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Aliases for HMGN2 Gene

Aliases for HMGN2 Gene

  • High Mobility Group Nucleosomal Binding Domain 2 2 3 5
  • High Mobility Group Nucleosome-Binding Domain-Containing Protein 2 3 4
  • High-Mobility Group (Nonhistone Chromosomal) Protein 17 2 3
  • HMG17 3 4
  • High-Mobility Group Nucleosomal Binding Domain 2 2
  • Non-Histone Chromosomal Protein HMG-17 3
  • Nonhistone Chromosomal Protein HMG-17 3
  • High Mobility Group Protein N2 3

External Ids for HMGN2 Gene

Previous HGNC Symbols for HMGN2 Gene

  • HMG17

Previous GeneCards Identifiers for HMGN2 Gene

  • GC01M028726
  • GC01P025819
  • GC01P026031
  • GC01P026404
  • GC01P026406
  • GC01P026671
  • GC01P026800
  • GC01P025053

Summaries for HMGN2 Gene

Entrez Gene Summary for HMGN2 Gene

  • The protein encoded by this gene binds nucleosomal DNA and is associated with transcriptionally active chromatin. Along with a similar protein, HMGN1, the encoded protein may help maintain an open chromatin configuration around transcribable genes. The protein has also been found to have antimicrobial activity against bacteria, viruses and fungi. [provided by RefSeq, Oct 2014]

GeneCards Summary for HMGN2 Gene

HMGN2 (High Mobility Group Nucleosomal Binding Domain 2) is a Protein Coding gene. Diseases associated with HMGN2 include Limited Scleroderma. Among its related pathways are Chromatin Regulation / Acetylation. GO annotations related to this gene include poly(A) RNA binding and nucleosomal DNA binding. An important paralog of this gene is HMGN4.

UniProtKB/Swiss-Prot for HMGN2 Gene

  • Binds to the inner side of the nucleosomal DNA thus altering the interaction between the DNA and the histone octamer. May be involved in the process which maintains transcribable genes in a unique chromatin conformation (By similarity).

Gene Wiki entry for HMGN2 Gene

Additional gene information for HMGN2 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for HMGN2 Gene

Genomics for HMGN2 Gene

Regulatory Elements for HMGN2 Gene

Enhancers for HMGN2 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01H026691 3.2 FANTOM5 Ensembl ENCODE dbSUPER 56 +224.6 224647 12 MLX FEZF1 DMAP1 YY1 SLC30A9 ZNF143 SP3 NFYC ZC3H11A ZFP41 ARID1A HMGN2 LOC101928324 PIGV ACTG1P20 LOC101928728 GPN2 GPATCH3 TMEM222 LOC105376890
GH01H026618 2.1 FANTOM5 Ensembl ENCODE dbSUPER 83.1 +148.0 147985 4 FEZF1 DMAP1 YY1 ZNF416 ZNF143 ZNF548 SP3 ZFP41 MEF2D ZNF610 ARID1A HMGN2 ACTG1P20 GPN2 ZNF593 AHDC1 GPATCH3 RPS6KA1 SELENON LOC101928324
GH01H026121 2 FANTOM5 Ensembl ENCODE dbSUPER 65.2 -347.2 -347179 7 HDGF PKNOX1 ARNT SIN3A FEZF1 ZNF2 ZNF766 ZNF302 FOS REST ARID1A HMGN2 LOC101928324 ENSG00000261349 TRIM63 SYF2 GPN2 ZNF593 LOC101928728 RPL17P9
GH01H026274 2 FANTOM5 Ensembl ENCODE dbSUPER 53.3 -188.5 -188518 19 HNRNPUL1 HDGF PKNOX1 ARNT ARID4B SIN3A ZNF2 YY1 ZNF766 ZNF143 HMGN2 ARID1A LOC101928324 CD52 UBXN11 CEP85 GPN2 LIN28A NPM1P39 TRIM63
GH01H025995 1.5 ENCODE dbSUPER 52.9 -474.5 -474458 4 ZFP64 FEZF1 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 ZNF548 SP3 ZC3H11A ARID1A HMGN2 LOC101928324 SYF2 ENSG00000207302 ENSG00000261349 LOC101928728 GPN2 ZNF593 ENSG00000231953
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around HMGN2 on UCSC Golden Path with GeneCards custom track

