HPGD (15-hydroxyprostaglandin dehydrogenase)

Gene

• Entrez ID: 3248
• Gene name: 15-hydroxyprostaglandin dehydrogenase
• Gene symbol: HPGD
• Synonyms: 15-PGDH, PGDH, PGDH1, PHOAR1, SDR36C1
• Chromosome: 4
• Chromosome location: 4q34.1
• Summary: This gene encodes a member of the short-chain nonmetalloenzyme alcohol dehydrogenase protein family. The encoded enzyme is responsible for the metabolism of prostaglandins, which function in a variety of physiologic and cellular processes such as inflamma

SNPs

SNP ID	Visualize variation	Clinical significance	Consequence
rs121434480	C>G	Pathogenic	Missense variant, coding sequence variant, non coding transcript variant, intron variant
rs121434481	A>G	Pathogenic	Missense variant, coding sequence variant, genic downstream transcript variant, intron variant
rs375335006	G>A,C	Likely-pathogenic	Coding sequence variant, missense variant, intron variant, genic downstream transcript variant
rs587776676	GGTCTACAAC>TG	Pathogenic	Intron variant, frameshift variant, non coding transcript variant, coding sequence variant, 5 prime UTR variant
rs587777719	AG>-	Pathogenic	Intron variant, frameshift variant, non coding transcript variant, coding sequence variant, 5 prime UTR variant

miRNA

miRTarBase ID	miRNA	Experiments	Reference
MIRT053173	hsa-miR-21-5p	In situ hybridization, Luciferase reporter assay, qRT-PCR, Western blot	24699315
MIRT719015	hsa-miR-664a-3p	HITS-CLIP	19536157
MIRT719014	hsa-miR-4289	HITS-CLIP	19536157
MIRT719013	hsa-miR-486-5p	HITS-CLIP	19536157
MIRT719012	hsa-miR-4742-3p	HITS-CLIP	19536157
MIRT719011	hsa-miR-587	HITS-CLIP	19536157
MIRT719015	hsa-miR-664a-3p	HITS-CLIP	19536157
MIRT719014	hsa-miR-4289	HITS-CLIP	19536157
MIRT719013	hsa-miR-486-5p	HITS-CLIP	19536157
MIRT719012	hsa-miR-4742-3p	HITS-CLIP	19536157
MIRT719011	hsa-miR-587	HITS-CLIP	19536157
MIRT755926	hsa-miR-106b-5p	Luciferase reporter assay, Western blotting, Microarray, qRT-PCR, in vitro cullelar assays, RNA pull down assay	35317779
MIRT1054125	hsa-miR-151-3p	CLIP-seq
MIRT1054126	hsa-miR-186	CLIP-seq
MIRT1054127	hsa-miR-216a	CLIP-seq
MIRT1054128	hsa-miR-3133	CLIP-seq
MIRT1054129	hsa-miR-3154	CLIP-seq
MIRT1054130	hsa-miR-3185	CLIP-seq
MIRT1054131	hsa-miR-342-3p	CLIP-seq
MIRT1054132	hsa-miR-3647-3p	CLIP-seq
MIRT1054133	hsa-miR-3662	CLIP-seq
MIRT1054134	hsa-miR-3688-3p	CLIP-seq
MIRT1054135	hsa-miR-3978	CLIP-seq
MIRT1054136	hsa-miR-4717-3p	CLIP-seq
MIRT1054137	hsa-miR-4802-3p	CLIP-seq
MIRT1054138	hsa-miR-502-5p	CLIP-seq
MIRT1054139	hsa-miR-548ag	CLIP-seq
MIRT1054140	hsa-miR-548ai	CLIP-seq

Transcription factors

Transcription factor	Regulation	Reference
CREB1	Unknown	10650939
ERG	Unknown	21178489
ETS1	Unknown	10650939
NFIL3	Unknown	1620116
SNAI2	Repression	17575121

Gene ontology (GO)

