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Aliases for HNMT Gene

Aliases for HNMT Gene

  • Histamine N-Methyltransferase 2 3
  • EC 4 63
  • HMT 3 4
  • HNMT-S1 3
  • HNMT-S2 3

External Ids for HNMT Gene

Previous GeneCards Identifiers for HNMT Gene

  • GC02P136386
  • GC02P137029
  • GC02P138744
  • GC02P138932
  • GC02P138555
  • GC02P138438
  • GC02P130713

Summaries for HNMT Gene

Entrez Gene Summary for HNMT Gene

  • In mammals, histamine is metabolized by two major pathways: N(tau)-methylation via histamine N-methyltransferase and oxidative deamination via diamine oxidase. This gene encodes the first enzyme which is found in the cytosol and uses S-adenosyl-L-methionine as the methyl donor. In the mammalian brain, the neurotransmitter activity of histamine is controlled by N(tau)-methylation as diamine oxidase is not found in the central nervous system. A common genetic polymorphism affects the activity levels of this gene product in red blood cells. Multiple alternatively spliced transcript variants that encode different proteins have been found for this gene. [provided by RefSeq, Jul 2008]

GeneCards Summary for HNMT Gene

HNMT (Histamine N-Methyltransferase) is a Protein Coding gene. Diseases associated with HNMT include eosinophilia-myalgia syndrome and cortical blindness. Among its related pathways are Biological oxidations and Histidine metabolism. GO annotations related to this gene include histamine N-methyltransferase activity.

UniProtKB/Swiss-Prot for HNMT Gene

  • Inactivates histamine by N-methylation. Plays an important role in degrading histamine and in regulating the airway response to histamine

Tocris Summary for HNMT Gene

  • Histamine N-methyltransferase (HMT) catalyzes the metabolism of histamine. It is ubiquitously expressed and the level of this enzyme is a critical factor in airway responsiveness to histamine.

No data available for Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HNMT Gene

Genomics for HNMT Gene

Regulatory Elements for HNMT Gene

Genomic Location for HNMT Gene

137,964,020 bp from pter
138,016,364 bp from pter
52,345 bases
Plus strand

Genomic View for HNMT Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for HNMT Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HNMT Gene

Proteins for HNMT Gene

  • Protein details for HNMT Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Histamine N-methyltransferase
    Protein Accession:
    Secondary Accessions:
    • B2R9J3
    • Q546Z6
    • Q7Z7I2
    • Q8IU56
    • Q8WW98
    • Q9BRW6

    Protein attributes for HNMT Gene

    292 amino acids
    Molecular mass:
    33295 Da
    Quaternary structure:
    • Monomer.

    Three dimensional structures from OCA and Proteopedia for HNMT Gene

    Alternative splice isoforms for HNMT Gene


neXtProt entry for HNMT Gene

Proteomics data for HNMT Gene at MOPED

Post-translational modifications for HNMT Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for HNMT Gene

Antibody Products

  • R&D Systems Antibodies for HNMT (Histamine N-Methyltransferase/HNMT)

Domains for HNMT Gene

Protein Domains for HNMT Gene

Suggested Antigen Peptide Sequences for HNMT Gene

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the class I-like SAM-binding methyltransferase superfamily. HNMT family.
  • Belongs to the class I-like SAM-binding methyltransferase superfamily. HNMT family.
genes like me logo Genes that share domains with HNMT: view

No data available for Gene Families for HNMT Gene

Function for HNMT Gene

Molecular function for HNMT Gene

GENATLAS Biochemistry:
histamine N-methyltransferase,S-adenosyl-L-methionine dependent cytosolic enzyme
UniProtKB/Swiss-Prot CatalyticActivity:
S-adenosyl-L-methionine + histamine = S-adenosyl-L-homocysteine + N(tau)-methylhistamine.
UniProtKB/Swiss-Prot Function:
Inactivates histamine by N-methylation. Plays an important role in degrading histamine and in regulating the airway response to histamine

Enzyme Numbers (IUBMB) for HNMT Gene

Gene Ontology (GO) - Molecular Function for HNMT Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008170 N-methyltransferase activity --
GO:0046539 histamine N-methyltransferase activity IBA --
genes like me logo Genes that share ontologies with HNMT: view

Animal Model Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for HNMT

In Situ Assay Products

Flow Cytometry Products

No data available for Phenotypes , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for HNMT Gene

