-terminal domain, class Ia Arabidopsis halleri NAS5 and Medicago truncatula NAS2 of class II which is found in dicots and diverged early during the evolution of flowering plants. (bvsalud.org)
5 4 Succinate functions as a competitive inhibitor for prolyl hydroxylase domain (PHD) proteins that are central to degradation of hypoxia-inducible factor (HIF)-1α subunit. (haematologica.org)
Histone demethylase proteins alter transcription by regulating the chromatin state at specific gene loci. (uni-luebeck.de)
The F-box proteins are divided into 3 classes: Fbws containing WD-40 domains, Fbls containing leucine-rich repeats, and Fbxs containing either different protein-protein interaction modules or no recognizable motifs. (thermofisher.cn)
As well as these single-domain cupins, this survey has identified other classes of two-domain bicupins including bacterial gentisate 1, 2-dioxygenases and 1-hydroxy-2-naphthoate dioxygenases, fungal oxalate decarboxylases, and legume sucrose-binding proteins. (embl-heidelberg.de)
Histone modifications such as acetylation phosphorylation and methylation are switches that alter chromatin structure to form a binding platform for downstream "effector" proteins to allow transcriptional activation or repression (24). (sciencepop.org)
This entry represents the PHD (homeodomain) zinc finger domain [ ( PUBMED:7701562 ) ], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. (embl.de)
There are 144042 PHD domains in 86307 proteins in SMART's nrdb database. (embl.de)
Taxonomic distribution of proteins containing PHD domain. (embl.de)
The PHD finger and the bromodomain are small protein domains that occur in many proteins associated with phenomena related to chromatin. (embl.de)
Histone methylation is a three-step process that includes the integral roles of "writers", or histone methyltransferases (HMTs), "readers," or histone methylation-recognizing proteins, and "erasers," or histone demethylases (HDMs). (encyclopedia.pub)
Jumonji domain containing protein 6 (Jmjd6) modulates splicing and specifically interacts with arginine-serine-rich (RS) domains of SR- and SR-like proteins. (ox.ac.uk)
We describe further evidence for the role of Jmjd6 in the regulation of pre-mRNA processing including interactions of Jmjd6 with multiple arginine-serine-rich (RS)-domains of SR- and SR-related proteins including U2AF65, Luc7-like protein 3 (Luc7L3), SRSF11 and Acinus S', but not with the bona fide RS-domain of SRSF1. (ox.ac.uk)
Jmjd6 (jumonji-domain-containing protein 6) is an Fe(II)- and 2OG (2-oxoglutarate)-dependent oxygenase that catalyses hydroxylation of lysine residues in proteins involved in pre-mRNA splicing. (ox.ac.uk)
Jmjd6 with the polyS domain deleted also interacts with nucleolar proteins. (ox.ac.uk)

FUNCTION: This gene encodes a lysine-specific histone demethylase that belongs to the jumonji/ARID domain-containing family of histone demethylases. (utsouthwestern.edu)

Jumonji domain containing 1C is a protein that in humans is encoded by the JMJD1C gene. (wikipedia.org)

The bromodomain has been shown to bind acetylated lysine residues on histone tails. (embl.de)
Distinct forms of histone modifications have been found at 130 different residues on the core and linker histones [ 31 ] . (encyclopedia.pub)

A selective jumonji H3K27 demethylase inhibitor modulates the proinflammatory macrophage response. (aacrjournals.org)
In general methylation of histone H3 lysine 9 (H3K9) H3K27 or H4K20 is definitely linked to formation of tightly packed chromatin and gene silencing whereas methylation on H3K4 H3K36 and H3K79 is definitely associated with actively transcribed areas and gene activation lithospermic acid (9). (sciencepop.org)
Somatic mutations of the histone H3K27 demethylase gene UTX in human cancer. (ox.ac.uk)

Regulation of Jumonji-domain-containing histone demethylases by hypoxia-inducible factor (HIF)-1alpha. (ox.ac.uk)