GO ID	Ontology	Definition	Evidence	Reference
GO:0001822	Process	Kidney development	IEA
GO:0004957	Function	Prostaglandin E receptor activity	IDA	10198228
GO:0005654	Component	Nucleoplasm	IDA
GO:0005737	Component	Cytoplasm	IBA	21873635
GO:0005829	Component	Cytosol	IDA
GO:0005829	Component	Cytosol	NAS	15581601
GO:0005829	Component	Cytosol	TAS
GO:0006693	Process	Prostaglandin metabolic process	IBA	21873635
GO:0006693	Process	Prostaglandin metabolic process	IDA	16828555, 21072165
GO:0007179	Process	Transforming growth factor beta receptor signaling pathway	IDA	15574495
GO:0007565	Process	Female pregnancy	IBA	21873635
GO:0007565	Process	Female pregnancy	IDA	15531523
GO:0007567	Process	Parturition	IDA	15531523
GO:0016323	Component	Basolateral plasma membrane	IEA
GO:0016404	Function	15-hydroxyprostaglandin dehydrogenase (NAD+) activity	IBA	21873635
GO:0016404	Function	15-hydroxyprostaglandin dehydrogenase (NAD+) activity	IDA	2025296, 10198228, 15581601, 16828555, 21072165
GO:0016404	Function	15-hydroxyprostaglandin dehydrogenase (NAD+) activity	IMP	8086429
GO:0016404	Function	15-hydroxyprostaglandin dehydrogenase (NAD+) activity	NAS	7557451
GO:0016616	Function	Oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	IDA	16757471
GO:0019372	Process	Lipoxygenase pathway	TAS	15581601
GO:0030728	Process	Ovulation	ISS
GO:0032355	Process	Response to estradiol	IEA
GO:0032496	Process	Response to lipopolysaccharide	IEA
GO:0042759	Process	Long-chain fatty acid biosynthetic process	TAS
GO:0042802	Function	Identical protein binding	IPI	21072165
GO:0043065	Process	Positive regulation of apoptotic process	IEA
GO:0045471	Process	Response to ethanol	IEA
GO:0045786	Process	Negative regulation of cell cycle	IDA	15574495
GO:0051287	Function	NAD binding	IDA	10198228, 15581601
GO:0070062	Component	Extracellular exosome	HDA	19056867
GO:0070403	Function	NAD+ binding	IDA	16828555, 21072165
GO:0070493	Process	Thrombin-activated receptor signaling pathway	ISS
GO:0097070	Process	Ductus arteriosus closure	ISS
GO:1904707	Process	Positive regulation of vascular associated smooth muscle cell proliferation	IEA
GO:1905828	Process	Regulation of prostaglandin catabolic process	IMP	8086429
GO:2001301	Process	Lipoxin biosynthetic process	TAS

Other IDs

• MIM: 601688
• HGNC: 5154
• e!Ensembl: ENSG00000164120

Protein

• UniProt ID: P15428
• Protein name: 15-hydroxyprostaglandin dehydrogenase [NAD(+)] (15-PGDH) (EC 1.1.1.141) (Eicosanoid/docosanoid dehydrogenase [NAD(+)]) (EC 1.1.1.-, EC 1.1.1.232) (Prostaglandin dehydrogenase 1) (Short chain dehydrogenase/reductase family 36C member 1)
• Protein function: Catalyzes the NAD-dependent dehydrogenation (oxidation) of a broad array of hydroxylated polyunsaturated fatty acids (mainly eicosanoids and docosanoids, including prostaglandins, lipoxins and resolvins), yielding their corresponding keto (oxo)
• PDB: 2GDZ, 8CVN, 8CWL, 8FD8
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF00106	adh_short	6 → 199	short chain dehydrogenase	Domain

• Sequence:

  MHVNGKVALVTGAAQGIGRAFAEALLLKGAKVALVDWNLEAGVQCKAALDEQFEPQKTLF
  IQCDVADQQQLRDTFRKVVDHFGRLDILVNNAGVNNEKNWEKTLQINLVSVISGTYLGLD
  YMSKQNGGEGGIIINMSSLAGLMPVAQQPVYCASKHGIVGFTRSAALAANLMNSGVRLNA
  ICPGFVNTAILESIEKEENMGQYIEYKDHIKDMIKYYGILDPPLIANGLITLIEDDALNG
  AIMKITTSKGIHFQDYDTTPFQAKTQ

• Sequence length: 266

Pathways

KEGG:

Arachidonic acid metabolism
Transcriptional misregulation in cancer

Reactome:

Synthesis of Lipoxins (LX)
Biosynthesis of D-series resolvins
Biosynthesis of E-series 18(S)-resolvins