Promoters for HMGN2 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000003559 389 2001 HDGF ARNT ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF766 ZNF143 ZNF207

Genomic Location for HMGN2 Gene

Chromosome:
1
Start:
26,472,411 bp from pter
End:
26,476,642 bp from pter
Size:
4,232 bases
Orientation:
Plus strand

Genomic View for HMGN2 Gene

Genes around HMGN2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
HMGN2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for HMGN2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for HMGN2 Gene

Proteins for HMGN2 Gene

  • Protein details for HMGN2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P05204-HMGN2_HUMAN
    Recommended name:
    Non-histone chromosomal protein HMG-17
    Protein Accession:
    P05204
    Secondary Accessions:
    • Q0VGD5
    • Q6FGI5
    • Q96C64

    Protein attributes for HMGN2 Gene

    Size:
    90 amino acids
    Molecular mass:
    9393 Da
    Quaternary structure:
    No Data Available

neXtProt entry for HMGN2 Gene

Post-translational modifications for HMGN2 Gene

  • Phosphorylation favors cytoplasmic localization.
  • Ubiquitination at posLast=5959, posLast=6464, and posLast=8282
  • Modification sites at PhosphoSitePlus

Other Protein References for HMGN2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for HMGN2 Gene

Domains & Families for HMGN2 Gene

Gene Families for HMGN2 Gene

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

Protein Domains for HMGN2 Gene

Graphical View of Domain Structure for InterPro Entry

P05204

UniProtKB/Swiss-Prot:

HMGN2_HUMAN :
  • Belongs to the HMGN family.
Family:
  • Belongs to the HMGN family.
genes like me logo Genes that share domains with HMGN2: view

Function for HMGN2 Gene

Molecular function for HMGN2 Gene

UniProtKB/Swiss-Prot Function:
Binds to the inner side of the nucleosomal DNA thus altering the interaction between the DNA and the histone octamer. May be involved in the process which maintains transcribable genes in a unique chromatin conformation (By similarity).

Phenotypes From GWAS Catalog for HMGN2 Gene

Gene Ontology (GO) - Molecular Function for HMGN2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003723 RNA binding IDA 22681889
GO:0005515 protein binding IPI 21044950
GO:0031492 nucleosomal DNA binding IEA --
genes like me logo Genes that share ontologies with HMGN2: view
genes like me logo Genes that share phenotypes with HMGN2: view

Animal Model Products

CRISPR Products

miRNA for HMGN2 Gene

miRTarBase miRNAs that target HMGN2

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for HMGN2
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for HMGN2 Gene

Localization for HMGN2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for HMGN2 Gene

Nucleus. Cytoplasm. Note=Cytoplasmic enrichment upon phosphorylation.

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 HMGN2 gene
Compartment Confidence
extracellular 5
nucleus 5

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for HMGN2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000785 chromatin IEA --
GO:0005615 extracellular space IDA 16204630
GO:0005634 nucleus IDA 16204630
GO:0005737 cytoplasm IEA,IDA 16204630
genes like me logo Genes that share ontologies with HMGN2: view

Pathways & Interactions for HMGN2 Gene

genes like me logo Genes that share pathways with HMGN2: view

Pathways by source for HMGN2 Gene

1 Cell Signaling Technology pathway for HMGN2 Gene

SIGNOR curated interactions for HMGN2 Gene

Is inactivated by:

Gene Ontology (GO) - Biological Process for HMGN2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0031640 killing of cells of other organism IMP 16204630
genes like me logo Genes that share ontologies with HMGN2: view

Drugs & Compounds for HMGN2 Gene

(1) Drugs for HMGN2 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with HMGN2: view

Transcripts for HMGN2 Gene

Unigene Clusters for HMGN2 Gene

High mobility group nucleosomal binding domain 2:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for HMGN2
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for HMGN2 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b · 2c ^ 3a · 3b ^ 4 ^ 5
SP1: - -
SP2: -
SP3: -
SP4:
SP5:

Relevant External Links for HMGN2 Gene

GeneLoc Exon Structure for
HMGN2
ECgene alternative splicing isoforms for
HMGN2

Expression for HMGN2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for HMGN2 Gene

Protein differential expression in normal tissues from HIPED for HMGN2 Gene

This gene is overexpressed in Stomach (23.0), Peripheral blood mononuclear cells (18.4), and Urine (7.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for HMGN2 Gene



