Human Gene GNPTAB (ENST00000299314.12_7) from GENCODE V47lift37
  Description: N-acetylglucosamine-1-phosphate transferase subunits alpha and beta (from RefSeq NM_024312.5)
Gencode Transcript: ENST00000299314.12_7
Gencode Gene: ENSG00000111670.16_11
Transcript (Including UTRs)
   Position: hg19 chr12:102,139,277-102,224,737 Size: 85,461 Total Exon Count: 21 Strand: -
Coding Region
   Position: hg19 chr12:102,140,942-102,224,453 Size: 83,512 Coding Exon Count: 21 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:102,139,277-102,224,737)mRNA (may differ from genome)Protein (1256 aa)
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-  Comments and Description Text from UniProtKB
  ID: GNPTA_HUMAN
DESCRIPTION: RecName: Full=N-acetylglucosamine-1-phosphotransferase subunits alpha/beta; EC=2.7.8.17; AltName: Full=GlcNAc-1-phosphotransferase subunits alpha/beta; AltName: Full=Stealth protein GNPTAB; AltName: Full=UDP-N-acetylglucosamine-1-phosphotransferase subunits alpha/beta; Contains: RecName: Full=N-acetylglucosamine-1-phosphotransferase subunit alpha; Contains: RecName: Full=N-acetylglucosamine-1-phosphotransferase subunit beta; Flags: Precursor;
FUNCTION: Catalyzes the formation of mannose 6-phosphate (M6P) markers on high mannose type oligosaccharides in the Golgi apparatus. M6P residues are required to bind to the M6P receptors (MPR), which mediate the vesicular transport of lysosomal enzymes to the endosomal/prelysosomal compartment.
CATALYTIC ACTIVITY: UDP-N-acetyl-D-glucosamine + lysosomal-enzyme D-mannose = UMP + lysosomal-enzyme N-acetyl-D-glucosaminyl- phospho-D-mannose.
SUBUNIT: Hexamer of two alpha, two beta and two gamma subunits; disulfide-linked. It is believed that the alpha and/or the beta subunit of the enzyme contain the catalytic portion and that the gamma subunit functions in recognition of the lysosomal enzymes (By similarity).
SUBCELLULAR LOCATION: N-acetylglucosamine-1-phosphotransferase subunit alpha: Golgi apparatus membrane; Single-pass type I membrane protein.
SUBCELLULAR LOCATION: N-acetylglucosamine-1-phosphotransferase subunit beta: Golgi apparatus membrane; Single-pass type II membrane protein.
TISSUE SPECIFICITY: Expressed in the heart, whole brain, placenta, lung, liver, skeletal muscle, kidney and pancreas.
PTM: The alpha- and beta-subunits appear to be generated by a proteolytic cleavage at the Lys-928-Asp-929 bond.
DISEASE: Defects in GNPTAB are the cause of mucolipidosis type II (MLII) [MIM:252500]; also known as inclusion cell disease or I- cell disease (ICD). MLII is a fatal, autosomal recessive, lysosomal storage disorder characterized by severe clinical and radiologic features, peculiar fibroblast inclusions, and no excessive mucopolysacchariduria. Congenital dislocation of the hip, thoracic deformities, hernia, and hyperplastic gums are evident soon after birth.
DISEASE: Defects in GNPTAB are the cause of mucolipidosis type III complementation group A (MLIIIA) [MIM:252600]; also known as variant pseudo-Hurler polydystrophy. MLIIIA is an autosomal recessive disease of lysosomal enzyme targeting. Clinically MLIII is characterized by restricted joint mobility, skeletal dysplasia, and short stature. Mildly coarsened facial features and thickening of the skin have been described. Cardiac valvular disease and corneal clouding may also occur. Half of the reported patients show learning disabilities or mental retardation.
MISCELLANEOUS: Due to the low pH in the endosomal/prelysosomal compartment, the lysosomal enzyme-MPR complex dissociates and then the enzyme is delivered to the lysosome. Between 5% and 20% of newly synthesized lysosomal enzymes escape the binding to the MPR in the Golgi apparatus and are secreted.
MISCELLANEOUS: Stealth proteins are part of a protein family that is conserved from bacteria to higher eukaryotes. Family members were first identified in microbes as proteins that help pathogens to elude the host innate immune system. Microbial stealth proteins are most likely involved in the biosynthesis of exopolysaccharides. Stealth proteins are predicted to function as hexose-1-phosphoryltransferases.
SIMILARITY: Belongs to the stealth family.
SIMILARITY: Contains 1 EF-hand domain.
SIMILARITY: Contains 2 LNR (Lin/Notch) repeats.
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/GNPTAB";

-  Primer design for this transcript
 

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Click here to load the transcript sequence and exon structure into Primer3Plus

