2017 Histone H3K4 methylation antibodies and relating products


1. Introuduction of H3K4me1, H3K4me2 and H3K4me3

H3K4 is relating to activities of chromatin-modifiting enzymes, chromatin, remodelers, and histone, deacetylases. H3K4 methylation and demythylases are evolutionarily conserved marks associated with transcriptionally active chromatin. There are three histone methylation states: monomethyl (me1), dimethyl (me2) or trimethyl (me3). In the case of H3K4 monomethylation, this mark is generally associated with active transcription. H3K4 dimethylation appears to be broadly associated with active and potentially active genes, while H3K4 trimethylation is primarily a mark associated with the start site of transcription (Bernstein et al., 2002; Krogan et al., 2003; Ng et al., 2003).
The functions of H3K4 vary a lot according to species, tissue, and cell types. Additionally, the regulators of H3K4 methylases and demethylases play important roles in executing H3K4 functions.


Check 2017 ChIP Validated Histone H3k4me antibodies. Epicypher validated Abcam OEM supplier:

More details about the supplier

Point 1
Validated Original manufacturer.

ABclonal Inc. is one of the original manufactures which is famous for its Epigenetics antibodies such as H3K4me antibody and H3K9me antibody. It is the long-term OEM supplier for many top10 antibody companies and we also visited their factory for double confirmation.

Point 2
Lot number management

Lot number is unique for each batch of antibody and it can be taken as identity number of antibody.  ABclonal has effective batch management and it helps you maximize the reproducibility. We will share everything about the antibodies basing on Lot number.

Point 3
Antibody validation for each batch.

ABclonal is performing strict antibody validation for each batch. WB, IHC, IF, DB and ChIP are performed to make sure each Histone antibody has strong specificity and no cross-reactivity for multiple applications. It is the only one of 52 Histone antibody suppliers which passed ChIP test by EpiCypher in 2017. (Paper to be published)



2. Regulators of H3K4me: writers, erasers, reads

In all methylation sites on histones, H3K4 is the most extensively targeted position by the largest number of writer and eraser enzymes.

  • Writers: histone lysine methyltransferases (KMTs), placing the methyl marks onto histones
  • Erasers: histone lysine demethylases (KDMs), remove the methyl marks from histones
  • Reads: recognize and reads H3K4me status.

 

H3K4me Writers Find antibody Introduction Reference
KMT2A  KMT2A antibody KMT2A regulates mono-, di-, and tri-methylated H3K4 through its SET domain and interactions with cofactors. It works both as transcriptional actors and repressors with the important reader structure of a cluster of three plant homeodomain (PHD) fingers (PHD1, PHD2, PHD3), located in the middle of the KMT2A molecule. https://www.ncbi.nlm.nih.gov/pubmed/16878130/
KMT2F   KMT2F (SETD1A) antibody KMT2F (also known as SET1, SETD1A) encodes an H3K4 writer enzyme capable of generating mono-, di-, and tri-methylation marks in vitro. Remarkably, KMT2F/G and Set1 appear to be responsible for bulk H3K4me3 in cells. https://www.ncbi.nlm.nih.gov/pubmed/21875999/
H3k4me Erasers Find antibody Introduction Reference
KDM1A KDM1A antibody-ChIP Grade KDM1A is an amine-oxidase type histone demethylase that is part of the CoREST (co RE1-silencing transcription factor) complex and specifically demethylates H3K4me2 in vitro. KDM1A associates with CoREST in pachytene spermatocytes , though it is unknown whether it also interacts with CoREST in other germ cells. KDM1A has also been shown to associate with the androgen receptor (AR) complex in the mouse testis. When associated with the AR complex in vitro, KDM1A has specificity for H3K9me2. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5428937/
KDM5B KDM5B antibody With the structure of an evolutionary conserved jumonji C-domain (JmjC), it can aim at mono-, di, and tri, methylated histone lysine residues such as H3K4 and catalyze demethlation of methylated histone lysines residues via an oxidative hydroxylation reaction mechanism. Meanwhile, the KDM5B also contains a N-terminal jumonji domain (JmjN), an ARID DNA-binding motif, a PLU1 motif, two or three methyl–lysine or methyl–arginine plant homeodomain (PHD) finger domains (PHD1, PHD2 and PHD3), and a C5CH2-type zinc finger domain (C-terminal helical zinc-binding domain) assisting its target and mediate demethylation. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5352456/
H3k4me Reader Find antibody Introduction Reference
PHF21A PHF21A antibody PHF21A (also known as BHC80) was the first reader molecule discovered to recognize unmethylated H3K4 (HeK4me0), introducing unmodified H3K4 as an important addition to the histone code in regulating chromatin state. Recognition of unmodified histone H3 tail by PHF21A PHD finger is specifically inhibited by H3K4 methylations. https://www.ncbi.nlm.nih.gov/pubmed/17687328/
PHF8 PHF8 antibody PHF8 was discovered to be a histone demethylase that mainly targets H3K9me1/2 and H4K20me1. Further studies identified that PHF8 contains a PHD finger that specifically recognizes H3K4me3. Thus, PHF8 represents an intriguing example of histone methylation crosstalk engaged in brain development. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4501478/

Reference

1. Bernstein BE, Humphrey EL, Erlich RL, Schneider R, Bouman P, Liu JS, Kouzarides T, Schreiber SL. Methylation of histone H3 Lys 4 in coding regions of active genes. Proc. Natl. Acad. Sci. USA. 2002;99:8695–8700.
2. Krogan NJ, Dover J, Wood A, Schneider J, Heidt J, Boateng MA, Dean K, Ryan OW, Golshani A, Johnston M, et al. The Paf1 complex is required for histone H3 methylation by COMPASS and Dot1p: linking transcriptional elongation to histone methylation. Mol. Cell. 2003a;11:721–729.
3. Ng HH, Robert F, Young RA, Struhl K. Targeted recruitment of Set1 histone methylase by elongating Pol II provides a localized mark and memory of recent transcriptional activity. Mol. Cell. 2003;11:709–719.