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Aliases for GLYR1 Gene

Aliases for GLYR1 Gene

  • Glyoxylate Reductase 1 Homolog 2 3 4 5
  • 3-Hydroxyisobutyrate Dehydrogenase-Like Protein 3 4
  • Putative Oxidoreductase GLYR1 3 4
  • Nuclear Protein Of 60 KDa 3 4
  • Nuclear Protein 60kDa 2 3
  • Nuclear Protein NP60 3 4
  • HIBDL 3 4
  • NP60 3 4
  • Glyoxylate Reductase 1 Homolog (Arabidopsis) 2
  • Cytokine-Like Nuclear Factor N-Pac 3
  • Cytokine-Like Nuclear Factor N-PAC 4
  • Nuclear Protein 60 KDa 3
  • EC 1.-.-.- 4
  • BM045 3
  • N-PAC 3

External Ids for GLYR1 Gene

Previous GeneCards Identifiers for GLYR1 Gene

  • GC16M004794
  • GC16M004855

Summaries for GLYR1 Gene

GeneCards Summary for GLYR1 Gene

GLYR1 (Glyoxylate Reductase 1 Homolog) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include methylated histone binding and phosphogluconate dehydrogenase (decarboxylating) activity. An important paralog of this gene is HIBADH.

UniProtKB/Swiss-Prot for GLYR1 Gene

  • Putative oxidoreductase that is recruited on chromatin and promotes KDM1B demethylase activity (PubMed:23260659). Recognizes and binds trimethylated 'Lys-36' of histone H3 (H3K36me3) (PubMed:20850016). Regulates p38 MAP kinase activity by mediating stress activation of p38alpha/MAPK14 and specifically regulating MAPK14 signaling (PubMed:16352664). Indirectly promotes phosphorylation of MAPK14 and activation of ATF2 (PubMed:16352664). The phosphorylation of MAPK14 requires upstream activity of MAP2K4 and MAP2K6 (PubMed:16352664).

Additional gene information for GLYR1 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for GLYR1 Gene

Genomics for GLYR1 Gene

GeneHancer (GH) Regulatory Elements for GLYR1 Gene

Promoters and enhancers for GLYR1 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
GH16J004845 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE 605.4 -2.3 -2276 7.6 HDGF SP1 ELF3 ZFX MNT CBFA2T2 NKRF POLR2A MLLT1 ZNF121 UBN1 GLYR1 SEPTIN12 ROGDI PPL ZNF500 NUDT16L1 ENSG00000262185 ALG1 SMIM22
GH16J004692 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE dbSUPER 9.9 +153.1 153110 4.3 SP1 ZFX MNT NKRF POLR2A FOS MYC ZBTB7A ZNF174 CREM NUDT16L1 ZNF500 CREBBP MGRN1 UBN1 ANKS3 EEF2KMT ALG1 GLYR1 HMOX2
GH16J004765 Promoter/Enhancer 1.9 FANTOM5 Ensembl ENCODE 10.7 +79.8 79759 4.5 ZNF652 SP1 ELF3 ZFX ZKSCAN8 MNT SIX5 NKRF POLR2A MLLT1 ZNF500 SEPTIN12 ROGDI C16orf71 ANKS3 CREBBP GLYR1 UBN1 SMIM22 SEC14L5
GH16J004914 Enhancer 1.2 Ensembl ENCODE dbSUPER 16 -69.0 -69032 3.3 ZNF121 CEBPG NFIB ZNF384 ZBTB33 ZIC2 CEBPA ZNF7 ZNF239 RUNX3 GLYR1 PPL UBN1 SEPTIN12 ZNF500 GC16P004899 LOC105371064 GC16M004952
GH16J004918 Enhancer 1.1 Ensembl ENCODE dbSUPER 15.8 -71.7 -71697 1.7 ZIC2 TARDBP PKNOX1 CTBP1 POLR2A ZNF217 DPF2 SIN3A MAZ RCOR1 SEPTIN12 GLYR1 PPL UBN1 ZNF500 GC16P004899 LOC105371064 GC16M004952
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around GLYR1 on UCSC Golden Path with GeneCards custom track

