Aliases for AGMAT Gene

Aliases for AGMAT Gene

  • Agmatinase 2 3 5
  • Agmatine Ureohydrolase (Agmatinase) 2 3
  • Agmatinase, Mitochondrial 3 4
  • EC 3.5.3.11 4 54
  • AUH 3 4
  • Agmatine Ureohydrolase 4
  • EC 3.5.3 54

External Ids for AGMAT Gene

Previous GeneCards Identifiers for AGMAT Gene

  • GC01M015296
  • GC01M015078
  • GC01M015050
  • GC01M015262
  • GC01M015261
  • GC01M015644
  • GC01M015772
  • GC01M015898
  • GC01M014418

Summaries for AGMAT Gene

GeneCards Summary for AGMAT Gene

AGMAT (Agmatinase) is a Protein Coding gene. Diseases associated with AGMAT include Dry Eye Syndrome. Among its related pathways are Metabolism and Arginine and proline metabolism. Gene Ontology (GO) annotations related to this gene include agmatinase activity. An important paralog of this gene is ARG2.

Gene Wiki entry for AGMAT Gene

Additional gene information for AGMAT Gene

No data available for Entrez Gene Summary , CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for AGMAT Gene

Genomics for AGMAT Gene

GeneHancer (GH) Regulatory Elements for AGMAT Gene

Promoters and enhancers for AGMAT Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J015583 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 770.6 +0.3 326 1.9 CTCF MLX RBPJ POLR2A NR2F1 NR2F6 MIXL1 MYC MAX MNT AGMAT CASP9 piR-39114 DNAJC16
GH01J015588 Promoter 0.6 EPDnew 750.6 -3.4 -3427 0.1 CC2D1A NFYC ZBTB33 CHAMP1 AGMAT RF00017-072 ENSG00000237301 DNAJC16
GH01J015522 Promoter/Enhancer 2.4 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 21.1 +59.8 59791 5.9 SP1 ZBTB40 SREBF1 LCORL FOXA1 RBPJ SMARCE1 POLR2A USF2 NR2F6 CASP9 DNAJC16 lnc-CASP9-4 SPEN ENSG00000237938 ZBTB17 AGMAT ENSG00000178715 CROCCP3 RPL22P3
GH01J015615 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 10.7 -33.3 -33253 5.4 ZNF785 SP1 ZBTB40 MLX SMARCE1 RBPJ POLR2A NR2F6 CREB1 HCFC1 DDI2 CROCCP3 ZBTB17 LINC01772 SPEN ENSG00000237938 PLEKHM2 NBPF1 AGMAT FBXO42
GH01J015678 Promoter/Enhancer 2.4 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 9.1 -97.4 -97370 8.2 ZBTB40 POLR2A ZNF362 HLF L3MBTL2 MNT TEAD4 NKRF ELF3 ZFX PLEKHM2 ENSG00000271742 CROCCP3 LINC01772 CASP9 SLC25A34 SPEN SZRD1 HSPB7 ZBTB17
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around AGMAT on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the AGMAT gene promoter:
  • AP-2gamma
  • Bach1
  • c-Ets-1
  • c-Myb
  • C/EBPalpha
  • En-1
  • S8
  • SEF-1 (1)
  • USF-1
  • USF1

Genomic Locations for AGMAT Gene

Genomic Locations for AGMAT Gene
chr1:15,571,699-15,585,110
(GRCh38/hg38)
Size:
13,412 bases
Orientation:
Minus strand
chr1:15,898,194-15,911,605
(GRCh37/hg19)
Size:
13,412 bases
Orientation:
Minus strand

Genomic View for AGMAT Gene

Genes around AGMAT on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
AGMAT Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for AGMAT Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for AGMAT Gene

Proteins for AGMAT Gene

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

    Protein Symbol:
    Q9BSE5-SPEB_HUMAN
    Recommended name:
    Agmatinase, mitochondrial
    Protein Accession:
    Q9BSE5
    Secondary Accessions:
    • Q5TDH1
    • Q9H5J3

    Protein attributes for AGMAT Gene

    Size:
    352 amino acids
    Molecular mass:
    37660 Da
    Cofactor:
    Name=Mn(2+); Xref=ChEBI:CHEBI:29035;
    Quaternary structure:
    No Data Available

neXtProt entry for AGMAT Gene

Selected DME Specific Peptides for AGMAT Gene

Q9BSE5:
  • ANLLFEMLC
  • RVVQIGIRGSS
  • LDPAYAPGTGTPEIAGLTP
  • RPGARFGP
  • QALEIIRGC

Post-translational modifications for AGMAT Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for AGMAT Gene