NURSA nuclear receptor signaling pathways regulating expression of HMGN2 Gene:

HMGN2

SOURCE GeneReport for Unigene cluster for HMGN2 Gene:

Hs.181163

Evidence on tissue expression from TISSUES for HMGN2 Gene

  • Blood(4.7)
  • Lung(4.7)
  • Nervous system(4.7)
  • Eye(4.5)
  • Liver(4.3)
  • Skin(4.3)
  • Intestine(4.1)
  • Pancreas(3.9)
  • Muscle(3.7)
  • Kidney(3.4)
  • Bone(3.3)
  • Bone marrow(2.5)
  • Lymph node(2.3)
  • Stomach(2.3)
  • Spleen(2.1)
  • Adrenal gland(2)
  • Heart(2)
  • Thyroid gland(2)
genes like me logo Genes that share expression patterns with HMGN2: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for HMGN2 Gene

Orthologs for HMGN2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for HMGN2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia HMGN2 33 34
  • 100 (n)
cow
(Bos Taurus)
Mammalia -- 34
  • 99 (a)
ManyToMany
mouse
(Mus musculus)
Mammalia Gm6594 34
  • 84 (a)
ManyToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 81 (a)
ManyToMany
dog
(Canis familiaris)
Mammalia -- 34
  • 72 (a)
ManyToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.6669 33
Species where no ortholog for HMGN2 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)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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)
  • zebrafish (Danio rerio)

Evolution for HMGN2 Gene

ENSEMBL:
Gene Tree for HMGN2 (if available)
TreeFam:
Gene Tree for HMGN2 (if available)

Paralogs for HMGN2 Gene

Paralogs for HMGN2 Gene

(1) SIMAP similar genes for HMGN2 Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for HMGN2 Gene

genes like me logo Genes that share paralogs with HMGN2: view

Variants for HMGN2 Gene

Sequence variations from dbSNP and Humsavar for HMGN2 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1055323 Likely benign 26,471,163(+) CAAGC(C/T)AGGTT upstream-variant-2KB, utr-variant-3-prime
rs12096239 Likely benign 26,470,431(+) CATGA(C/G)CCACC upstream-variant-2KB, utr-variant-3-prime
rs2290588 Likely benign 26,471,017(-) CCTGT(A/G)TACCT upstream-variant-2KB, utr-variant-3-prime
rs1057515473 Uncertain significance 26,471,126(+) TAGAA(C/T)TCGTG upstream-variant-2KB, utr-variant-3-prime
rs1057515508 Uncertain significance 26,470,836(+) GCAGA(A/G)CCCTA upstream-variant-2KB, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for HMGN2 Gene

Variant ID Type Subtype PubMed ID
nsv945842 CNV duplication 23825009
nsv947418 CNV duplication 23825009

Variation tolerance for HMGN2 Gene

Residual Variation Intolerance Score: 44.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.03; 0.72% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for HMGN2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
HMGN2

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for HMGN2 Gene

Disorders for HMGN2 Gene

MalaCards: The human disease database

(1) MalaCards diseases for HMGN2 Gene - From: DISEASES

Disorder Aliases PubMed IDs
limited scleroderma
  • limited cutaneous systemic sclerosis
- elite association - COSMIC cancer census association via MalaCards
Search HMGN2 in MalaCards View complete list of genes associated with diseases

Relevant External Links for HMGN2

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
HMGN2
genes like me logo Genes that share disorders with HMGN2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for HMGN2 Gene

Publications for HMGN2 Gene

  1. Serine ADP-Ribosylation Depends on HPF1. (PMID: 28190768) Bonfiglio JJ … Matic I (Molecular cell 2017) 3 4 60
  2. HMGN proteins act in opposition to ATP-dependent chromatin remodeling factors to restrict nucleosome mobility. (PMID: 19524541) Rattner BP … Kadonaga JT (Molecular cell 2009) 3 22 60
  3. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 60
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 60
  5. Regional fine mapping of HMG17 to chromosomal band 1p35. (PMID: 10640150) Kazmierczak B … Bullerdiek J (Cancer genetics and cytogenetics 2000) 3 22 60

Products for HMGN2 Gene

Sources for HMGN2 Gene

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