Human Gene PCMTD2 (ENST00000308824.11_4) from GENCODE V47lift37

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Description: protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2, transcript variant 1 (from RefSeq NM_018257.3)
Gencode Transcript: ENST00000308824.11_4
Gencode Gene: ENSG00000203880.13_10
Transcript (Including UTRs)
Position: hg19 chr20:62,887,101-62,907,579 Size: 20,479 Total Exon Count: 6 Strand: +
Coding Region
Position: hg19 chr20:62,891,319-62,904,953 Size: 13,635 Coding Exon Count: 5

Page Index	Sequence and Links	UniProtKB Comments	Primers	CTD	Gene Alleles
RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species	GO Annotations
mRNA Descriptions	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr20:62,887,101-62,907,579)			mRNA (may differ from genome)		Protein (361 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	MGI	PubMed	UniProtKB	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: PCMD2_HUMAN DESCRIPTION: RecName: Full=Protein-L-isoaspartate O-methyltransferase domain-containing protein 2; SUBCELLULAR LOCATION: Cytoplasm (By similarity). SIMILARITY: Belongs to the methyltransferase superfamily. L- isoaspartyl/D-aspartyl protein methyltransferase 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

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene C006253 pirinixic acid C049325 1,2-dithiol-3-thione C532162 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine D000082 Acetaminophen D000393 Air Pollutants D001104 Arbutin D001564 Benzo(a)pyrene D016572 Cyclosporine D000431 Ethanol D005839 Gentamicins 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: 26.11 RPKM in Brain - Cerebellar Hemisphere Total median expression: 549.89 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

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-62.90	147	-0.428	Picture	PostScript	Text
3' UTR	-648.20	2626	-0.247	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
IPR000682 - PCMT

Pfam Domains:
PF01135 - Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT)

SCOP Domains:
158235 - SOCS box-like
53335 - S-adenosyl-L-methionine-dependent methyltransferases

ModBase Predicted Comparative 3D Structure on Q9NV79


Front	Top	Side

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.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details	Gene Details			Gene Details
Gene Sorter	Gene Sorter			Gene Sorter
	RGD	Ensembl		WormBase

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0004719 protein-L-isoaspartate (D-aspartate) O-methyltransferase activity Biological Process: GO:0006464 cellular protein modification process GO:0006479 protein methylation GO:0032259 methylation Cellular Component: GO:0005737 cytoplasm

Descriptions from all associated GenBank mRNAs


	BC032332 - Homo sapiens protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2, mRNA (cDNA clone MGC:40288 IMAGE:5169056), complete cds. AB028973 - Homo sapiens mRNA for KIAA1050 protein, partial cds. BC040945 - Homo sapiens protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2, mRNA (cDNA clone MGC:48774 IMAGE:5743937), complete cds. AK001745 - Homo sapiens cDNA FLJ10883 fis, clone NT2RP4001946, weakly similar to PROTEIN-L-ISOASPARTATE O-METHYLTRANSFERASE (EC 2.1.1.77). BC045775 - Homo sapiens protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2, mRNA (cDNA clone MGC:50993 IMAGE:4823937), complete cds. BC033665 - Homo sapiens protein-L-isoaspartate (D-aspartate) O-methyltransferase domain containing 2, mRNA (cDNA clone MGC:45063 IMAGE:4999114), complete cds. JD232140 - Sequence 213164 from Patent EP1572962. KJ894169 - Synthetic construct Homo sapiens clone ccsbBroadEn_03563 PCMTD2 gene, encodes complete protein. KJ906221 - Synthetic construct Homo sapiens clone ccsbBroadEn_15891 PCMTD2 gene, encodes complete protein. AK126700 - Homo sapiens cDNA FLJ44746 fis, clone BRACE3028895. AK074436 - Homo sapiens cDNA FLJ23856 fis, clone LNG07034. JD557203 - Sequence 538227 from Patent EP1572962. JD168112 - Sequence 149136 from Patent EP1572962. JD467556 - Sequence 448580 from Patent EP1572962. JD077823 - Sequence 58847 from Patent EP1572962. JD469120 - Sequence 450144 from Patent EP1572962. JD085431 - Sequence 66455 from Patent EP1572962. JD286244 - Sequence 267268 from Patent EP1572962. JD303204 - Sequence 284228 from Patent EP1572962. JD299523 - Sequence 280547 from Patent EP1572962. JD263124 - Sequence 244148 from Patent EP1572962. JD019845 - Sequence 869 from Patent EP1572962. JD344470 - Sequence 325494 from Patent EP1572962. JD501158 - Sequence 482182 from Patent EP1572962. JD355957 - Sequence 336981 from Patent EP1572962. JD267249 - Sequence 248273 from Patent EP1572962. JD349901 - Sequence 330925 from Patent EP1572962. JD477780 - Sequence 458804 from Patent EP1572962. JD549111 - Sequence 530135 from Patent EP1572962. JD545567 - Sequence 526591 from Patent EP1572962. JD287279 - Sequence 268303 from Patent EP1572962. JD180524 - Sequence 161548 from Patent EP1572962. JD097299 - Sequence 78323 from Patent EP1572962. JD311032 - Sequence 292056 from Patent EP1572962. JD166633 - Sequence 147657 from Patent EP1572962. JD091193 - Sequence 72217 from Patent EP1572962. JD299346 - Sequence 280370 from Patent EP1572962. JD221288 - Sequence 202312 from Patent EP1572962.

Other Names for This Gene


	Alternate Gene Symbols: C20orf36, E1P5H3, ENST00000308824.1, ENST00000308824.10, ENST00000308824.2, ENST00000308824.3, ENST00000308824.4, ENST00000308824.5, ENST00000308824.6, ENST00000308824.7, ENST00000308824.8, ENST00000308824.9, NM_018257, PCMD2_HUMAN, Q8IW60, Q9H4K2, Q9NV79, uc317ojw.1, uc317ojw.2 UCSC ID: ENST00000308824.11_4 RefSeq Accession: NM_018257.3 Protein: Q9NV79 (aka PCMD2_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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