Histone H3 binding to the PHD1 domain of histone demethylase KDM5A enables active site remodeling. (ucsf.edu)
Histone demethylase KDM5A is regulated by its reader domain through a positive-feedback mechanism. (ucsf.edu)
The KDM5A (JARID1A) sequence starting with exon 28 still contains the sequence encoding the C-terminal PHD domain. (atlasgeneticsoncology.org)

Structural investigations of the nickel-induced inhibition of truncated constructs of the JMJD2 family of histone demethylases using X-ray absorption spectroscopy. (umassmed.edu)

Polycomb Repressive Complex 2 (PRC2), a component of the Polycomb machinery, is responsible for the methylation of histone H3 lysine 27 (H3K27me2/3). (sdbonline.org)

Our results show that many of these genes are regulated by hypoxia and define two groups of histone demethylases as new classes of hypoxia-regulated genes. (ox.ac.uk)
Results in deregulation of HOXA genes through recruitment of the histone acetyltransferase CBP / p300 (Thiollier et al. (atlasgeneticsoncology.org)

Two of the unsolved but important questions in epigenetics are whether arginine demethylases (RDMs) exist and whether proteolytic cleavage of the histone tails and subsequent histone remodeling are a major epigenetic modification process. (jmcb.info)

The inhibitor derives from a structure-based design and preferentially inhibits the subfamily of trimethyl lysine demethylases. (ox.ac.uk)
The lysine-specific demethylase 6 (KDM6) subfamily includes ubiquitously transcribed tetratricopeptide repeat, X chromosome (UTX, also known as KDM6A) and jumonji domain containing 3 (JMJD3, also known as KDM6B), which specifically remove the repressive histone H3 lysine 27 trimethyl (H3K27me3) mark. (aacrjournals.org)

Patterns of induction were consistent across a range of cell lines with JMJD1A (where JMJD is Jumonji-domain containing) and JMJD2B demonstrating robust, and JMJD2C more modest, up-regulation by hypoxia. (ox.ac.uk)
Given the importance of histone methylation status in defining patterns of gene expression under different physiological and pathophysiological conditions, these findings predict a role for the HIF system in epigenetic regulation. (ox.ac.uk)
Succinate further inhibits several dioxygenases involved in epigenetic regulation like ten-eleven translocation methylcytosine dioxygenase (TET) and jumonji C domain-containing histone lysine demethylases (JMJD3). (haematologica.org)
Modulation of histone lysine methylation is crucial for regulation of chromatin structure and gene expression and is frequently deregulated in cancer. (aacrjournals.org)
Epigenetic regulation is maintained via post-translational modifications of core histones. (ox.ac.uk)
Covalent modifications to histones play important roles in chromatin dynamics and the regulation of gene expression. (ox.ac.uk)
and regulation of histone methylation. (zfin.org)

Histone demethylases are the most recent family of histone-modifying enzymes discovered. (ox.ac.uk)
The identification of selective small-molecule inhibitors of histone demethylases would provide insight into the activity and cellular functions of these enzymes and also establish potential avenues for reversing pathologic epigenetic states. (aacrjournals.org)
To discover new inhibitors for the KDM4 demethylases, enzymes overexpressed in several cancers, we docked a library of 600,000 fragments into the high-resolution structure of KDM4A. (ox.ac.uk)
Cloned and expressed a number of lysine methyltransferase enzymes (KMTs), 5 Essex Court Chambers & Partners making use of its proprietary Combinatorial Domain Searching (CDH) technology. (humlalitkala.com)
To further elucidate the mechanisms regulating PR isoform expression in the human uterus at labour, we have (i) determined the methylation profile of the cytosine-guanine dinucleotides (CpG) island in the promoter region of the PR gene and (ii) identified the histone-modifying enzymes that target the H3K4me3 mark at the PR promoters in term and preterm human myometrial tissues obtained before and after labour onset. (edu.au)

Jmjd1C encodes a histone H3K9 demethylase. (wikipedia.org)

Immunocytochemical analyses was performed with specific antibodies to dJmj and tri-methylation at lysine 27 on histone H3 (H3K27me3). (sdbonline.org)