Associated diseases

Causal
Disease name	Disease term	dbSNP ID	References
Anemia	Anemia	rs118204044, rs118204045, rs118204046, rs121918330, rs869320719, rs869312029, rs121918332, rs869320724, rs767094129, rs786205058, rs786205059, rs137853119, rs137853120, rs137853121, rs1384933966, rs137853122, rs137853123, rs786205060, rs267607121, rs121908584, rs80338697, rs80338699, rs120074166, rs120074167, rs1050828, rs74575103, rs137852314, rs5030868, rs137852316, rs137852317, rs137852318, rs137852319, rs137852320, rs137852321, rs137852322, rs137852323, rs137852324, rs72554665, rs387906468, rs5030872, rs137852326, rs137852333, rs137852327, rs137852328, rs137852329, rs137852330, rs137852331, rs137852332, rs137852334, rs137852335, rs137852336, rs137852339, rs76645461, rs137852340, rs137852341, rs78478128, rs137852343, rs137852344, rs137852345, rs587776730, rs137852346, rs137852347, rs137852349, rs2070404412, rs2070350038, rs2070350009, rs137852303, rs137852304, rs33946267, rs34378160, rs33933298, rs11549407, rs35724775, rs34598529, rs41469945, rs267607201, rs80338694, rs80338696, rs387907018, rs398123546, rs78365220, rs587777100, rs587777101, rs483352840, rs869312752, rs765487627, rs1557229599, rs1557230040, rs1555524842, rs782090947, rs1358275550, rs1557229736, rs1557230573, rs1556323334, rs1233124208, rs1293528130, rs146864395, rs1595503440, rs1603411214, rs137852325, rs1575247302, rs1603411177, rs1336651679, rs782322505
Arthritis	Arthritis, Degenerative polyarthritis	rs1594890601, rs1594882933, rs184370809, rs776489319, rs1594883470
Cerebral palsy	Cerebral Palsy	rs121918149, rs75184679, rs730880264, rs587777428, rs797045067, rs767399782, rs564185858, rs886039513
Currarino triad	Currarino triad	rs121912546, rs121912547, rs1563700090, rs1563700419, rs121912548, rs121912549, rs1554594329	18500342, 21438135
Hypertrophic osteoarthropathy	Hypertrophic Osteoarthropathy, Primary, Autosomal Dominant, HYPERTROPHIC OSTEOARTHROPATHY, PRIMARY, AUTOSOMAL RECESSIVE, 1	rs121434480, rs587776676, rs548208942, rs1559943990, rs387906806, rs1559927542, rs751192029, rs370769816, rs387907295, rs387907296, rs387907297, rs577045722, rs587777719, rs776813259, rs1085307096, rs765249238, rs774795340, rs375335006, rs1576428882, rs1576467025	18500342, 25526675, 24816859, 18500342
Megalencephaly, polymicrogyria, polydactyly, hydrocephalus syndrome	Medullary carcinoma	rs587776934, rs587776935, rs397514605, rs397514606, rs587777624, rs886041100, rs886041591, rs1057519801, rs1064795602, rs1568636630	11352223
Osteomyelitis	Osteomyelitis	rs11125529, rs10936599, rs7675998, rs398652, rs755017
Osteoporosis	Osteoporosis	rs72658152, rs72667023, rs587776916, rs72656370, rs768615287
Palmoplantar keratoderma	Keratoderma, Palmoplantar	rs59616921, rs1568039793, rs746488412, rs200564757, rs1567027297, rs781596375, rs1567027610, rs398123054, rs398123055, rs398123056, rs398123057, rs398122949, rs398122950, rs397515639, rs398122951, rs397515640, rs397515641, rs142859678, rs797044479, rs577442939, rs672601344, rs568609861, rs1057518846, rs1182196436, rs1567037561
Patent ductus arteriosus	Patent ductus arteriosus	rs80338911, rs879253870, rs879253871, rs879255278, rs879255279, rs879253872
Prostate cancer	Malignant neoplasm of prostate	rs121909139, rs121909140, rs121909141, rs121909142, rs121909143, rs606231169, rs606231170, rs137852584, rs137852578, rs137852580, rs137852581, rs137852582	17013881
Scoliosis	Scoliosis, unspecified	rs1057518828, rs147296805, rs758163506, rs1555613564, rs1596852902, rs1596853067, rs1596853085

Unknown
Disease name	Disease term	dbSNP ID	References
Acne	Acne
Mallet finger	Acquired deformity of finger
Acrosteolysis	Acro-Osteolysis
Arthropathy	Arthropathy
Congenital pectus excavatum	Congenital pectus excavatum
Cranioosteoarthropathy	CRANIOOSTEOARTHROPATHY, Reginato Schiapachasse syndrome, Cranio-osteoarthropathy		18500342, 21438135, 25526675, 18500342, 21438135
Cutis verticis gyrata	Cutis verticis gyrata
Eczema	Eczema
Gynecomastia	Gynecomastia
Hereditary clubbing	Hereditary clubbing		18805827, 18500342, 25526675
High palate	Byzanthine arch palate
Lung neoplasms	Lung Neoplasms
Malabsorption syndrome	Malabsorption Syndrome
Osteopenia	Osteopenia
Pachydermoperiostosis syndrome	Osteoarthropathy, Primary Hypertrophic, Pachydermoperiostosis		18500342, 25526675
Palmoplantar keratosis	Palmoplantar Keratosis
Peptic ulcer	Peptic Ulcer
Prostatic neoplasms	Prostatic Neoplasms		17013881
Ptosis	Blepharoptosis, Ptosis	rs139920573
Seborrheic dermatitis	Seborrheic dermatitis
Skin neoplasms	Skin Neoplasms
Thyroid neoplasm	Thyroid Neoplasm		11352223
Thyroid carcinoma	Thyroid carcinoma		11352223
Thyroid gland follicular adenoma	Thyroid Gland Follicular Adenoma		11352223