Genomic Locations for GLYR1 Gene

Genomic Locations for GLYR1 Gene
chr16:4,803,203-4,847,333
(GRCh38/hg38)
Size:
44,131 bases
Orientation:
Minus strand
chr16:4,853,204-4,897,343
(GRCh37/hg19)
Size:
44,140 bases
Orientation:
Minus strand

Genomic View for GLYR1 Gene

Genes around GLYR1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
GLYR1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for GLYR1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for GLYR1 Gene

Proteins for GLYR1 Gene

  • Protein details for GLYR1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q49A26-GLYR1_HUMAN
    Recommended name:
    Putative oxidoreductase GLYR1
    Protein Accession:
    Q49A26
    Secondary Accessions:
    • B4DL47
    • C9JJ40
    • C9JJ60
    • Q5U632
    • Q6P1Q2
    • Q6V3W7
    • Q9BTI1
    • Q9BXK2

    Protein attributes for GLYR1 Gene

    Size:
    553 amino acids
    Molecular mass:
    60547 Da
    Quaternary structure:
    • Interacts with MAPK14 (PubMed:16352664, Ref.18). Interacts with KDM1B at nucleosomes; this interaction stimulates H3K4me1 and H3K4me2 demethylation (PubMed:23260659).
    Miscellaneous:
    • The conserved NAD-binding sites and sequence similarity to plant dehydrogenases suggest that this protein may have oxidoreductase activity.

    Three dimensional structures from OCA and Proteopedia for GLYR1 Gene

    Alternative splice isoforms for GLYR1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for GLYR1 Gene

Post-translational modifications for GLYR1 Gene

  • Ubiquitination at posLast=211211, isoforms=2, 3, 4, 5495, isoforms=2, 3, 4, 5532, posLast=338338, isoforms=2, 3, 4, 5535, and posLast=335335
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for GLYR1 Gene

Domains & Families for GLYR1 Gene

Gene Families for GLYR1 Gene

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

Suggested Antigen Peptide Sequences for GLYR1 Gene

GenScript: Design optimal peptide antigens:
  • Cytokine-like nuclear factor n-pac, isoform CRA_c (D3DUE6_HUMAN)
  • Cytokine-like nuclear factor n-pac, isoform CRA_a (D3DUE7_HUMAN)
  • Nuclear protein of 60 kDa (GLYR1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q49A26

UniProtKB/Swiss-Prot:

GLYR1_HUMAN :
  • The A.T hook DNA-binding domain is required for the interaction with MAPK14.
  • Belongs to the HIBADH-related family. NP60 subfamily.
Domain:
  • The A.T hook DNA-binding domain is required for the interaction with MAPK14.
  • The PWWP domain probably mediates the binding to H3K36me3.
Family:
  • Belongs to the HIBADH-related family. NP60 subfamily.
genes like me logo Genes that share domains with GLYR1: view

Function for GLYR1 Gene

Molecular function for GLYR1 Gene

UniProtKB/Swiss-Prot Function:
Putative oxidoreductase that is recruited on chromatin and promotes KDM1B demethylase activity (PubMed:23260659). Recognizes and binds trimethylated 'Lys-36' of histone H3 (H3K36me3) (PubMed:20850016). Regulates p38 MAP kinase activity by mediating stress activation of p38alpha/MAPK14 and specifically regulating MAPK14 signaling (PubMed:16352664). Indirectly promotes phosphorylation of MAPK14 and activation of ATF2 (PubMed:16352664). The phosphorylation of MAPK14 requires upstream activity of MAP2K4 and MAP2K6 (PubMed:16352664).