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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: GNPTAB
Diseases sorted by gene-association score: mucolipidosis ii alpha/beta* (1780), mucolipidosis iii alpha/beta* (1679), inclusion-cell disease* (419), mucolipidosis iii gamma* (283), mucopolysaccharidosis type iiia* (283), gnptab-related mucolipidoses* (100), stuttering (18), mucolipidoses (18), speech disorder (11), articulation disorder (10), autosomal recessive disease (2)
* = 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
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-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 12.25 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 307.58 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -182.60284-0.643 Picture PostScript Text
3' UTR -435.101665-0.261 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
IPR010506 - DMAP1-bd
IPR021520 - DUF3184
IPR018247 - EF_Hand_1_Ca_BS
IPR018249 - EF_HAND_2
IPR000800 - Notch_dom

Pfam Domains:
PF00066 - LNR domain
PF06464 - DMAP1-binding Domain
PF11380 - Stealth protein CR2, conserved region 2
PF13202 - EF hand
PF17101 - Stealth protein CR1, conserved region 1
PF17102 - Stealth protein CR3, conserved region 3
PF17103 - Stealth protein CR4, conserved region 4
PF18440 - Putative GlcNAc-1 phosphotransferase regulatory domain

SCOP Domains:
47473 - EF-hand
90193 - Notch domain

ModBase Predicted Comparative 3D Structure on Q3T906
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-  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 Details  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003976 UDP-N-acetylglucosamine-lysosomal-enzyme N-acetylglucosaminephosphotransferase activity
GO:0005509 calcium ion binding
GO:0005515 protein binding
GO:0016740 transferase activity
GO:0016772 transferase activity, transferring phosphorus-containing groups
GO:0046872 metal ion binding

Biological Process:
GO:0007040 lysosome organization
GO:0009306 protein secretion
GO:0016256 N-glycan processing to lysosome
GO:0033299 secretion of lysosomal enzymes
GO:0046835 carbohydrate phosphorylation

Cellular Component:
GO:0000139 Golgi membrane
GO:0005794 Golgi apparatus
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK001821 - Homo sapiens cDNA FLJ10959 fis, clone PLACE1000562.
AL359588 - Homo sapiens mRNA; cDNA DKFZp762B226 (from clone DKFZp762B226).
CR749871 - Homo sapiens mRNA; cDNA DKFZp762B226 (from clone DKFZp762B226).
AM085438 - Homo sapiens mRNA for alpha-beta GlcNAc-1-phosphotransferase (GNPTA gene).
BC042615 - Homo sapiens N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits, mRNA (cDNA clone IMAGE:4470615), partial cds.
AB033034 - Homo sapiens mRNA for KIAA1208 protein, partial cds.
AY687932 - Homo sapiens GlcNAc-phosphotransferase precursor, mRNA, complete cds.
BC131787 - Homo sapiens N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits, mRNA (cDNA clone MGC:156301 IMAGE:40126580), complete cds.
AK056137 - Homo sapiens cDNA FLJ31575 fis, clone NT2RI2001846, moderately similar to Basic domain/leucine zipper transcription factor.
BC071687 - Homo sapiens N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits, mRNA (cDNA clone IMAGE:5198325), complete cds.
AL832172 - Homo sapiens mRNA; cDNA DKFZp686H2016 (from clone DKFZp686H2016).
BC002779 - Homo sapiens N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits, mRNA (cDNA clone IMAGE:3618204), complete cds.
BC094884 - Homo sapiens N-acetylglucosamine-1-phosphate transferase, alpha and beta subunits, mRNA (cDNA clone IMAGE:3606067), complete cds.
KJ903160 - Synthetic construct Homo sapiens clone ccsbBroadEn_12554 GNPTAB gene, encodes complete protein.
KR709938 - Synthetic construct Homo sapiens clone CCSBHm_00007941 GNPTAB (GNPTAB) mRNA, encodes complete protein.
JD458063 - Sequence 439087 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A2RRQ9, ENST00000299314.1, ENST00000299314.10, ENST00000299314.11, ENST00000299314.2, ENST00000299314.3, ENST00000299314.4, ENST00000299314.5, ENST00000299314.6, ENST00000299314.7, ENST00000299314.8, ENST00000299314.9, GNPTA, GNPTA_HUMAN, KIAA1208, NM_024312, Q3T906, Q3ZQK2, Q6IPW5, Q86TQ2, Q96N13, Q9ULL2, uc317mix.1, uc317mix.2
UCSC ID: ENST00000299314.12_7
RefSeq Accession: NM_024312.5
Protein: Q3T906 (aka GNPTA_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene GNPTAB:
ml2 (GNPTAB-Related Disorders)

-  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.