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GLYR1 glyoxylate reductase 1 homolog [ Homo sapiens (human) ]

Gene ID: 84656, updated on 9-Feb-2020

Summary

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Official Symbol
GLYR1provided by HGNC
Official Full Name
glyoxylate reductase 1 homologprovided by HGNC
Primary source
HGNC:HGNC:24434
See related
Ensembl:ENSG00000140632 MIM:610660
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
NP60; hNDF; BM045; HIBDL; N-PAC
Expression
Ubiquitous expression in kidney (RPKM 24.0), brain (RPKM 23.5) and 25 other tissues See more
Orthologs
mouse all

Genomic context

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See GLYR1 in Genome Data Viewer
Location:
16p13.3
Exon count:
18
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 16 NC_000016.10 (4803203..4848032, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (4853204..4897383, complement)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene septin 12 Neighboring gene small integral membrane protein 22 Neighboring gene rogdi atypical leucine zipper Neighboring gene ubinuclein 1 Neighboring gene uncharacterized LOC105371064 Neighboring gene periplakin Neighboring gene SEC14 like lipid binding 5

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. Nuclear protein NP60 regulates p38 MAPK activity. Fu J, et al. J Cell Sci, 2006 Jan 1. PMID 16352664
  2. NDF, a nucleosome-destabilizing factor that facilitates transcription through nucleosomes. Fei J, et al. Genes Dev, 2018 May 1. PMID 29759984, Free PMC Article
  3. LSD2/KDM1B and its cofactor NPAC/GLYR1 endow a structural and molecular model for regulation of H3K4 demethylation. Fang R, et al. Mol Cell, 2013 Feb 7. PMID 23260659, Free PMC Article
  4. A PWWP Domain of Histone-Lysine N-Methyltransferase NSD2 Binds to Dimethylated Lys-36 of Histone H3 and Regulates NSD2 Function at Chromatin. Sankaran SM, et al. J Biol Chem, 2016 Apr 15. PMID 26912663, Free PMC Article
  5. The lacrimal gland transcriptome is an unusually rich source of rare and poorly characterized gene transcripts. Ozyildirim AM, et al. Invest Ophthalmol Vis Sci, 2005 May. PMID 15851553

See all (39) citations in PubMed

See citations in PubMed for homologs of this gene provided by HomoloGene

GeneRIFs: Gene References Into Functions

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
NAD binding IEA
Inferred from Electronic Annotation
more info
  
NADP binding IEA
Inferred from Electronic Annotation
more info
  
chromatin binding IDA
Inferred from Direct Assay
more info
 PubMed 
histone binding IDA
Inferred from Direct Assay
more info
 PubMed 
methylated histone binding IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
methylated histone binding IDA
Inferred from Direct Assay
more info
 PubMed 
nucleosome binding IDA
Inferred from Direct Assay
more info
 PubMed 
oxidoreductase activity IEA
Inferred from Electronic Annotation
more info
  
protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
oxidation-reduction process IEA
Inferred from Electronic Annotation
more info
  
positive regulation of histone acetylation IDA
Inferred from Direct Assay
more info
 PubMed 
positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
  
nuclear speck IBA
Inferred from Biological aspect of Ancestor
more info
 PubMed 
nucleoplasm IDA
Inferred from Direct Assay
more info
  
nucleosome IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
putative oxidoreductase GLYR1
Names
3-hydroxyisobutyrate dehydrogenase-like protein
cytokine-like nuclear factor n-pac
nuclear protein 60 kDa
nuclear protein 60kDa
nuclear protein NP60
nuclear protein of 60 kDa
nucleosome-destabilizing factor

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001308096.1 → NP_001295025.1  putative oxidoreductase GLYR1 isoform 2

    See identical proteins and their annotated locations for NP_001295025.1

    Status: VALIDATED

    Source sequence(s)
    AC020663, AF217521, AF326966, HY130375
    Consensus CDS
    CCDS81945.1
    UniProtKB/Swiss-Prot
    Q49A26
    UniProtKB/TrEMBL
    Q9NZ78
    Related
    ENSP00000468328.1, ENST00000591451.5
    Conserved Domains (3) summary
    cd05836
    Location:6 → 90
    N_Pac_NP60; The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the ...
    COG2084
    Location:268 → 545
    MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]
    pfam15376
    Location:110 → 173
    DUF4603; Domain of unknown function (DUF4603)

  2. NM_001324096.2 → NP_001311025.2  putative oxidoreductase GLYR1 isoform 3

    Status: VALIDATED

    Source sequence(s)
    AC020663, KF456151
    Conserved Domains (2) summary
    cd05836
    Location:6 → 90
    N_Pac_NP60; The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the ...
    COG2084
    Location:187 → 464
    MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]

  3. NM_001324097.2 → NP_001311026.2  putative oxidoreductase GLYR1 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC020663, AK296842
    Related
    ENSP00000390276.4, ENST00000436648.9
    Conserved Domains (3) summary
    cd05836
    Location:6 → 90
    N_Pac_NP60; The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the ...
    COG2084
    Location:187 → 470
    MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]
    cl21454
    Location:129 → 221
    NADB_Rossmann; Rossmann-fold NAD(P)(+)-binding proteins

  4. NM_001324098.2 → NP_001311027.2  putative oxidoreductase GLYR1 isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC020663, KF456151
    Related
    ENSP00000466570.1, ENST00000589389.5
    Conserved Domains (3) summary
    cd05836
    Location:6 → 90
    N_Pac_NP60; The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the ...
    COG2084
    Location:251 → 534
    MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]
    pfam15376
    Location:110 → 173
    DUF4603; Domain of unknown function (DUF4603)

