FB2018_06, released Dec 21, 2018 All FlyBase archives from FB2014_04 until FB2018_05 are temporarily unavailable.

Gene: Dmel\Pcmt

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General Information
Symbol
Dmel\Pcmt
Species
D. melanogaster
Name
Protein-L-isoaspartate (D-aspartate) O-methyltransferase
Annotation Symbol
CG2152
Feature Type
protein_coding_gene
FlyBase ID
FBgn0086768
Gene Model Status
Current
Stock Availability
12 publicly available
Enzyme Name (EC)
Protein-L-isoaspartate(D-aspartate) O-methyltransferase (2.1.1.77)
Gene Snapshot
In progress.Contributions welcome.
Other Summaries
Also Known As
PIMT
Key Links
Genomic Location
Cytogenetic map
101F-83B1
Sequence location
3R:5,552,823..5,554,316 [-]
Recombination map
3-47.5
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI Genome Data Viewer
UCSC Genome Browser
Ensembl Genome Browser
PopFly Genome Browser
GO Summary Ribbons
Families, Domains and Molecular Function
Gene Group Membership (FlyBase)
Protein Family (UniProt, Sequence Similarities)
Belongs to the methyltransferase superfamily. L-isoaspartyl/D-aspartyl protein methyltransferase family. (Q27869)
Protein Domains/Motifs
InterPro
Protein-L-isoaspartate(D-aspartate) O-methyltransferase; S-adenosyl-L-methionine-dependent methyltransferase
Molecular Function (see GO section for details)
Experimental Evidence
protein-L-isoaspartate (D-aspartate) O-methyltransferase activity
Predictions / Assertions
protein-L-isoaspartate (D-aspartate) O-methyltransferase activity
Catalytic Activity (EC)
Experimental Evidence
S-adenosyl-L-methionine + protein L-isoaspartate = S-adenosyl-L- homocysteine + protein L-isoaspartate alpha-methyl ester (2.1.1.77)
Predictions / Assertions
S-adenosyl-L-methionine + protein L-isoaspartate = S-adenosyl-L- homocysteine + protein L-isoaspartate alpha-methyl ester (2.1.1.77)
Summaries
UniProt Contributed Function Data
Catalyzes the methyl esterification of L-isoaspartyl and D-aspartyl residues in peptides and proteins that result from spontaneous decomposition of normal L-aspartyl and L-asparaginyl residues. It plays a role in the repair and/or degradation of damaged proteins.
(UniProt, Q27869)
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
2

Please see the GBrowse view of Dmel\Pcmt or the JBrowse view of Dmel\Pcmt for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Comments on Gene Model
Gene model reviewed during 5.48
Low-frequency RNA-Seq exon junction(s) not annotated.
Gene model reviewed during 5.43
Gene model reviewed during 5.49
Sequence Ontology: Class of Gene
gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Pcmt-RA
FBtr0078758
NM_080508
953
226
Pcmt-RC
FBtr0339519
NM_001275358
998
203
Additional Transcript Data and Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
Pcmt-PA
FBpp0078405
24.6
226
7.23
NP_536756
AAF52012
Pcmt-PC
FBpp0308602
21.9
203
7.70
NP_001262287
AGB95670
Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Subunit Structure (UniProtKB)
Monomer.
(UniProt, Q27869)
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Pcmt using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Gene Ontology (4 terms)
Molecular Function (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
protein-L-isoaspartate (D-aspartate) O-methyltransferase activity
inferred from direct assay
(Bennett et al., 2003)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
protein-L-isoaspartate (D-aspartate) O-methyltransferase activity
inferred from biological aspect of ancestor with PANTHER:PTN000171727
(assigned by GO_Central )
(Gaudet et al., 2011)
Biological Process (2 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
defense response to bacterium
inferred from mutant phenotype
(Ayres et al., 2008)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
cellular protein modification process
inferred from electronic annotation with InterPro:IPR000682
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
Cellular Component (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
cytoplasm
inferred from biological aspect of ancestor with PANTHER:PTN000171727
(assigned by GO_Central )
(Gaudet et al., 2011)
Expression Data
Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 1 -- 3
organism

