Human Gene EBP (ENST00000495186.6_4) from GENCODE V47lift37
  Description: EBP cholestenol delta-isomerase (from RefSeq NM_006579.3)
Gencode Transcript: ENST00000495186.6_4
Gencode Gene: ENSG00000147155.11_9
Transcript (Including UTRs)
   Position: hg19 chrX:48,380,196-48,387,104 Size: 6,909 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chrX:48,382,160-48,386,845 Size: 4,686 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesGeneReviewsModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:48,380,196-48,387,104)mRNA (may differ from genome)Protein (230 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: EBP_HUMAN
DESCRIPTION: RecName: Full=3-beta-hydroxysteroid-Delta(8),Delta(7)-isomerase; EC=5.3.3.5; AltName: Full=Cholestenol Delta-isomerase; AltName: Full=Delta(8)-Delta(7) sterol isomerase; Short=D8-D7 sterol isomerase; AltName: Full=Emopamil-binding protein;
FUNCTION: Catalyzes the conversion of Delta(8)-sterols to their corresponding Delta(7)-isomers.
CATALYTIC ACTIVITY: 5-alpha-cholest-7-en-3-beta-ol = 5-alpha- cholest-8-en-3-beta-ol.
PATHWAY: Steroid biosynthesis; cholesterol biosynthesis.
SUBCELLULAR LOCATION: Endoplasmic reticulum membrane; Multi-pass membrane protein.
DISEASE: Defects in EBP are the cause of chondrodysplasia punctata X-linked dominant type 2 (CDPX2) [MIM:302960]; also known as Conradi-Hunermann-Happle syndrome. CDP is a clinically and genetically heterogeneous disorder characterized by punctiform calcification of the bones. The key clinical features of CDPX2 are chondrodysplasia punctata, linear ichthyosis, cataracts and short stature. CDPX2 is a rare disorder of defective cholesterol biosynthesis, biochemically characterized by an increased amount of 8-dehydrocholesterol and cholest-8(9)-en-3-beta-ol in the plasma and tissues.
MISCELLANEOUS: Binds to the phenylalkylamine calcium-ion antagonist emopamil, an anti-ischemic drug.
SIMILARITY: Belongs to the EBP family.
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/EBP";

-  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: EBP
Diseases sorted by gene-association score: chondrodysplasia punctata, x-linked dominant* (1580), mend syndrome* (1579), factor xiii deficiency* (400), digital anomalies-intellectual disability-short stature syndrome* (350), waardenburg's syndrome* (179), chondrodysplasia punctata 2, x-linked* (141), chondrodysplasia punctata syndrome (31), child syndrome (20), x-linked chondrodysplasia punctata (10), skin atrophy (6), congenital ichthyosiform erythroderma (1)
* = Manually curated disease association

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

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 56.96 RPKM in Liver
Total median expression: 559.44 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 -44.80173-0.259 Picture PostScript Text
3' UTR -74.30259-0.287 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
IPR007905 - EBP

Pfam Domains:
PF05241 - EXPERA (EXPanded EBP superfamily)

SCOP Domains:
51206 - cAMP-binding domain-like

ModBase Predicted Comparative 3D Structure on Q15125
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
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000247 C-8 sterol isomerase activity
GO:0004769 steroid delta-isomerase activity
GO:0004888 transmembrane signaling receptor activity
GO:0005515 protein binding
GO:0015238 drug transmembrane transporter activity
GO:0016853 isomerase activity
GO:0047750 cholestenol delta-isomerase activity

Biological Process:
GO:0001501 skeletal system development
GO:0006629 lipid metabolic process
GO:0006694 steroid biosynthetic process
GO:0006695 cholesterol biosynthetic process
GO:0006855 drug transmembrane transport
GO:0007165 signal transduction
GO:0008202 steroid metabolic process
GO:0008203 cholesterol metabolic process
GO:0016125 sterol metabolic process
GO:0016126 sterol biosynthetic process
GO:0030097 hemopoiesis
GO:0033489 cholesterol biosynthetic process via desmosterol
GO:0033490 cholesterol biosynthetic process via lathosterol

