Human Gene STT3A (ENST00000392708.9_4) from GENCODE V47lift37
  Description: STT3 oligosaccharyltransferase complex catalytic subunit A, transcript variant 2 (from RefSeq NM_152713.5)
Gencode Transcript: ENST00000392708.9_4
Gencode Gene: ENSG00000134910.14_11
Transcript (Including UTRs)
   Position: hg19 chr11:125,462,747-125,492,986 Size: 30,240 Total Exon Count: 18 Strand: +
Coding Region
   Position: hg19 chr11:125,465,811-125,490,705 Size: 24,895 Coding Exon Count: 17 

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 (chr11:125,462,747-125,492,986)mRNA (may differ from genome)Protein (705 aa)
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HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: STT3A_HUMAN
DESCRIPTION: RecName: Full=Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3A; Short=Oligosaccharyl transferase subunit STT3A; Short=STT3-A; EC=2.4.1.119; AltName: Full=B5; AltName: Full=Integral membrane protein 1; AltName: Full=Transmembrane protein TMC;
FUNCTION: Catalytic component of oligosaccharyltransferase (OST) oligosaccharyltransferase (OST) complex which catalyzes the transfer of a high mannose oligosaccharide from a lipid-linked oligosaccharide donor to an asparagine residue within an Asn-X- Ser/Thr consensus motif in nascent polypeptide chains. N- glycosylation occurs cotranslationally and the complex associates with the Sec61 complex at the channel-forming translocon complex that mediates protein translocation across the endoplasmic reticulum (ER). SST3A seems to be involved in complex substrate specificity. STT3A is present in the majority of OST complexes and mediates cotranslational N-glycosylation of most sites on target proteins, while STT3B-containing complexes are required for efficient cotranslational glycosylation and mediate glycosylation of sites that have been skipped by STT3A.
CATALYTIC ACTIVITY: Dolichyl diphosphooligosaccharide + protein L- asparagine = dolichyl diphosphate + a glycoprotein with the oligosaccharide chain attached by N-glycosyl linkage to protein L- asparagine.
SUBUNIT: Component of the oligosaccharyltransferase (OST) complex (By similarity). OST seems to exist in different forms which contain at least RPN1, RPN2, OST48, DAD1, OSTC, KRTCAP2 and either STT3A or STT3B. OST can form stable complexes with the Sec61 complex or with both the Sec61 and TRAP complexes.
INTERACTION: O43187:IRAK2; NbExp=2; IntAct=EBI-719212, EBI-447733; Q6PDS3:Sarm1 (xeno); NbExp=2; IntAct=EBI-719212, EBI-6117196; Q86WV6:TMEM173; NbExp=2; IntAct=EBI-719212, EBI-2800345;
SUBCELLULAR LOCATION: Endoplasmic reticulum membrane; Multi-pass membrane protein.
TISSUE SPECIFICITY: Expressed at high levels in placenta, liver, muscle and pancreas, and at very low levels in brain, lung and kidney. Expressed in skin fibroblasts (at protein level).
SIMILARITY: Belongs to the STT3 family.

-  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: STT3A
Diseases sorted by gene-association score: congenital disorder of glycosylation, type iw* (1600), stt3a-cdg* (100), deafness, autosomal dominant 36 (12), deafness, autosomal recessive 7 (8), deafness, autosomal recessive 63 (8)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 41.37 RPKM in Cells - Cultured fibroblasts
Total median expression: 720.81 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 -33.60102-0.329 Picture PostScript Text
3' UTR -638.202281-0.280 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
IPR003674 - Oligo_trans_STT3

Pfam Domains:
PF02516 - Oligosaccharyl transferase STT3 subunit

ModBase Predicted Comparative 3D Structure on P46977
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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    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004576 oligosaccharyl transferase activity
GO:0004579 dolichyl-diphosphooligosaccharide-protein glycotransferase activity
GO:0005515 protein binding
GO:0016740 transferase activity
GO:0016757 transferase activity, transferring glycosyl groups
GO:0046872 metal ion binding

Biological Process:
GO:0006486 protein glycosylation
GO:0018279 protein N-linked glycosylation via asparagine
GO:0043686 co-translational protein modification
GO:0043687 post-translational protein modification