Comment: maternally deposited

(Fisher et al., 2012)
embryonic stage 4 -- 6
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 7 -- 8
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 9 -- 10
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 11 -- 12
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 13 -- 16
organism | ubiquitous
(Fisher et al., 2012)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage
adult head
(Aradska et al., 2015)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Pcmt in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs and Phenotypes
Classical and Insertion Alleles ( 3 )
For All Classical and Insertion Alleles Show
 
Allele of Pcmt
Class
Mutagen
Associated Insertion
Stocks
Known lesion
Pcmtf00979
2
Yes
PcmtG4610
1
Yes
PcmtLT
1
Yes
Other relevant insertions
Transgenic Constructs ( 4 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Pcmt
Allele of Pcmt
Mutagen
Associated Transgenic Construct
Stocks
PcmtGD8637
2
PcmtUAS.cCa
3
PcmtdsRNA.IR.UAS
2
PcmtHMS00768
1
Transgenic constructs containing regulatory region of Pcmt
Deletions and Duplications ( 2 )
Summary of Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v7.1)
Homo sapiens (Human) (3)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\PCMT1
15 of 15
Yes
Yes
Hsap\PCMTD1
1 of 15
No
Yes
Hsap\PCMTD2
1 of 15
No
Yes
Model Organism Orthologs (via DIOPT v7.1)
Mus musculus (laboratory mouse) (3)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Pcmt1
13 of 15
Yes
Yes
Mmus\Pcmtd1
1 of 15
No
Yes
Mmus\Pcmtd2
1 of 15
No
Yes
Rattus norvegicus (Norway rat) (2)
Rnor\Pcmt1
11 of 13
Yes
Yes
Rnor\Pcmtd2
1 of 13
No
Yes
Xenopus tropicalis (Western clawed frog) (3)
Xtro\pcmt1
8 of 12
Yes
Yes
Xtro\LOC100216173
7 of 12
No
Yes
Xtro\pcmtd2
1 of 12
No
Yes
Danio rerio (Zebrafish) (5)
Drer\pcmt
14 of 15
Yes
Yes
Drer\pcmtl
12 of 15
No
Yes
Drer\LOC100536777
1 of 15
No
Yes
Drer\pcmtd1
1 of 15
No
Yes
Drer\pcmtd2
1 of 15
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (2)
Cele\pcm-1
15 of 15
Yes
Yes
Cele\R119.5
1 of 15
No
Yes
Arabidopsis thaliana (thale-cress) (2)
Atha\PIMT1
9 of 9
Yes
Yes
Atha\PIMT2
7 of 9
No
Yes
Saccharomyces cerevisiae (Brewer's yeast) (0)
No orthologs reported.
Schizosaccharomyces pombe (Fission yeast) (1)
Spom\pcm2
12 of 12
Yes
Yes
Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG09190EY6 )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila melanogaster
fruit fly
Dmel\Pcmt
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00009219
Drosophila simulans
Dsim\GD19608
Drosophila sechellia
Dsec\GM10623
Drosophila erecta
Dere\GG10966
Drosophila yakuba
Dyak\GE24165
Drosophila ananassae
Dana\GF16041
Drosophila ananassae
Dana\GF16034
Drosophila ananassae
Dana\GF19032
Drosophila pseudoobscura pseudoobscura
Dpse\GA15271
Drosophila persimilis
Dper\GL22157
Drosophila willistoni
Dwil\GK13781
Drosophila virilis
Dvir\GJ24552
Drosophila mojavensis
Dmoj\GI24486
Drosophila grimshawi
Dgri\GH22401
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG09150CWF )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17006080
Glossina morsitans
Tsetse fly
Gmor\GMOY010377
Glossina morsitans
Tsetse fly
Gmor\GMOY004517
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_08137
Mayetiola destructor
Hessian fly
Mdes\Mdes016178
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL015520
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL001465
Anopheles darlingi
American malaria mosquito
Adar\ADAC002594
Anopheles gambiae
Malaria mosquito
Agam\AGAP000457
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ016406
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0FGS )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA004956
Danaus plexippus
Monarch butterfly
Dple\DPOGS208499-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL008756
Apis florea
Little honeybee
Aflo\2184456420
Apis florea
Little honeybee
Aflo\2736854996
Apis mellifera
Western honey bee
Amel\GB44080
Apis mellifera
Western honey bee
Amel\GB44141
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP10562
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP21277
Bombus terrestris
Buff-tailed bumblebee
Bter\15204761
Bombus terrestris
Buff-tailed bumblebee
Bter\15215817
Linepithema humile
Argentine ant
Lhum\LH14641
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:00307f
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:001630
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG010224
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG025136
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG010222
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG012564
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_12562
Tribolium castaneum
Red flour beetle
Tcas\GLEAN_07209
Pediculus humanus
Human body louse
Phum\PHUM349660
Rhodnius prolixus
Kissing bug
Rpro\RPRC011601
Cimex lectularius
Bed bug
Clec\CLEC011097
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI004561
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_07226
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0FGO )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR004911
Ixodes scapularis
Black-legged tick
Isca\ISCW019420
Stegodyphus mimosarum
African social velvet spider
Smim\KFM69612.1
Tetranychus urticae
Two-spotted spider mite
Turt\tetur04g06610
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_47356
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0OTG )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Pcmt1
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000014385
Gallus gallus
Domestic chicken
Ggal\LOC423008
Gallus gallus
Domestic chicken
Ggal\PCMT1
Human Disease Model Data
FlyBase Human Disease Model Reports
    Alleles Reported to Model Human Disease (Disease Ontology)
    Download
    Models ( 0 )
    Allele
    Disease
    Evidence
    References
    Interactions ( 0 )
    Allele
    Disease
    Interaction
    References
    Comments ( 0 )
     