Enzyme Numbers (IUBMB) for GLYR1 Gene

Phenotypes From GWAS Catalog for GLYR1 Gene

Gene Ontology (GO) - Molecular Function for GLYR1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0005515 protein binding IPI 23260659
GO:0016491 oxidoreductase activity IEA --
GO:0035064 methylated histone binding IDA,IBA 20850016
GO:0042393 histone binding IDA 23260659
genes like me logo Genes that share ontologies with GLYR1: view
genes like me logo Genes that share phenotypes with GLYR1: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for GLYR1

Clone Products

  • Applied Biological Materials (abm): Clones for GLYR1 - Now 50% OFF >
  • * GLYR1 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * GLYR1 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for GLYR1 Gene

Localization for GLYR1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for GLYR1 Gene

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 GLYR1 gene
Compartment Confidence
nucleus 5
cytosol 5
golgi apparatus 4
mitochondrion 1
endoplasmic reticulum 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (4)
  • Nuclear speckles (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for GLYR1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000786 nucleosome IDA 23260659
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA --
GO:0005794 Golgi apparatus IDA --
GO:0005829 cytosol IDA --
genes like me logo Genes that share ontologies with GLYR1: view

Pathways & Interactions for GLYR1 Gene

PathCards logo

SuperPathways for GLYR1 Gene

No Data Available

Gene Ontology (GO) - Biological Process for GLYR1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0055114 oxidation-reduction process IEA --
genes like me logo Genes that share ontologies with GLYR1: view

No data available for Pathways by source and SIGNOR curated interactions for GLYR1 Gene

Drugs & Compounds for GLYR1 Gene

No Compound Related Data Available

Transcripts for GLYR1 Gene

Unigene Clusters for GLYR1 Gene

Glyoxylate reductase 1 homolog (Arabidopsis):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for GLYR1

Clone Products

  • Applied Biological Materials (abm): Clones for GLYR1 - Now 50% OFF >
  • * GLYR1 as ready-to-use vector or virus: ORF | Lenti- | Retro- | Adeno- | AAV- | Protein Vector - Browse All
  • * GLYR1 tags and reporters available: His, HA, Myc, Flag, GFP, RFP, Luciferase - Browse All

Alternative Splicing Database (ASD) splice patterns (SP) for GLYR1 Gene

ExUns: 1 ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b · 5c ^ 6a · 6b ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11 ^ 12a · 12b ^ 13 ^ 14 ^ 15 ^ 16 ^ 17a · 17b ^ 18 ^ 19
SP1: - - - -
SP2: - - - - -
SP3: - - - - -
SP4: -
SP5: - - -
SP6: - - -
SP7:
SP8: -

Relevant External Links for GLYR1 Gene

GeneLoc Exon Structure for
GLYR1
ECgene alternative splicing isoforms for
GLYR1

Expression for GLYR1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for GLYR1 Gene

Protein differential expression in normal tissues from HIPED for GLYR1 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (13.0) and Blymphocyte (6.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for GLYR1 Gene



Protein tissue co-expression partners for GLYR1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of GLYR1 Gene:

GLYR1

SOURCE GeneReport for Unigene cluster for GLYR1 Gene:

Hs.387255

Evidence on tissue expression from TISSUES for GLYR1 Gene

  • Nervous system(4.8)
genes like me logo Genes that share expression patterns with GLYR1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for GLYR1 Gene

Orthologs for GLYR1 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for GLYR1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia GLYR1 35 34
  • 99.1 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia GLYR1 35
  • 98 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia GLYR1 35
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia GLYR1 35 34
  • 94.03 (n)
OneToOne
cow
(Bos Taurus)
Mammalia GLYR1 35 34
  • 92.89 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Glyr1 17 35 34
  • 92.87 (n)
rat
(Rattus norvegicus)
Mammalia Glyr1 34
  • 92.39 (n)
chicken
(Gallus gallus)
Aves GLYR1 35 34
  • 83.06 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia GLYR1 35
  • 90 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia glyr1 34
  • 73.66 (n)
zebrafish
(Danio rerio)
Actinopterygii glyr1 35 34
  • 73.93 (n)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG4747 35 34
  • 47.07 (n)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta GLYR1_ANOGA 34
  • 46.18 (n)
thale cress
(Arabidopsis thaliana)
eudicotyledons GLYR1 34
  • 52.25 (n)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.7476 34
rice
(Oryza sativa)
Liliopsida Os02g0562700 34
  • 55.63 (n)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.8517 35
  • 54 (a)
OneToOne
Species where no ortholog for GLYR1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • 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 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)
  • worm (Caenorhabditis elegans)

