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Aliases for SDR16C5 Gene

Aliases for SDR16C5 Gene

  • Short Chain Dehydrogenase/Reductase Family 16C, Member 5 2 3
  • RDHE2 3 4 6
  • Short-Chain Dehydrogenase/Reductase Family 16C Member 5 3 4
  • Retinal Short-Chain Dehydrogenase Reductase 2 3 4
  • RETSDR2 3 4
  • RDH-E2 3 4
  • EPHD-2 3 4
  • Retinal Short Chain Dehydrogenase Reductase 3
  • Epidermal Retinal Dehydrogenase 2 3
  • Epidermal Retinol Dehydrogenase 2 3
  • EC 1.1.1.105 4
  • RDH#2 3

External Ids for SDR16C5 Gene

Summaries for SDR16C5 Gene

Entrez Gene Summary for SDR16C5 Gene

  • RDHE2 belongs to a family of short-chain alcohol dehydrogenases/reductases that catalyze the first and rate-limiting step that generates retinaldehyde from retinol (Matsuzaka et al., 2002 [PubMed 12372410]).[supplied by OMIM, Mar 2008]

GeneCards Summary for SDR16C5 Gene

SDR16C5 (Short Chain Dehydrogenase/Reductase Family 16C, Member 5) is a Protein Coding gene. Among its related pathways are retinoate biosynthesis I and Chemical carcinogenesis. GO annotations related to this gene include retinol dehydrogenase activity. An important paralog of this gene is RDH10.

UniProtKB/Swiss-Prot for SDR16C5 Gene

  • Oxidoreductase with strong preference for NAD. Active in both the oxidative and reductive directions. Oxidizes all-trans-retinol in all-trans-retinaldehyde. No activity was detected with 11-cis-retinol or 11-cis-retinaldehyde as substrates with either NAD(+)/NADH or NADP(+)/NADPH.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SDR16C5 Gene

Genomics for SDR16C5 Gene

Genomic Location for SDR16C5 Gene

Start:
56,300,010 bp from pter
End:
56,320,776 bp from pter
Size:
20,767 bases
Orientation:
Minus strand

Genomic View for SDR16C5 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SDR16C5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SDR16C5 Gene

Regulatory Elements for SDR16C5 Gene

Proteins for SDR16C5 Gene

  • Protein details for SDR16C5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N3Y7-RDHE2_HUMAN
    Recommended name:
    Epidermal retinol dehydrogenase 2
    Protein Accession:
    Q8N3Y7
    Secondary Accessions:
    • B4DGK2
    • Q330K3
    • Q8TDV9
    • Q96LX1

    Protein attributes for SDR16C5 Gene

    Size:
    309 amino acids
    Molecular mass:
    34095 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAB71545.1; Type=Frameshift; Positions=226; Evidence={ECO:0000305};

    Alternative splice isoforms for SDR16C5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SDR16C5 Gene

Proteomics data for SDR16C5 Gene at MOPED

Post-translational modifications for SDR16C5 Gene

No Post-translational modifications

Other Protein References for SDR16C5 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SDR16C5 Gene

Domains for SDR16C5 Gene

Gene Families for SDR16C5 Gene

HGNC:
  • SDRC3 :Short chain dehydrogenase/reductase superfamily / Classical SDR fold cluster 3

UniProtKB/Swiss-Prot:

RDHE2_HUMAN
Family:
  • Belongs to the short-chain dehydrogenases/reductases (SDR) family.:
    • Q8N3Y7
genes like me logo Genes that share domains with SDR16C5: view

Function for SDR16C5 Gene

Molecular function for SDR16C5 Gene

UniProtKB/Swiss-Prot CatalyticActivity: All-trans-retinol-[cellular-retinol-binding-protein] + NAD(+) = all-trans-retinal-[cellular-retinol-binding-protein] + NADH
UniProtKB/Swiss-Prot Function: Oxidoreductase with strong preference for NAD. Active in both the oxidative and reductive directions. Oxidizes all-trans-retinol in all-trans-retinaldehyde. No activity was detected with 11-cis-retinol or 11-cis-retinaldehyde as substrates with either NAD(+)/NADH or NADP(+)/NADPH.