  5. NM_032569.4 → NP_115958.2  putative oxidoreductase GLYR1 isoform 1

    See identical proteins and their annotated locations for NP_115958.2

    Status: VALIDATED

    Source sequence(s)
    AF244907, CB529066, CK430984, CR933687, DB492328
    Consensus CDS
    CCDS10524.1
    UniProtKB/Swiss-Prot
    Q49A26
    Related
    ENSP00000322716.6, ENST00000321919.14
    Conserved Domains (4) summary
    cd05836
    Location:6 → 90
    N_Pac_NP60; The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the ...
    COG2084
    Location:268 → 551
    MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]
    pfam15376
    Location:110 → 173
    DUF4603; Domain of unknown function (DUF4603)
    cl25423
    Location:210 → 302
    NAD_bind_amino_acid_DH; NAD(P) binding domain of amino acid dehydrogenase-like proteins

RNA

  1. NR_136695.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC020663, BC047223, BC064940
    Related
    ENST00000588732.5

  2. NR_136696.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC020663, KF456151

  3. NR_136697.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC020663, KF456151

  4. NR_136698.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC020663, KF456151

  5. NR_136699.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC020663, KF456151

  6. NR_136700.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC020663, KF456151

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p13 Primary Assembly

    Range
    4803203..4848032 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005255639.5 → XP_005255696.3  putative oxidoreductase GLYR1 isoform X4

    Conserved Domains (2) summary
    cd05836
    Location:56 → 140
    N_Pac_NP60; The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the ...
    COG2084
    Location:220 → 503
    MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]

  2. XM_017023787.2 → XP_016879276.2  putative oxidoreductase GLYR1 isoform X2

    Conserved Domains (3) summary
    cd05836
    Location:56 → 140
    N_Pac_NP60; The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the ...
    COG2084
    Location:301 → 578
    MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]
    pfam15376
    Location:137 → 223
    DUF4603; Domain of unknown function (DUF4603)

  3. XM_017023786.2 → XP_016879275.2  putative oxidoreductase GLYR1 isoform X1

    Conserved Domains (4) summary
    cd05836
    Location:56 → 140
    N_Pac_NP60; The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the ...
    COG2084
    Location:318 → 600
    MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]
    pfam15376
    Location:137 → 223
    DUF4603; Domain of unknown function (DUF4603)
    cl25423
    Location:260 → 352
    NAD_bind_amino_acid_DH; NAD(P) binding domain of amino acid dehydrogenase-like proteins

  4. XM_017023789.2 → XP_016879278.1  putative oxidoreductase GLYR1 isoform X7

  5. XM_017023788.2 → XP_016879277.1  putative oxidoreductase GLYR1 isoform X6

    Conserved Domains (5) summary
    COG2084
    Location:199 → 476
    MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]
    pfam03446
    Location:199 → 354
    NAD_binding_2; NAD binding domain of 6-phosphogluconate dehydrogenase
    pfam14833
    Location:356 → 476
    NAD_binding_11; NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase
    pfam15376
    Location:18 → 104
    DUF4603; Domain of unknown function (DUF4603)
    cl02554
    Location:1 → 21
    PWWP; The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins ...

  6. XM_011522717.2 → XP_011521019.1  putative oxidoreductase GLYR1 isoform X5

    See identical proteins and their annotated locations for XP_011521019.1

    UniProtKB/Swiss-Prot
    Q49A26
    Conserved Domains (4) summary
    COG2084
    Location:199 → 482
    MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]
    pfam15376
    Location:41 → 104
    DUF4603; Domain of unknown function (DUF4603)
    cl02554
    Location:1 → 21
    PWWP; The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins ...
    cl25423
    Location:141 → 233
    NAD_bind_amino_acid_DH; NAD(P) binding domain of amino acid dehydrogenase-like proteins

  7. XM_011522716.3 → XP_011521018.1  putative oxidoreductase GLYR1 isoform X3

    Conserved Domains (6) summary
    cd05836
    Location:9 → 85
    N_Pac_NP60; The PWWP domain is an essential part of the cytokine-like nuclear factor n-pac protein, or NP60, which enhances the activity of MAP2K4 and MAP2K6 kinases to phosphorylate p38-alpha. In a variety of cell lines, NP60 has been shown to localize to the ...
    COG2084
    Location:263 → 546
    MmsB; 3-hydroxyisobutyrate dehydrogenase or related beta-hydroxyacid dehydrogenase [Lipid transport and metabolism]
    pfam03446
    Location:263 → 424
    NAD_binding_2; NAD binding domain of 6-phosphogluconate dehydrogenase
    pfam14833
    Location:426 → 546
    NAD_binding_11; NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase
    pfam15376
    Location:82 → 168
    DUF4603; Domain of unknown function (DUF4603)
    cl21454
    Location:205 → 297
    NADB_Rossmann; Rossmann-fold NAD(P)(+)-binding proteins

RNA

  1. XR_001752009.2 RNA Sequence

  2. XR_001752008.2 RNA Sequence

  3. XR_002957846.1 RNA Sequence

  4. XR_001752010.2 RNA Sequence

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q49A26.4 GenPept UniProtKB/Swiss-Prot:Q49A26

Gene LinkOut

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