The H3K4 demethylase, Jumonji AT-rich interactive domain 1A (JARID1A), also bound to the PR-A, but not to the PR-B promoter prior to term labour, and decreased significantly at the onset of labour ( P = 0.014), providing a mechanism for the previously reported increase in H3K4me3 level and PR-A expression with labour. (edu.au)

Drosophila Jumonji/Jarid2 (dJmj) has been identified as a component of Polycomb repressive complex 2. (sdbonline.org)
KIAA1718 is a histone demethylase for repressive methyl marks. (cancer-research-network.com)

Histone methylations are important chromatin marks that regulate gene expression, genomic stability, DNA repair, and genomic imprinting. (ox.ac.uk)
We found that the tricarboxylic acid cycle-associated enzyme α-ketoglutarate (α-KG) dehydrogenase (KGDH) entered the nucleus, where it interacted with various JMJs to regulate α-KG-dependent histone demethylations by JMJs, and thus controlled genome-wide gene expression in plants. (bvsalud.org)

Nickel ions inhibit histone demethylase JMJD1A and DNA repair enzyme ABH2 by replacing the ferrous iron in the catalytic centers. (umassmed.edu)
Kruidenier and colleagues solved the crystal structure of the JMJD3 catalytic domain in complex with an H3K27me3 peptide and used the insights into interactions required for substrate specificity and recognition to guide the optimization of weak inhibitors discovered in a screen of 2 million compounds. (aacrjournals.org)
The lead compound, GSK-J1, competed with enzymatic cofactors and interacted with the catalytic metal ion at 2 sites to induce a shift in its position, suggesting potential approaches for the further development of selective demethylase inhibitors. (aacrjournals.org)

Enzymatic and structural insights for substrate specificity of a household of jumonji histone lysine demethylases. (humlalitkala.com)

The histone demethylase JMJD2B is critical for p53-mediated autophagy and survival in Nutlin-treated cancer cells. (rush.edu)

Here, we report the characterization of a small-molecule inhibitor of Jumonji C domain-containing histone demethylases. (ox.ac.uk)
Its methyl ester prodrug, methylstat, selectively inhibits Jumonji C domain-containing his-tone demethylases in cells and may be a useful small-molecule probe of chromatin and its role in epigenetics. (ox.ac.uk)

Methylations on nucleosomal histones play fundamental roles in regulating eukaryotic transcription. (bvsalud.org)
Jumonji C domain-containing histone demethylases (JMJs) dynamically control the level of histone methylations. (bvsalud.org)

Functional coupling between writers, erasers and readers of histone and DNA methylation. (ucsf.edu)

Predicted to be part of histone methyltransferase complex. (zfin.org)
Chromatin immunoprecipitation revealed that the histone methyltransferase, SET and MYND domain-containing protein 3 (SMYD3), bound to the PR gene at significantly higher levels at the PR-A promoter compared with the PR-B promoter ( P (edu.au)

These structural insights provide a framework for future development of histone demethylase inhibitors. (aacrjournals.org)
Docking and Linking of Fragments To Discover Jumonji Histone Demethylase Inhibitors. (ox.ac.uk)
Inhibitors of Jumonji C domain-containing histone lysine demethylases overcome cisplatin and paclitaxel resistance in non-small cell lung cancer through APC/Cdh1-dependent degradation of CtIP and PAF15. (rush.edu)

Each changes can affect chromatin architecture yet the sum of these modifications may be the ultimate determinant of the chromatin state that regulates gene transcription (5 17 Histone methylation has been linked to transcriptional activation and repression (29). (sciencepop.org)
Lysine acetylation is one of several histone modifications that have been proposed to form the basis for a mechanism for recording epigenetically stable marks in chromatin, known as the histone code. (embl.de)
Cellular signals, both internal and external, are subjected to histone modifications. (encyclopedia.pub)