ENSEMBL proteins:
REFSEQ proteins:

Domains & Families for AGMAT Gene

Gene Families for AGMAT Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for AGMAT Gene

GenScript: Design optimal peptide antigens:
  • Agmatine ureohydrolase (SPEB_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9BSE5

UniProtKB/Swiss-Prot:

SPEB_HUMAN :
  • Belongs to the arginase family. Agmatinase subfamily.
Family:
  • Belongs to the arginase family. Agmatinase subfamily.
genes like me logo Genes that share domains with AGMAT: view

Function for AGMAT Gene

Molecular function for AGMAT Gene

UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=agmatine + H2O = putrescine + urea; Xref=Rhea:RHEA:13929, ChEBI:CHEBI:15377, ChEBI:CHEBI:16199, ChEBI:CHEBI:58145, ChEBI:CHEBI:326268; EC=3.5.3.11; Evidence=. ;.

Enzyme Numbers (IUBMB) for AGMAT Gene

Phenotypes From GWAS Catalog for AGMAT Gene

Gene Ontology (GO) - Molecular Function for AGMAT Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008783 agmatinase activity TAS --
GO:0016787 hydrolase activity IEA --
GO:0016813 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amidines IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with AGMAT: view
genes like me logo Genes that share phenotypes with AGMAT: view

Animal Model Products

  • Taconic Biosciences Mouse Models for AGMAT

CRISPR Products

miRNA for AGMAT Gene

miRTarBase miRNAs that target AGMAT

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for AGMAT

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for AGMAT Gene

Localization for AGMAT Gene

Subcellular locations from UniProtKB/Swiss-Prot for AGMAT Gene

Mitochondrion.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for AGMAT gene
Compartment Confidence
mitochondrion 5
peroxisome 1
cytosol 1

Gene Ontology (GO) - Cellular Components for AGMAT Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005739 mitochondrion TAS --
genes like me logo Genes that share ontologies with AGMAT: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for AGMAT Gene

Pathways & Interactions for AGMAT Gene

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

Pathways by source for AGMAT Gene

UniProtKB/Swiss-Prot Q9BSE5-SPEB_HUMAN

  • Pathway: Amine and polyamine biosynthesis; putrescine biosynthesis via agmatine pathway; putrescine from agmatine: step 1/1.

Gene Ontology (GO) - Biological Process for AGMAT Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008295 spermidine biosynthetic process IEA --
GO:0009446 putrescine biosynthetic process IEA --
GO:0033388 putrescine biosynthetic process from arginine IEA --
GO:0033389 putrescine biosynthetic process from arginine, using agmatinase IBA 21873635
GO:0097055 agmatine biosynthetic process TAS --
genes like me logo Genes that share ontologies with AGMAT: view

No data available for SIGNOR curated interactions for AGMAT Gene

Drugs & Compounds for AGMAT Gene

(11) Drugs for AGMAT Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Manganese Approved Nutra 48
Guanidine Approved Pharma 0
Urea Approved, Investigational Pharma 0
Water Approved Pharma 0
agmatine Experimental, Investigational Pharma Activator 0

(4) Additional Compounds for AGMAT Gene - From: HMDB and Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
N1-acetylspermine
  • N'-acetylspermine
  • N'-monoacetylspermine
  • N(1)-Acetylspermine
  • N-(3-((4-((3-Aminopropyl)amino)butyl)amino)propyl)-acetamide
  • N-Acetylspermine
25593-72-0
Norspermidine
  • 1,7-diamino-4-Azaheptane
  • 3,3'-Iminobis(propylamine)
  • 3,3'-Iminobispropylamine
  • 3,3'-Iminodi(propylamine)
  • 3,3-Diaminodipropylamine
56-18-8
genes like me logo Genes that share compounds with AGMAT: view

Transcripts for AGMAT Gene

mRNA/cDNA for AGMAT Gene

(1) REFSEQ mRNAs :
(7) Additional mRNA sequences :
(84) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for AGMAT

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

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7
SP1:
SP2: -

Relevant External Links for AGMAT Gene

GeneLoc Exon Structure for
AGMAT
ECgene alternative splicing isoforms for
AGMAT

Expression for AGMAT Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for AGMAT Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for AGMAT Gene

This gene is overexpressed in Kidney - Cortex (x24.3) and Liver (x12.3).

Protein differential expression in normal tissues from HIPED for AGMAT Gene

This gene is overexpressed in Kidney (49.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for AGMAT Gene



NURSA nuclear receptor signaling pathways regulating expression of AGMAT Gene:

AGMAT

SOURCE GeneReport for Unigene cluster for AGMAT Gene:

Hs.461532

mRNA Expression by UniProt/SwissProt for AGMAT Gene:

Q9BSE5-SPEB_HUMAN
Tissue specificity: Highly expressed in liver and kidney. Also found in skeletal muscle, fetal liver, brain, testis, skin and the gastrointestinal tract. Within brain, expression is higher in the cerebral cortex with lower levels in the medulla and spinal cord.