Enzyme Numbers (IUBMB) for SDR16C5 Gene

Gene Ontology (GO) - Molecular Function for SDR16C5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004745 retinol dehydrogenase activity IDA 18926804
GO:0016491 oxidoreductase activity --
genes like me logo Genes that share ontologies with SDR16C5: view

miRNA for SDR16C5 Gene

miRTarBase miRNAs that target SDR16C5

No data available for Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for SDR16C5 Gene

Localization for SDR16C5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SDR16C5 Gene

Endoplasmic reticulum membrane; Multi-pass membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SDR16C5 Gene COMPARTMENTS Subcellular localization image for SDR16C5 gene
Compartment Confidence
endoplasmic reticulum 5
extracellular 2
golgi apparatus 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for SDR16C5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005789 endoplasmic reticulum membrane TAS --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SDR16C5: view

Pathways for SDR16C5 Gene

genes like me logo Genes that share pathways with SDR16C5: view

Pathways by source for SDR16C5 Gene

1 BioSystems pathway for SDR16C5 Gene
1 KEGG pathway for SDR16C5 Gene

UniProtKB/Swiss-Prot Q8N3Y7-RDHE2_HUMAN

  • Pathway: Cofactor metabolism; retinol metabolism

Interacting Proteins for SDR16C5 Gene

Gene Ontology (GO) - Biological Process for SDR16C5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008152 metabolic process --
GO:0042572 retinol metabolic process IEA --
GO:0042574 retinal metabolic process IDA 18926804
GO:0043616 keratinocyte proliferation IMP 12372410
GO:0050908 detection of light stimulus involved in visual perception NAS 12407145
genes like me logo Genes that share ontologies with SDR16C5: view

Transcripts for SDR16C5 Gene

Unigene Clusters for SDR16C5 Gene

Short chain dehydrogenase/reductase family 16C, member 5:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SDR16C5 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8a · 8b
SP1:
SP2: -
SP3: - -

Relevant External Links for SDR16C5 Gene

GeneLoc Exon Structure for
SDR16C5
ECgene alternative splicing isoforms for
SDR16C5

Expression for SDR16C5 Gene

mRNA expression in normal human tissues for SDR16C5 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SDR16C5 Gene

This gene is overexpressed in Skin - Sun Exposed (Lower leg) (9.9), Esophagus - Mucosa (9.2), Skin - Not Sun Exposed (Suprapubic) (8.4), and Lung (7.9).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SDR16C5 Gene

SOURCE GeneReport for Unigene cluster for SDR16C5 Gene Hs.170673

mRNA Expression by UniProt/SwissProt for SDR16C5 Gene

Q8N3Y7-RDHE2_HUMAN
Tissue specificity: Detected in adult lung. Detected at low levels in adult brain, heart, testis, placenta, cervix, pancreas, uterus, stomach, rectum, small intestine, colon, esophagus, thymus, skin, and skin keratinocyte. Expression is higher in psoriasis lesions relative to unaffected skin from psoriasis patients. Detected in fetal kidney, skin and lung.
genes like me logo Genes that share expressions with SDR16C5: view