It is a candidate histone demethylase and is thought to be a coactivator for key transcription factors. (wikipedia.org)
Evidence of domain swapping within the jumonji family of transcription factors. (embl-heidelberg.de)
In addition, the signature has been identified within the N-terminal effector domain in a subgroup of bacterial AraC transcription factors. (embl-heidelberg.de)

The identification and characterization of a selective H3K27me3 inhibitor thus provides insight into the structural determinants and cellular roles of demethylase activity, which may benefit cancer epigenetic drug discovery efforts. (aacrjournals.org)

Here, we describe inactivating somatic mutations in the histone lysine demethylase gene UTX, pointing to histone H3 lysine methylation deregulation in multiple tumor types. (ox.ac.uk)

Histone Demethylases: Insights into Human" Encyclopedia , https://encyclopedia.pub/entry/45957 (accessed December 03, 2023). (encyclopedia.pub)

A selective inhibitor and probe of the cellular functions of Jumonji C domain-containing histone demethylases. (ox.ac.uk)
A structure-guided approach identified a selective inhibitor of H3K27me3 demethylases. (aacrjournals.org)

Several reports suggest that it can function as a protein-protein interacton domain and it was recently demonstrated that the PHD finger of p300 can cooperate with the adjacent BROMO domain in nucleosome binding in vitro. (embl.de)

Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. (embl.de)
In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. (embl.de)
KDM2A utilizes a zinc finger CxxC (ZF-CxxC) domain that preferentially recognizes nonmethylated CpG DNA, and binding is blocked when the CpG DNA is methylated, thus constraining KDM2A to nonmethylated CpG islands. (ox.ac.uk)

A domain family that is part of the cupin metalloenzyme superfamily. (embl-heidelberg.de)
the nucleobase-ascorbate transporter (nat) family includes members in nearly all domains of life. (liverpool.ac.uk)

Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. (embl.de)

We present here which the histone demethylase LSD1 is normally portrayed in neural stem cells and has an important function in neural stem cell proliferation. (sciencepop.org)
Figure 6 Downregulation of jumonji AT-rich interactive domain 1B (JARID1B) reduces tumorigenesis in glioma carcinogenesis, a xenograft model of glioma was established by implanting U251-pBabe and U251-pBabe-JARID1B cells subcutaneously into the right flanks of nude mice. (techuniq.com)
Figure 7 Jumonji AT-rich interactive domain 1B (JARID1B) promotes tumorigenesis in glioma cells and and enhanced glioma tumorigenesis in vivo . (techuniq.com)

Development of tool molecules that inhibit Jumonji demethylases allows for the investigation of cancer-associated transcription. (ox.ac.uk)
Previous studies have suggested that jumonji AT-rich interactive domain 1B (JARID1B) plays an important role in the genesis of some types of cancer, and it is therefore considered to be an important drug target protein. (techuniq.com)

The immunogen recognized by this antibody maps to a region between residue 1510 and the C-terminus (residue 1560) of human Jumonji, AT rich interactive domain 1C using the numbering given in entry NP_004178.2 (GeneID 8242). (novusbio.com)

Orthologous to human JARID2 (jumonji and AT-rich interaction domain containing 2). (zfin.org)

Thus, our results uncover a regulatory mechanism for histone demethylations by JMJs. (bvsalud.org)

Anatomy1

Chemicals and Drugs12

Phenomena and Processes4

Demethylation8

JmjC12

Proteins16

ARID1

Humans1

Residues2

H3K273

Hypoxia-induci1

KDM5A3

Inhibition1

Methylation of histone1

Genes2

Tails1

Subfamily2

Regulation7

Enzymes5

Encodes1

Lysine 271

JARID1A1

Repressive2

Gene expression2

Catalytic3

Substrate Specificity1

JMJD2B1

Small-molecule2

Methylations2

Erasers1

Methyltransferase2

Inhibitors3

Modifications3

Transcription Factors3

Roles1

Mutations1

Insights1

Selective2

Nucleosome1

Zinc3

Family2

Amino1

Cells3

Cancer2

Interactive domain1

Interaction domain1

Mechanism1