Evidence on tissue expression from TISSUES for AGMAT Gene

  • Kidney(4.6)
  • Liver(4.4)
genes like me logo Genes that share expression patterns with AGMAT: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for AGMAT Gene

Orthologs for AGMAT Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for AGMAT Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia AGMAT 33 32
  • 99.15 (n)
OneToOne
dog
(Canis familiaris)
Mammalia AGMAT 33 32
  • 87.88 (n)
OneToOne
cow
(Bos Taurus)
Mammalia AGMAT 33 32
  • 87.65 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia AGMAT 33
  • 87 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Agmat 17 33 32
  • 82.48 (n)
rat
(Rattus norvegicus)
Mammalia Agmat 32
  • 81.53 (n)
oppossum
(Monodelphis domestica)
Mammalia AGMAT 33
  • 70 (a)
OneToOne
chicken
(Gallus gallus)
Aves AGMAT 33 32
  • 73.77 (n)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia agmat 32
  • 70.99 (n)
zebrafish
(Danio rerio)
Actinopterygii agmat 33 32
  • 65.51 (n)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.6064 32
worm
(Caenorhabditis elegans)
Secernentea T21F4.1 33
  • 13 (a)
OneToOne
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F04235g 32
  • 44.98 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CAR1 33
  • 18 (a)
OneToMany
thale cress
(Arabidopsis thaliana)
eudicotyledons AT4G08900 32
  • 45.93 (n)
rice
(Oryza sativa)
Liliopsida Os04g0106300 32
  • 46.16 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 33
  • 65 (a)
OneToMany
-- 33
  • 58 (a)
OneToMany
Cin.395 32
bread mold
(Neurospora crassa)
Ascomycetes NCU01348 32
  • 47.96 (n)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC11D3.09 32
  • 46.94 (n)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.395 32
Species where no ortholog for AGMAT was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for AGMAT Gene

ENSEMBL:
Gene Tree for AGMAT (if available)
TreeFam:
Gene Tree for AGMAT (if available)
Aminode:
Evolutionary constrained regions (ECRs) for AGMAT: view image

Paralogs for AGMAT Gene

Paralogs for AGMAT Gene

genes like me logo Genes that share paralogs with AGMAT: view

Variants for AGMAT Gene

Sequence variations from dbSNP and Humsavar for AGMAT Gene

SNP ID Clin Chr 01 pos Variation AA Info Type
rs1000486626 -- 15,584,341(-) A/AA intron_variant
rs1000558085 -- 15,581,527(-) T/C intron_variant
rs1001036171 -- 15,573,362(-) G/C 3_prime_UTR_variant
rs1001043178 -- 15,581,326(-) G/T intron_variant
rs1001088608 -- 15,573,524(-) C/T 3_prime_UTR_variant

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

Variant ID Type Subtype PubMed ID
esv3577747 CNV loss 25503493

Variation tolerance for AGMAT Gene

Residual Variation Intolerance Score: 56.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.38; 81.72% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for AGMAT Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
AGMAT

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for AGMAT Gene

Disorders for AGMAT Gene

MalaCards: The human disease database

(1) MalaCards diseases for AGMAT Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
dry eye syndrome
  • xerophthalmia
- elite association - COSMIC cancer census association via MalaCards
Search AGMAT in MalaCards View complete list of genes associated with diseases

Additional Disease Information for AGMAT

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with AGMAT: view

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

Publications for AGMAT Gene

  1. Cloning and characterization of human agmatinase. (PMID: 11914032) Iyer RK … Cederbaum SD (Molecular genetics and metabolism 2002) 2 3 4 23 56
  2. Cloning of human agmatinase. An alternate path for polyamine synthesis induced in liver by hepatitis B virus. (PMID: 11804860) Mistry SK … Morris SM (American journal of physiology. Gastrointestinal and liver physiology 2002) 2 3 4 23 56
  3. Human agmatinase is diminished in the clear cell type of renal cell carcinoma. (PMID: 14648699) Dallmann K … Walther R (International journal of cancer 2004) 2 3 23 56
  4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 43 56
  5. Genetic variants in nuclear-encoded mitochondrial genes influence AIDS progression. (PMID: 20877624) Hendrickson SL … O'Brien SJ (PloS one 2010) 3 43 56

Products for AGMAT Gene

Sources for AGMAT Gene