Human Gene AGPAT1 (uc003oae.3) Description and Page Index
  Description: Homo sapiens 1-acylglycerol-3-phosphate O-acyltransferase 1 (AGPAT1), transcript variant 1, mRNA.
RefSeq Summary (NM_006411): This gene encodes an enzyme that converts lysophosphatidic acid (LPA) into phosphatidic acid (PA). LPA and PA are two phospholipids involved in signal transduction and in lipid biosynthesis in cells. This enzyme localizes to the endoplasmic reticulum. This gene is located in the class III region of the human major histocompatibility complex. Alternative splicing results in two transcript variants encoding the same protein. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr6:32,135,983-32,143,916 Size: 7,934 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr6:32,137,053-32,139,273 Size: 2,221 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:32,135,983-32,143,916)mRNA (may differ from genome)Protein (283 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeStanford SOURCETreefam
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: PLCA_HUMAN
DESCRIPTION: RecName: Full=1-acyl-sn-glycerol-3-phosphate acyltransferase alpha; EC=2.3.1.51; AltName: Full=1-acylglycerol-3-phosphate O-acyltransferase 1; Short=1-AGP acyltransferase 1; Short=1-AGPAT 1; AltName: Full=Lysophosphatidic acid acyltransferase alpha; Short=LPAAT-alpha; AltName: Full=Protein G15;
FUNCTION: Converts lysophosphatidic acid (LPA) into phosphatidic acid by incorporating an acyl moiety at the sn-2 position of the glycerol backbone.
CATALYTIC ACTIVITY: Acyl-CoA + 1-acyl-sn-glycerol 3-phosphate = CoA + 1,2-diacyl-sn-glycerol 3-phosphate.
PATHWAY: Phospholipid metabolism; CDP-diacylglycerol biosynthesis; CDP-diacylglycerol from sn-glycerol 3-phosphate: step 2/3.
SUBCELLULAR LOCATION: Membrane; Multi-pass membrane protein (Potential).
DOMAIN: The HXXXXD motif is essential for acyltransferase activity and may constitute the binding site for the phosphate moiety of the glycerol-3-phosphate (By similarity).
SIMILARITY: Belongs to the 1-acyl-sn-glycerol-3-phosphate acyltransferase family.
SEQUENCE CAUTION: Sequence=AAB47493.1; Type=Erroneous initiation;

-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): AGPAT1
CDC HuGE Published Literature: AGPAT1
Positive Disease Associations: Diabetes Mellitus, Type 1 , Macular Degeneration , Phospholipids , Psoriasis
Related Studies:
  1. Diabetes Mellitus, Type 1
    , , . [PubMed 0]
  2. Macular Degeneration
    , , . [PubMed 0]
  3. Macular Degeneration
    , , . [PubMed 0]
           more ... click here to view the complete list

-  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: 13.28 RPKM in Testis
Total median expression: 305.63 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 -162.74335-0.486 Picture PostScript Text
3' UTR -378.191070-0.353 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
IPR002123 - Acyltransferase
IPR004552 - AGP_acyltrans

Pfam Domains:
PF01553 - Acyltransferase

SCOP Domains:
69593 - Glycerol-3-phosphate (1)-acyltransferase

ModBase Predicted Comparative 3D Structure on Q99943
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003841 1-acylglycerol-3-phosphate O-acyltransferase activity
GO:0005515 protein binding
GO:0016740 transferase activity
GO:0016746 transferase activity, transferring acyl groups

Biological Process:
GO:0001819 positive regulation of cytokine production
GO:0001961 positive regulation of cytokine-mediated signaling pathway
GO:0006629 lipid metabolic process
GO:0006644 phospholipid metabolic process
GO:0006654 phosphatidic acid biosynthetic process
GO:0008152 metabolic process
GO:0008654 phospholipid biosynthetic process
GO:0016024 CDP-diacylglycerol biosynthetic process
GO:0031325 positive regulation of cellular metabolic process