Cellular Component:
GO:0005634 nucleus
GO:0005635 nuclear envelope
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0005887 integral component of plasma membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0031410 cytoplasmic vesicle
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  LF385305 - JP 2014500723-A/192808: Polycomb-Associated Non-Coding RNAs.
BC001549 - Homo sapiens emopamil binding protein (sterol isomerase), mRNA (cDNA clone MGC:5010 IMAGE:3463689), complete cds.
BC001572 - Homo sapiens emopamil binding protein (sterol isomerase), mRNA (cDNA clone MGC:5506 IMAGE:3453423), complete cds.
Z37986 - H.sapiens mRNA for phenylalkylamine binding protein.
BC046501 - Homo sapiens emopamil binding protein (sterol isomerase), mRNA (cDNA clone MGC:29952 IMAGE:5106272), complete cds.
JD422519 - Sequence 403543 from Patent EP1572962.
LF379199 - JP 2014500723-A/186702: Polycomb-Associated Non-Coding RNAs.
KJ893112 - Synthetic construct Homo sapiens clone ccsbBroadEn_02506 EBP gene, encodes complete protein.
KR709566 - Synthetic construct Homo sapiens clone CCSBHm_00003562 EBP (EBP) mRNA, encodes complete protein.
KR709567 - Synthetic construct Homo sapiens clone CCSBHm_00003573 EBP (EBP) mRNA, encodes complete protein.
KR709568 - Synthetic construct Homo sapiens clone CCSBHm_00003589 EBP (EBP) mRNA, encodes complete protein.
KR709569 - Synthetic construct Homo sapiens clone CCSBHm_00003597 EBP (EBP) mRNA, encodes complete protein.
CU674760 - Synthetic construct Homo sapiens gateway clone IMAGE:100020638 5' read EBP mRNA.
DQ891591 - Synthetic construct clone IMAGE:100004221; FLH178418.01X; RZPDo839C12128D emopamil binding protein (sterol isomerase) (EBP) gene, encodes complete protein.
DQ894785 - Synthetic construct Homo sapiens clone IMAGE:100009245; FLH178414.01L; RZPDo839C12127D emopamil binding protein (sterol isomerase) (EBP) gene, encodes complete protein.
DQ894786 - Synthetic construct Homo sapiens clone IMAGE:100009246; FLH263673.01L; RZPDo839D03127D emopamil binding protein (sterol isomerase) (EBP) gene, encodes complete protein.
CR456815 - Homo sapiens full open reading frame cDNA clone RZPDo834C1215D for gene EBP, emopamil binding protein (sterol isomerase); complete cds, incl. stopcodon.
CR542094 - Homo sapiens full open reading frame cDNA clone RZPDo834A0737D for gene EBP, emopamil binding protein (sterol isomerase); complete cds, without stopcodon.
KJ921656 - Homo sapiens isolate 4B13 emopamil binding protein (EBP) mRNA, partial cds.
LF379198 - JP 2014500723-A/186701: Polycomb-Associated Non-Coding RNAs.
LF379196 - JP 2014500723-A/186699: Polycomb-Associated Non-Coding RNAs.
LF379195 - JP 2014500723-A/186698: Polycomb-Associated Non-Coding RNAs.
LF379193 - JP 2014500723-A/186696: Polycomb-Associated Non-Coding RNAs.
LF379192 - JP 2014500723-A/186695: Polycomb-Associated Non-Coding RNAs.
LF379190 - JP 2014500723-A/186693: Polycomb-Associated Non-Coding RNAs.
JD170296 - Sequence 151320 from Patent EP1572962.
JD049537 - Sequence 30561 from Patent EP1572962.
MA620882 - JP 2018138019-A/192808: Polycomb-Associated Non-Coding RNAs.
MA614776 - JP 2018138019-A/186702: Polycomb-Associated Non-Coding RNAs.
MA614775 - JP 2018138019-A/186701: Polycomb-Associated Non-Coding RNAs.
MA614773 - JP 2018138019-A/186699: Polycomb-Associated Non-Coding RNAs.
MA614772 - JP 2018138019-A/186698: Polycomb-Associated Non-Coding RNAs.
MA614770 - JP 2018138019-A/186696: Polycomb-Associated Non-Coding RNAs.
MA614769 - JP 2018138019-A/186695: Polycomb-Associated Non-Coding RNAs.
MA614767 - JP 2018138019-A/186693: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
PWY66-3 - cholesterol biosynthesis II (via 24,25-dihydrolanosterol)
PWY66-341 - cholesterol biosynthesis I
PWY66-4 - cholesterol biosynthesis III (via desmosterol)
PWY66-5 - superpathway of cholesterol biosynthesis

Reactome (by CSHL, EBI, and GO)

Protein Q15125 (Reactome details) participates in the following event(s):

R-HSA-195690 Zymosterol is isomerized to cholesta-7,24-dien-3beta-ol
R-HSA-6807052 EBP isomerizes ZYMSTNL to LTHSOL
R-HSA-6807047 Cholesterol biosynthesis via desmosterol
R-HSA-6807062 Cholesterol biosynthesis via lathosterol
R-HSA-191273 Cholesterol biosynthesis
R-HSA-8957322 Metabolism of steroids
R-HSA-556833 Metabolism of lipids
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: EBP , EBP_HUMAN, ENST00000495186.1, ENST00000495186.2, ENST00000495186.3, ENST00000495186.4, ENST00000495186.5, NM_006579, Q15125, Q6FGL3, Q6IBI9, uc322quc.1, uc322quc.2
UCSC ID: ENST00000495186.6_4
RefSeq Accession: NM_006579.3
Protein: Q15125 (aka EBP_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene EBP:
x-dcdp (Chondrodysplasia Punctata 2, X-Linked)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

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