Evolution for GLYR1 Gene

ENSEMBL:
Gene Tree for GLYR1 (if available)
TreeFam:
Gene Tree for GLYR1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for GLYR1: view image

Paralogs for GLYR1 Gene

Paralogs for GLYR1 Gene

(2) SIMAP similar genes for GLYR1 Gene using alignment to 6 proteins:

  • GLYR1_HUMAN
  • K7EK70_HUMAN
  • K7ELL0_HUMAN
  • K7EMM8_HUMAN
  • K7EPU6_HUMAN
  • K7EQB2_HUMAN

Pseudogenes.org Pseudogenes for GLYR1 Gene

genes like me logo Genes that share paralogs with GLYR1: view

Variants for GLYR1 Gene

Sequence variations from dbSNP and Humsavar for GLYR1 Gene

SNP ID Clin Chr 16 pos Variation AA Info Type
rs1555500532 uncertain-significance, GLYR1-related condition 4,823,861(-) C/A coding_sequence_variant, missense_variant, non_coding_transcript_variant
rs17137286 benign, Kohlschutter's syndrome 4,802,891(-) G/A/C/T downstream_transcript_variant
rs186867384 uncertain-significance, Kohlschutter's syndrome 4,802,702(-) G/C
rs369808296 uncertain-significance, GLYR1-related condition 4,823,849(-) G/A coding_sequence_variant, missense_variant, non_coding_transcript_variant
rs569838251 uncertain-significance, Kohlschutter's syndrome 4,802,769(-) CCCCC/CCCC downstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for GLYR1 Gene

Variant ID Type Subtype PubMed ID
esv2422516 CNV deletion 17116639
esv2659144 CNV deletion 23128226
esv26756 CNV gain+loss 19812545
esv2676130 CNV deletion 23128226
esv3553047 CNV deletion 23714750
esv3637707 CNV gain 21293372
esv3637708 CNV loss 21293372
esv3637709 CNV loss 21293372
nsv1046986 CNV gain 25217958
nsv510674 CNV deletion 20534489

Variation tolerance for GLYR1 Gene

Residual Variation Intolerance Score: 4.37% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.81; 16.99% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for GLYR1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
GLYR1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for GLYR1 Gene

Disorders for GLYR1 Gene

Additional Disease Information for GLYR1

No disorders were found for GLYR1 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for GLYR1 Gene

Publications for GLYR1 Gene

  1. Nuclear protein NP60 regulates p38 MAPK activity. (PMID: 16352664) Fu J … Gu J (Journal of cell science 2006) 2 3 4 58
  2. LSD2/KDM1B and its cofactor NPAC/GLYR1 endow a structural and molecular model for regulation of H3K4 demethylation. (PMID: 23260659) Fang R … Shi YG (Molecular cell 2013) 3 4 58
  3. Quantitative interaction proteomics and genome-wide profiling of epigenetic histone marks and their readers. (PMID: 20850016) Vermeulen M … Mann M (Cell 2010) 3 4 58
  4. Proteomic profiling of VCP substrates links VCP to K6-linked ubiquitylation and c-Myc function. (PMID: 29467282) Heidelberger JB … Beli P (EMBO reports 2018) 3 58
  5. Quantitative mapping of RNA-mediated nuclear estrogen receptor β interactome in human breast cancer cells. (PMID: 29509190) Giurato G … Tarallo R (Scientific data 2018) 3 58

Products for GLYR1 Gene

Sources for GLYR1 Gene

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