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


-  Descriptions from all associated GenBank mRNAs
  AB209572 - Homo sapiens mRNA for palmitoyl-protein thioesterase 2 isoform c precursor variant protein.
BC004310 - Homo sapiens 1-acylglycerol-3-phosphate O-acyltransferase 1 (lysophosphatidic acid acyltransferase, alpha), mRNA (cDNA clone MGC:10915 IMAGE:3627439), complete cds.
BC006818 - Homo sapiens 1-acylglycerol-3-phosphate O-acyltransferase 1 (lysophosphatidic acid acyltransferase, alpha), mRNA (cDNA clone IMAGE:3448169).
AF007145 - Homo sapiens clone 23552 unknown mRNA, partial cds.
AK129818 - Homo sapiens cDNA FLJ26307 fis, clone DMC08287, highly similar to 1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (EC 2.3.1.51).
Y09565 - H.sapiens mRNA for 1-acylglycerol-3-phosphate O-acyltransferase.
BC090849 - Homo sapiens 1-acylglycerol-3-phosphate O-acyltransferase 1 (lysophosphatidic acid acyltransferase, alpha), mRNA (cDNA clone MGC:102686 IMAGE:6169543), complete cds.
BC002402 - Homo sapiens 1-acylglycerol-3-phosphate O-acyltransferase 1 (lysophosphatidic acid acyltransferase, alpha), mRNA (cDNA clone MGC:8511 IMAGE:2822348), complete cds.
BC003007 - Homo sapiens 1-acylglycerol-3-phosphate O-acyltransferase 1 (lysophosphatidic acid acyltransferase, alpha), mRNA (cDNA clone MGC:4007 IMAGE:2822348), complete cds.
GQ900963 - Homo sapiens clone HEL-T-75 epididymis secretory sperm binding protein mRNA, complete cds.
AK058025 - Homo sapiens cDNA FLJ25296 fis, clone STM07640, highly similar to 1-ACYL-SN-GLYCEROL-3-PHOSPHATE ACYLTRANSFERASE ALPHA (EC 2.3.1.51).
U56417 - Human lysophosphatidic acid acyltransferase-alpha mRNA, complete cds.
U75971 - Homo sapiens putative lysophospholipid acyltransferase mRNA, complete cds.
AF218034 - Homo sapiens clone PP931 unknown mRNA.
AK056346 - Homo sapiens cDNA FLJ31784 fis, clone NT2RI2008481, highly similar to 1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (EC 2.3.1.51).
JD189693 - Sequence 170717 from Patent EP1572962.
JD259466 - Sequence 240490 from Patent EP1572962.
JD263194 - Sequence 244218 from Patent EP1572962.
JD055850 - Sequence 36874 from Patent EP1572962.
JD468191 - Sequence 449215 from Patent EP1572962.
JD181502 - Sequence 162526 from Patent EP1572962.
JD222358 - Sequence 203382 from Patent EP1572962.
JD134722 - Sequence 115746 from Patent EP1572962.
JD383484 - Sequence 364508 from Patent EP1572962.
JD556562 - Sequence 537586 from Patent EP1572962.
JD384413 - Sequence 365437 from Patent EP1572962.
JD436655 - Sequence 417679 from Patent EP1572962.
AK299252 - Homo sapiens cDNA FLJ54610 complete cds, highly similar to 1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (EC 2.3.1.51).
JD355362 - Sequence 336386 from Patent EP1572962.
JD206186 - Sequence 187210 from Patent EP1572962.
JD253313 - Sequence 234337 from Patent EP1572962.
JD326725 - Sequence 307749 from Patent EP1572962.
JD286541 - Sequence 267565 from Patent EP1572962.
JD521807 - Sequence 502831 from Patent EP1572962.
JD436733 - Sequence 417757 from Patent EP1572962.
JD415748 - Sequence 396772 from Patent EP1572962.
JD150357 - Sequence 131381 from Patent EP1572962.
AK315950 - Homo sapiens cDNA, FLJ78849 complete cds, highly similar to 1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (EC 2.3.1.51).
JD310415 - Sequence 291439 from Patent EP1572962.
KJ893073 - Synthetic construct Homo sapiens clone ccsbBroadEn_02467 AGPAT1 gene, encodes complete protein.
JD023728 - Sequence 4752 from Patent EP1572962.
JD033559 - Sequence 14583 from Patent EP1572962.
JD335761 - Sequence 316785 from Patent EP1572962.
JD401363 - Sequence 382387 from Patent EP1572962.
JD129853 - Sequence 110877 from Patent EP1572962.
JD189296 - Sequence 170320 from Patent EP1572962.
JD128584 - Sequence 109608 from Patent EP1572962.
JD520315 - Sequence 501339 from Patent EP1572962.
JD317435 - Sequence 298459 from Patent EP1572962.
JD441087 - Sequence 422111 from Patent EP1572962.
JD451915 - Sequence 432939 from Patent EP1572962.
JD140329 - Sequence 121353 from Patent EP1572962.
JD104699 - Sequence 85723 from Patent EP1572962.
JD123675 - Sequence 104699 from Patent EP1572962.
JD407284 - Sequence 388308 from Patent EP1572962.
JD341440 - Sequence 322464 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa00561 - Glycerolipid metabolism
hsa00564 - Glycerophospholipid metabolism
hsa01100 - Metabolic pathways

BioCyc Knowledge Library
PHOSLIPSYN-PWY - phospholipid biosynthesis I
PWY-5667 - CDP-diacylglycerol biosynthesis I
PWY0-1319 - CDP-diacylglycerol biosynthesis II
PWY4FS-7 - phosphatidylglycerol biosynthesis I (plastidic)
PWY4FS-8 - phosphatidylglycerol biosynthesis II (non-plastidic)
TRIGLSYN-PWY - triacylglycerol biosynthesis

Reactome (by CSHL, EBI, and GO)

Protein Q99943 (Reactome details) participates in the following event(s):

R-HSA-75885 1-acyl LPA is acylated to PA by AGPAT (LPAAT)
R-HSA-163765 ChREBP activates metabolic gene expression
R-HSA-163685 Energy Metabolism
R-HSA-1483166 Synthesis of PA
R-HSA-1430728 Metabolism
R-HSA-1483206 Glycerophospholipid biosynthesis
R-HSA-1483257 Phospholipid metabolism
R-HSA-556833 Metabolism of lipids

-  Other Names for This Gene
  Alternate Gene Symbols: A2BFI5, G15, NM_006411, NP_116130, PLCA_HUMAN, Q5BL03, Q99943
UCSC ID: uc003oae.3
RefSeq Accession: NM_006411
Protein: Q99943 (aka PLCA_HUMAN)
CCDS: CCDS4744.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_006411.3
exon count: 7CDS single in 3' UTR: no RNA size: 2259
ORF size: 852CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1856.00frame shift in genome: no % Coverage: 99.91
has start codon: yes stop codon in genome: no # of Alignments: 7
has end codon: yes retained intron: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 308# strange splices: 0
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-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.