Localization for HNMT Gene

Subcellular locations from UniProtKB/Swiss-Prot for HNMT Gene


Subcellular locations from

Jensen Localization Image for HNMT Gene COMPARTMENTS Subcellular localization image for HNMT gene
Compartment Confidence
nucleus 4
cytosol 3
extracellular 1
mitochondrion 1

Gene Ontology (GO) - Cellular Components for HNMT Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus --
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IDA --
GO:0043005 neuron projection IBA --
GO:0070062 extracellular exosome IDA 19056867
genes like me logo Genes that share ontologies with HNMT: view

Pathways for HNMT Gene

genes like me logo Genes that share pathways with HNMT: view

Pathways by source for HNMT Gene

2 BioSystems pathways for HNMT Gene
1 KEGG pathway for HNMT Gene

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays

Interacting Proteins for HNMT Gene

Gene Ontology (GO) - Biological Process for HNMT Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002347 response to tumor cell IEA --
GO:0006972 hyperosmotic response IEA --
GO:0007420 brain development IBA --
GO:0007585 respiratory gaseous exchange TAS 7943261
GO:0014075 response to amine IEA --
genes like me logo Genes that share ontologies with HNMT: view

Compounds for HNMT Gene

(8) Drugbank Compounds for HNMT Gene

Compound Status Synonyms Cas Number PubChem ID Type Actions PubMed IDs
  • Amodiaquina
86-42-0 2165 Target inhibitor approved
  • 1,1'-Hexamethylene bis(5-(P-chlorophenyl)biguanide)
55-56-1 Enzyme inhibitor approved
Histamine Phosphate
  • 4-(2-Aminoethyl)imidazole bis(dihydrogen phosphate)
51-74-1 65513 Enzyme substrate approved
  • 2-Methoxy-6-chloro-9-diethylaminopentylaminoacridine
83-89-6 237 Enzyme inhibitor approved
5227 Target experimental

(5) Tocris Compounds for HNMT Gene

Compound Action Cas Number
(R)-PFI 2 hydrochloride Potent and selective SETD7 histone lysine methyltransferase inhibitor
(S)-PFI 2 hydrochloride Negative control of (R)-PFI 2 hydrochloride (Cat. No. 4892)
SGC 0946 Highly potent and selective DOT1L inhibitor; cell permeable
UNC 0642 Potent and selective G9a and GLP histone lysine methyltransferase inhibitor [1481677-78-4]
UNC 1999 Potent and selective EZH2/EZH1 histone lysine methyltransferase inhibitor [1431612-23-5]

(4) HMDB Compounds for HNMT Gene

Compound Synonyms Cas Number PubMed IDs
  • 1-Methyl-1H-imidazole-4-ethanamine
  • 1H-Imidazole-4-ethanamine
  • (S)-5'-(S)-(3-Amino-3-carboxypropyl)-5'-thioadenosine
  • (3S)-5'-[(3-amino-3-carboxypropyl)methylsulfonio]-5'-deoxyadenosine

(16) Novoseek inferred chemical compound relationships for HNMT Gene

Compound -log(P) Hits PubMed IDs
histamine 86.8 145
hydrazine 82.9 21
aminoquinoline 73.6 2
amodiaquine 57.1 3
thiopurine 54.8 4

(2) PharmGKB related drug/compound annotations for HNMT Gene

Drug/compound Annotation
anthracyclines and related substances CA
aspirin CA
genes like me logo Genes that share compounds with HNMT: view

Transcripts for HNMT Gene

Unigene Clusters for HNMT Gene

Histamine N-methyltransferase:
Representative Sequences:

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for HNMT

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for HNMT Gene

ExUns: 1 ^ 2a · 2b ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10
SP1: - - - -
SP2: -
SP3: - - -
SP4: -
SP5: - -

Relevant External Links for HNMT Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for HNMT Gene

mRNA expression in normal human tissues for HNMT Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues for HNMT Gene

This gene is overexpressed in Uterus (9.8) and Spleen (6.6).

Integrated Proteomics: protein expression from ProteomicsDB, MOPED, and MaxQB for HNMT Gene

SOURCE GeneReport for Unigene cluster for HNMT Gene Hs.42151

genes like me logo Genes that share expressions with HNMT: view

Expression partners for HNMT Gene

* - Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for HNMT Gene

Orthologs for HNMT Gene

This gene was present in the common ancestor of chordates.