    Human Orthologs (via DIOPT v7.1)
    Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    Complementation?
    Transgene?
    PCMT1; protein-L-isoaspartate (D-aspartate) O-methyltransferase
    15 of 15
    176851
      Functional Complementation Data
      Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
      Interactions
      Summary of Physical Interactions
      esyN Network Diagram
      Interactions Browser
      Summary of Genetic Interactions
      esyN Network Diagram
      Starting gene(s)
      Interaction type
      Interacting gene(s)
      Reference
      Starting gene(s)
      Interaction type
      Interacting gene(s)
      Reference
      External Data
      Subunit Structure (UniProtKB)
      Monomer.
      (UniProt, Q27869 )
      Linkouts
      DroID - A comprehensive database of gene and protein interactions.
      InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
      Pathways
      Gene Group - Pathway Membership (FlyBase)
      External Data
      Linkouts
      Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
      Genomic Location and Detailed Mapping Data
      Chromosome (arm)
      3R
      Recombination map
      3-47.5
      Cytogenetic map
      101F-83B1
      Sequence location
      3R:5,552,823..5,554,316 [-]
      FlyBase Computed Cytological Location
      Cytogenetic map
      Evidence for location
      101F-83B1
      Left limit from in situ hybridisation (FBrf0085080) Right limit from in situ hybridisation (FBrf0085080); Limits computationally determined from genome sequence between P{PZ}Snr101319&P{PZ}Itp-r83A05616 and P{lacW}Atus1938
      Experimentally Determined Cytological Location
      Cytogenetic map
      Notes
      References
      83A5-83A6
      (O'Connor, 2000.1.4)
      83A-83B
      (O'Connor, 1995.12.21)
      83A-83B
      (determined by in situ hybridisation)
      (O'Connor et al., 1997)
      101F-102A
      (determined by in situ hybridisation)
      (Galus et al., 1995)
      Experimentally Determined Recombination Data
      Location
      3-47.5
      (FlyBase, 2016)
      3-44.1
      (Comeron et al., 2012)
      3-
      (O'Connor, 1995.12.21)
      Left of (cM)
      Right of (cM)
      Notes
      Stocks and Reagents
      Stocks (12)
      Genomic Clones (19)
      cDNA Clones (42)
       

      Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.

      cDNA clones, fully sequences
      BDGP DGC clones
      Other clones
      Drosophila Genomics Resource Center cDNA clones

      For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

      cDNA Clones, End Sequenced (ESTs)
      BDGP DGC clones
      Other clones
      RNAi and Array Information
      Linkouts
      DRSC - Results frm RNAi screens
      GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
      Antibody Information
      Laboratory Generated Antibodies
       
      Commercially Available Antibodies
       
      Other Information
      Relationship to Other Genes
      Source for database identify of
      Source for identity of: Pcmt CG2152
      (Gong, 1999.11)
      Source for database merge of
      Source for merge of: Pcmt Pimt
      (Bennett et al., 2003)
      Additional comments
      FlyBase curator comment: As pointed out by Terence Murphy of NCBI, the amino acid sequence given in Figure 1 for Pimt is identical to that of Pcmt. Therefore, this publication is the source of the merge for the two genes.
      (Bennett et al., 2003)
      Other Comments
      Nonsense-mediated mRNA decay (NMD) down-regulates a distinct splice isoform(s) of this gene.
      (Hansen et al., 2009)
      Pcmt has been cloned and sequenced.
      (O'Connor et al., 1997)
      Origin and Etymology
      Discoverer
      Etymology
      Identification
      External Crossreferences and Linkouts ( 39 )
      Crossreferences
      NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
      GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
      GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
      RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
      UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
      UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
      Other crossreferences
      BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
      InterPro - A database of protein families, domains and functional sites
      Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
      Linkouts
      Drosophila Genomics Resource Center - Drosophila Genomics Resource Center cDNA clones
      DPiM - Drosophila Protein interaction map
      DroID - A comprehensive database of gene and protein interactions.
      DRSC - Results frm RNAi screens
      Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
      FLIGHT - Cell culture data for RNAi and other high-throughput technologies
      Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
      Flygut - An atlas of the Drosophila adult midgut
      FlyMine - An integrated database for Drosophila genomics
      GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
      iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
      InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
      KEGG Genes - Molecular building blocks of life in the genomic space.
      modMine - A data warehouse for the modENCODE project
      Synonyms and Secondary IDs (10)
      Reported As
      Symbol Synonym
      CG2152
      (Çiçek et al., 2016, Ni et al., 2010.12.1, Hansen et al., 2009, Ayres et al., 2008)
      PCMT
      (Jones and Grotewiel, 2011)
      PIMT
      (David et al., 1999, Galus et al., 1995)
      Pcmt
      (Al-Ramahi et al., 2018, Louie et al., 2016, Kwon et al., 2013, Hansen et al., 2009, O'Connor, 2009.5.11, O'Connor and Tanini, 2009.6.24)
      Pimt
      dPIMT
      (Bennett et al., 2003)
      pcmt
      (Ayres et al., 2008)
      Name Synonyms
      Protein isoaspartyl methyltransferase
      (Galus et al., 1995)
      Protein-L-isoaspartate (D-aspartate) O-methyltransferase
      protein D-aspartyl, L-isoaspartyl O-methyltransferase
      (O'Connor, 1995.10.2)
      Secondary FlyBase IDs
      • FBgn0015276
      • FBgn0015280
      • FBgn0022769
      Datasets (0)
      Study focus (0)
      Experimental Role
      Project
      Project Type
      Title
      References (44)