Cellular Component:
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0008250 oligosaccharyltransferase complex
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  L47337 - Homo sapiens transmembrane protein (TMC) mRNA, complete cds.
LF384539 - JP 2014500723-A/192042: Polycomb-Associated Non-Coding RNAs.
AK290040 - Homo sapiens cDNA FLJ78697 complete cds, highly similar to Homo sapiens integral membrane protein 1 (ITM1), mRNA.
AK290657 - Homo sapiens cDNA FLJ76123 complete cds, highly similar to Homo sapiens integral membrane protein 1 (ITM1), mRNA.
AX799092 - Sequence 11 from Patent WO03054008.
L38961 - Human putative transmembrane protein precursor (B5) mRNA, complete cds.
AK308902 - Homo sapiens cDNA, FLJ98943.
BX649102 - Homo sapiens mRNA; cDNA DKFZp779N2434 (from clone DKFZp779N2434).
BC020965 - Homo sapiens STT3, subunit of the oligosaccharyltransferase complex, homolog A (S. cerevisiae), mRNA (cDNA clone MGC:9042 IMAGE:3891543), complete cds.
AK295892 - Homo sapiens cDNA FLJ58575 complete cds, highly similar to Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit STT3A (EC 2.4.1.119).
BC048348 - Homo sapiens STT3, subunit of the oligosaccharyltransferase complex, homolog A (S. cerevisiae), mRNA (cDNA clone MGC:54262 IMAGE:5561615), complete cds.
CU676790 - Synthetic construct Homo sapiens gateway clone IMAGE:100017462 5' read STT3A mRNA.
BT007100 - Homo sapiens integral membrane protein 1 mRNA, complete cds.
KJ891493 - Synthetic construct Homo sapiens clone ccsbBroadEn_00887 STT3A gene, encodes complete protein.
LF376056 - JP 2014500723-A/183559: Polycomb-Associated Non-Coding RNAs.
LF376055 - JP 2014500723-A/183558: Polycomb-Associated Non-Coding RNAs.
LF376053 - JP 2014500723-A/183556: Polycomb-Associated Non-Coding RNAs.
LF376052 - JP 2014500723-A/183555: Polycomb-Associated Non-Coding RNAs.
LF376051 - JP 2014500723-A/183554: Polycomb-Associated Non-Coding RNAs.
AK130548 - Homo sapiens cDNA FLJ27038 fis, clone SLV08213, highly similar to Oligosaccharyl transferase STT3 subunit homolog.
LF376049 - JP 2014500723-A/183552: Polycomb-Associated Non-Coding RNAs.
LF376048 - JP 2014500723-A/183551: Polycomb-Associated Non-Coding RNAs.
LF376047 - JP 2014500723-A/183550: Polycomb-Associated Non-Coding RNAs.
LF376045 - JP 2014500723-A/183548: Polycomb-Associated Non-Coding RNAs.
LF376044 - JP 2014500723-A/183547: Polycomb-Associated Non-Coding RNAs.
LF376042 - JP 2014500723-A/183545: Polycomb-Associated Non-Coding RNAs.
LF376041 - JP 2014500723-A/183544: Polycomb-Associated Non-Coding RNAs.
LF376037 - JP 2014500723-A/183540: Polycomb-Associated Non-Coding RNAs.
LF376036 - JP 2014500723-A/183539: Polycomb-Associated Non-Coding RNAs.
LF376034 - JP 2014500723-A/183537: Polycomb-Associated Non-Coding RNAs.
LF376033 - JP 2014500723-A/183536: Polycomb-Associated Non-Coding RNAs.
JD067586 - Sequence 48610 from Patent EP1572962.
JD060454 - Sequence 41478 from Patent EP1572962.
LF376032 - JP 2014500723-A/183535: Polycomb-Associated Non-Coding RNAs.
LF376031 - JP 2014500723-A/183534: Polycomb-Associated Non-Coding RNAs.
LF376030 - JP 2014500723-A/183533: Polycomb-Associated Non-Coding RNAs.
MA620116 - JP 2018138019-A/192042: Polycomb-Associated Non-Coding RNAs.
MA611633 - JP 2018138019-A/183559: Polycomb-Associated Non-Coding RNAs.
MA611632 - JP 2018138019-A/183558: Polycomb-Associated Non-Coding RNAs.
MA611630 - JP 2018138019-A/183556: Polycomb-Associated Non-Coding RNAs.
MA611629 - JP 2018138019-A/183555: Polycomb-Associated Non-Coding RNAs.
MA611628 - JP 2018138019-A/183554: Polycomb-Associated Non-Coding RNAs.
MA611626 - JP 2018138019-A/183552: Polycomb-Associated Non-Coding RNAs.
MA611625 - JP 2018138019-A/183551: Polycomb-Associated Non-Coding RNAs.
MA611624 - JP 2018138019-A/183550: Polycomb-Associated Non-Coding RNAs.
MA611622 - JP 2018138019-A/183548: Polycomb-Associated Non-Coding RNAs.
MA611621 - JP 2018138019-A/183547: Polycomb-Associated Non-Coding RNAs.
MA611619 - JP 2018138019-A/183545: Polycomb-Associated Non-Coding RNAs.
MA611618 - JP 2018138019-A/183544: Polycomb-Associated Non-Coding RNAs.
MA611614 - JP 2018138019-A/183540: Polycomb-Associated Non-Coding RNAs.
MA611613 - JP 2018138019-A/183539: Polycomb-Associated Non-Coding RNAs.
MA611611 - JP 2018138019-A/183537: Polycomb-Associated Non-Coding RNAs.
MA611610 - JP 2018138019-A/183536: Polycomb-Associated Non-Coding RNAs.
MA611609 - JP 2018138019-A/183535: Polycomb-Associated Non-Coding RNAs.
MA611608 - JP 2018138019-A/183534: Polycomb-Associated Non-Coding RNAs.
MA611607 - JP 2018138019-A/183533: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
MANNOSYL-CHITO-DOLICHOL-BIOSYNTHESIS - protein N-glycosylation initial phase (eukaryotic)

Reactome (by CSHL, EBI, and GO)

Protein P46977 (Reactome details) participates in the following event(s):

R-HSA-446209 Transfer of N-glycan to the protein
R-HSA-446203 Asparagine N-linked glycosylation
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: B4DJ24, E9PNQ1, ENST00000392708.1, ENST00000392708.2, ENST00000392708.3, ENST00000392708.4, ENST00000392708.5, ENST00000392708.6, ENST00000392708.7, ENST00000392708.8, ITM1, NM_152713, P46977, Q86XU9, Q8TE35, Q8WUB4, STT3A , STT3A_HUMAN, TMC, uc318vht.1, uc318vht.2
UCSC ID: ENST00000392708.9_4
RefSeq Accession: NM_152713.5
Protein: P46977 (aka STT3A_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene STT3A:
cdg (Congenital Disorders of N-Linked Glycosylation and Multiple Pathway Overview)

-  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.