Orthologs for HNMT Gene

Organism Taxonomy Gene Similarity Type Details
(Bos Taurus)
Mammalia HNMT 35
  • 89.38 (n)
  • 87.33 (a)
  • 87 (a)
(Canis familiaris)
Mammalia HNMT 35
  • 90.53 (n)
  • 87.67 (a)
  • 83 (a)
(Mus musculus)
Mammalia Hnmt 35
  • 86.76 (n)
  • 83.9 (a)
Hnmt 16
Hnmt 36
  • 83 (a)
(Pan troglodytes)
Mammalia HNMT 35
  • 99.54 (n)
  • 98.97 (a)
  • 99 (a)
(Rattus norvegicus)
Mammalia Hnmt 35
  • 86.3 (n)
  • 84.25 (a)
(Monodelphis domestica)
Mammalia HNMT 36
  • 69 (a)
(Ornithorhynchus anatinus)
Mammalia HNMT 36
  • 56 (a)
(Gallus gallus)
Aves HNMT 35
  • 67.58 (n)
  • 60.14 (a)
  • 60 (a)
(Anolis carolinensis)
Reptilia HNMT 36
  • 57 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia hnmt 35
  • 61.4 (n)
  • 58.08 (a)
African clawed frog
(Xenopus laevis)
Amphibia hnmt-prov 35
(Danio rerio)
Actinopterygii Dr.17340 35
hnmt 35
  • 55.37 (n)
  • 43.84 (a)
hnmt 36
  • 38 (a)
Species with no ortholog for HNMT:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for HNMT Gene

Gene Tree for HNMT (if available)
Gene Tree for HNMT (if available)

Paralogs for HNMT Gene

No data available for Paralogs for HNMT Gene

Variants for HNMT Gene

Polymorphic Variants from UniProtKB/Swiss-Prot for HNMT Gene

Variant Ile-105 has a reduced activity and seems to be linked with a predisposition to asthma

Sequence variations from dbSNP and Humsavar for HNMT Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type MAF
rs2187 -- 138,011,757(+) CTTTT(A/G)CCAAA intron-variant
rs973013 -- 138,000,583(-) AATTA(A/T)AATTT intron-variant
rs985322 -- 138,000,095(-) AGCAA(C/G)GCAGG intron-variant
rs991788 -- 138,004,990(-) TTAAA(A/G)ACGTT intron-variant
rs993891 -- 138,009,957(-) GGGTC(A/C)ATATT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for HNMT Gene

Variant ID Type Subtype PubMed ID
nsv7329 OTHER Inversion 18451855
nsv875159 CNV Gain 21882294
esv2671408 CNV Deletion 23128226
nsv875160 CNV Loss 21882294
esv34124 CNV Loss 18971310
nsv875161 CNV Loss 21882294
esv2513921 CNV Deletion 19546169

Relevant External Links for HNMT Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

Disorders for HNMT Gene

(1) OMIM Diseases for HNMT Gene (605238)

(1) University of Copenhagen DISEASES for HNMT Gene

(8) Novoseek inferred disease relationships for HNMT Gene

Disease -log(P) Hits PubMed IDs
nasal polyps 47.6 3
urticaria 38.6 1
asthma 37.3 12
allergic rhinitis 33.7 3
angioedema 31.8 1

Relevant External Links for HNMT

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
genes like me logo Genes that share disorders with HNMT: view

No data available for UniProtKB/Swiss-Prot and Genatlas for HNMT Gene

Publications for HNMT Gene

  1. Histamine N-methyltransferase pharmacogenetics: association of a common functional polymorphism with asthma. (PMID: 10803682) Yan L. … Weinshilboum R.M. (Pharmacogenetics 2000) 3 4 23 48
  2. Two polymorphic forms of human histamine methyltransferase: structural, thermal, and kinetic comparisons. (PMID: 11566133) Horton J.R. … Cheng X. (Structure 2001) 3 4 23
  3. Human histamine N-methyltransferase pharmacogenetics: gene resequencing, promoter characterization, and functional studies of a common 5'-flanking region single nucleotide polymorphism (SNP). (PMID: 12167489) Wang L. … Weinshilboum R. (Biochem. Pharmacol. 2002) 3 23 48
  4. Analysis of the C314T and A595G mutations in histamine N-methyltransferase gene in a Chinese population. (PMID: 12417108) Chen G.L. … Zhou H.H. (Clin. Chim. Acta 2002) 3 23 48
  5. Histamine N-methyltransferase gene polymorphisms in Chinese and their relationship with enzyme activity in erythrocytes. (PMID: 12835614) Chen G.L. … Zhou H.H. (Pharmacogenetics 2003) 3 23 48

Products for HNMT Gene

Sources for HNMT Gene

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