Human Gene PHEX (ENST00000379374.5) from GENCODE V44
  Description: Homo sapiens phosphate regulating endopeptidase homolog X-linked (PHEX), transcript variant 2, mRNA. (from RefSeq NM_001282754)
RefSeq Summary (NM_000444): The protein encoded by this gene is a transmembrane endopeptidase that belongs to the type II integral membrane zinc-dependent endopeptidase family. The protein is thought to be involved in bone and dentin mineralization and renal phosphate reabsorption. Mutations in this gene cause X-linked hypophosphatemic rickets. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Sep 2013].
Gencode Transcript: ENST00000379374.5
Gencode Gene: ENSG00000102174.10
Transcript (Including UTRs)
   Position: hg38 chrX:22,032,325-22,251,310 Size: 218,986 Total Exon Count: 22 Strand: +
Coding Region
   Position: hg38 chrX:22,033,006-22,247,953 Size: 214,948 Coding Exon Count: 22 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsOther NamesGeneReviewsMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:22,032,325-22,251,310)mRNA (may differ from genome)Protein (749 aa)
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BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMalacardsMGImyGene2
neXtProtOMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PHEX_HUMAN
DESCRIPTION: RecName: Full=Phosphate-regulating neutral endopeptidase; EC=3.4.24.-; AltName: Full=Metalloendopeptidase homolog PEX; AltName: Full=Vitamin D-resistant hypophosphatemic rickets protein; AltName: Full=X-linked hypophosphatemia protein; Short=HYP;
FUNCTION: Probably involved in bone and dentin mineralization and renal phosphate reabsorption.
COFACTOR: Binds 1 zinc ion per subunit (By similarity).
SUBCELLULAR LOCATION: Membrane; Single-pass type II membrane protein (Potential).
TISSUE SPECIFICITY: Lymphocytes and fetal brain; not in adult brain, placenta, skeletal muscle and pancreas; not in adult and fetal heart, lung, liver and kidney.
DISEASE: Defects in PHEX are a cause of hypophosphatemic rickets, X-linked dominant (XLHR) [MIM:307800]. XLHR is an X-linked dominant disorder characterized by impaired phosphate uptake in the kidney, which is likely to be caused by abnormal regulation of sodium phosphate cotransport in the proximal tubules. Clinical manifestations include skeletal deformities, growth failure, craniosynostosis, paravertebral calcifications, pseudofractures in lower extremities, and muscular hypotonia with onset in early childhood. X-linked hypophosphatemic rickets is the most common form of hypophosphatemia with an incidence of 1 in 20000.
SIMILARITY: Belongs to the peptidase M13 family.
WEB RESOURCE: Name=PHEXdb; URL="http://www.phexdb.mcgill.ca/";
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/PHEX";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: PHEX
Diseases sorted by gene-association score: hypophosphatemic rickets, x-linked dominant* (1792), hypophosphatemic rickets* (338), rickets (83), hypophosphatemia (41), enthesopathy (23), osteomalacia (22), hypophosphatemic rickets, autosomal dominant (21), dental abscess (16), subacute glomerulonephritis (15), phacogenic glaucoma (14), autosomal recessive hypophosphatemic rickets (13), oncogenic osteomalacia (13), iris disease (11), morgagni cataract (11), arterial calcification of infancy (10), pontiac fever (10), opsismodysplasia (10), hypophosphatasia (9), phosphorus metabolism disease (8), hypochondriasis (8), lens disease (8), traumatic glaucoma (7), hypophosphatemic rickets with hypercalciuria (7), hyperparathyroidism (7), agammaglobulinemia and isolated hormone deficiency (7), hepatic infarction (7), craniosynostosis (7), chronic closed-angle glaucoma (7), tricuspid valve prolapse (6), calcinosis (6), colloid carcinoma of the pancreas (6), familial tumoral calcinosis (6), rhizomelic chondrodysplasia punctata, type 5 (6), peroxisomal biogenesis disorders (6), bone remodeling disease (5), mineral metabolism disease (5), patellofemoral pain syndrome (5), peroxisome biogenesis disorder 1b (4), rhizomelic chondrodysplasia punctata, type 2 (4), rhizomelic chondrodysplasia punctata, type 1 (4), osteogenesis imperfecta, type i (4), glaucoma 1, open angle, e (4), juvenile glaucoma (3)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 1.67 RPKM in Lung
Total median expression: 12.39 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -167.70681-0.246 Picture PostScript Text
3' UTR -858.503357-0.256 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR024079 - MetalloPept_cat_dom
IPR000718 - Peptidase_M13
IPR018497 - Peptidase_M13_C
IPR008753 - Peptidase_M13_N
IPR015603 - PHEX