Orthologs for SDR16C5 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SDR16C5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SDR16C5 36
  • 99.78 (n)
  • 99.68 (a)
SDR16C5 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SDR16C5 36
  • 82.88 (n)
  • 80.07 (a)
SDR16C5 37
  • 78 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SDR16C5 36
  • 82.03 (n)
  • 77.27 (a)
SDR16C5 37
  • 77 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sdr16c5 36
  • 82.36 (n)
  • 80.19 (a)
Sdr16c5 16
Sdr16c5 37
  • 80 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SDR16C5 37
  • 68 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SDR16C5 37
  • 67 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sdr16c5 36
  • 83.44 (n)
  • 82.14 (a)
chicken
(Gallus gallus)
Aves SDR16C5 36
  • 64.55 (n)
  • 60.87 (a)
SDR16C5 37
  • 52 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 37
  • 52 (a)
OneToMany
-- 37
  • 46 (a)
OneToMany
-- 37
  • 47 (a)
OneToMany
-- 37
  • 49 (a)
OneToMany
-- 37
  • 49 (a)
OneToMany
African clawed frog
(Xenopus laevis)
Amphibia Xl.29444 36
tropical clawed frog
(Silurana tropicalis)
Amphibia sdr16c5 36
  • 64.36 (n)
  • 63.49 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.5426 36
zebrafish
(Danio rerio)
Actinopterygii Dr.26431 36
SDR16C5 37
  • 44 (a)
OneToOne
sdr16c5b 36
  • 61.51 (n)
  • 61.18 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP010232 36
  • 53.73 (n)
  • 45.15 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG15629 37
  • 35 (a)
ManyToMany
CG9265 36
  • 52.92 (n)
  • 45.14 (a)
CG9265 37
  • 31 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea dhs-19 36
  • 58.39 (n)
  • 52.55 (a)
dhs-19 37
  • 49 (a)
OneToMany
dhs-3 37
  • 46 (a)
OneToMany
dhs-4 37
  • 39 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes -- 37
  • 24 (a)
ManyToMany
TDA5 37
  • 21 (a)
ManyToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.12306 36
sea squirt
(Ciona savignyi)
Ascidiacea CSA.5456 37
  • 46 (a)
OneToOne
Species with no ortholog for SDR16C5:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • rice (Oryza sativa)
  • 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)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SDR16C5 Gene

ENSEMBL:
Gene Tree for SDR16C5 (if available)
TreeFam:
Gene Tree for SDR16C5 (if available)

Paralogs for SDR16C5 Gene

Paralogs for SDR16C5 Gene

Selected SIMAP similar genes for SDR16C5 Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for SDR16C5 Gene

genes like me logo Genes that share paralogs with SDR16C5: view

Variants for SDR16C5 Gene

Sequence variations from dbSNP and Humsavar for SDR16C5 Gene

SNP ID Clin Chr 08 pos Sequence Context AA Info Type MAF
rs4151640 -- 56,321,450(-) CTGGA(A/G)GCACC upstream-variant-2KB
rs4151641 -- 56,321,165(-) CTGCC(C/T)TGTTT upstream-variant-2KB
rs4151642 -- 56,320,227(-) GCGCA(A/G)TGGGG utr-variant-5-prime
rs4151643 - 56,316,164(-) TTGCC(C/T)GGCTG reference, missense
rs4151644 -- 56,305,745(-) TTTTA(-/A)TTGTT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SDR16C5 Gene

Variant ID Type Subtype PubMed ID
esv2737024 CNV Deletion 23290073

Relevant External Links for SDR16C5 Gene

HapMap Linkage Disequilibrium report
SDR16C5

Disorders for SDR16C5 Gene

Relevant External Links for SDR16C5

Human Genome Epidemiology (HuGE) Navigator
SDR16C5
genes like me logo Genes that share disorders with SDR16C5: view

No data available for UniProtKB/Swiss-Prot for SDR16C5 Gene

Publications for SDR16C5 Gene

  1. Identification of the hRDH-E2 gene, a novel member of the SDR family, and its increased expression in psoriatic lesion. (PMID: 12372410) Matsuzaka Y. … Inoko H. (Biochem. Biophys. Res. Commun. 2002) 2 3 4 23
  2. Biochemical characterization of human epidermal retinol dehydrogenase 2. (PMID: 18926804) Lee S.-A. … Kedishvili N.Y. (Chem. Biol. Interact. 2009) 3 4 23
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  4. hRDH-E2 gene polymorphisms, variable transcriptional start sites, and psoriasis. (PMID: 15457346) Matsuzaka Y. … Inoko H. (Mamm. Genome 2004) 3 4
  5. Identification of ten loci associated with height highlights new biological pathways in human growth. (PMID: 18391950) Lettre G. … Hirschhorn J.N. (Nat. Genet. 2008) 3

Products for SDR16C5 Gene

Sources for SDR16C5 Gene

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