Pfam Domains:
PF01431 - Peptidase family M13
PF05649 - Peptidase family M13

ModBase Predicted Comparative 3D Structure on P78562
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004177 aminopeptidase activity
GO:0004222 metalloendopeptidase activity
GO:0008233 peptidase activity
GO:0008237 metallopeptidase activity
GO:0008270 zinc ion binding
GO:0016787 hydrolase activity
GO:0046872 metal ion binding

Biological Process:
GO:0001501 skeletal system development
GO:0006464 cellular protein modification process
GO:0006508 proteolysis
GO:0007267 cell-cell signaling
GO:0019637 organophosphate metabolic process
GO:0030282 bone mineralization
GO:0030324 lung development
GO:0031214 biomineral tissue development
GO:0033280 response to vitamin D
GO:0060348 bone development
GO:0060416 response to growth hormone
GO:0071305 cellular response to vitamin D
GO:0071374 cellular response to parathyroid hormone stimulus
GO:1904383 response to sodium phosphate
GO:1990418 response to insulin-like growth factor stimulus

Cellular Component:
GO:0005783 endoplasmic reticulum
GO:0005794 Golgi apparatus
GO:0005886 plasma membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0048471 perinuclear region of cytoplasm


-  Descriptions from all associated GenBank mRNAs
  U82970 - Homo sapiens metalloendopeptidase-like protein (PEX) mRNA, complete cds.
U87284 - Human phosphate regulating neutral endopeptidase (PEX) mRNA, complete cds.
AD000712 - Human PEX mRNA, complete cds.
AK298030 - Homo sapiens cDNA FLJ59234 complete cds, highly similar to Phosphate-regulating neutral endopeptidase (EC 3.4.24.-).
BC105057 - Homo sapiens phosphate regulating endopeptidase homolog, X-linked, mRNA (cDNA clone MGC:132717 IMAGE:8144060), complete cds.
BC105059 - Homo sapiens phosphate regulating endopeptidase homolog, X-linked, mRNA (cDNA clone MGC:132719 IMAGE:8144062), complete cds.
U75645 - Human PEX protein mRNA, complete cds.
KJ891794 - Synthetic construct Homo sapiens clone ccsbBroadEn_01188 PHEX gene, encodes complete protein.
KR712169 - Synthetic construct Homo sapiens clone CCSBHm_00036381 PHEX (PHEX) mRNA, encodes complete protein.
KR712170 - Synthetic construct Homo sapiens clone CCSBHm_00036393 PHEX (PHEX) mRNA, encodes complete protein.
KR712171 - Synthetic construct Homo sapiens clone CCSBHm_00036432 PHEX (PHEX) mRNA, encodes complete protein.
KR712172 - Synthetic construct Homo sapiens clone CCSBHm_00036440 PHEX (PHEX) mRNA, encodes complete protein.
U60475 - Homo sapiens metalloendopeptidase homolog (PHEX) mRNA, partial cds.
AK301528 - Homo sapiens cDNA FLJ60923 complete cds, highly similar to Phosphate-regulating neutral endopeptidase (EC3.4.24.-).
AK304551 - Homo sapiens cDNA FLJ51465 complete cds, highly similar to Phosphate-regulating neutral endopeptidase (EC 3.4.24.-).
JD451182 - Sequence 432206 from Patent EP1572962.
JD534933 - Sequence 515957 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000379374.1, ENST00000379374.2, ENST00000379374.3, ENST00000379374.4, NM_001282754, O00678, P78562, PEX, PHEX_HUMAN, Q13646, Q2M325, Q93032, Q99827, uc004dah.1, uc004dah.2, uc004dah.3, uc004dah.4, uc004dah.5, uc004dah.6
UCSC ID: ENST00000379374.5
RefSeq Accession: NM_000444
Protein: P78562 (aka PHEX_HUMAN or PEX_HUMAN)
CCDS: CCDS14204.1

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene PHEX:
rickets-xlh (X-Linked Hypophosphatemia)

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.