psd1 (SPBC16E9.18)


Gene Standard Namepsd1 Characterisation Statuspublished
Systematic IDSPBC16E9.18 Feature Typeprotein coding
SynonymsSPBC1E8.01 Name Description
Productphosphatidylserine decarboxylase Psd1 Product Size437aa, 49.13 kDa
Genomic Location Chromosome II, 1955636-1957371 (1736nt); CDS:1955709-1957022 (1314nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
phosphatidylserine decarboxylase activity3
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
GO Cellular Component
Term NameCount
integral component of membrane962
Annotation ExtensionEvidenceWith/FromReference
mitochondrial inner membrane162
Annotation ExtensionEvidenceWith/FromReference
mitochondrion751
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
normal growth on glucose carbon sourcepsd1Δ282
viable vegetative cell populationpsd1Δ3840

Cell Phenotype

Term NameGenotypesCount
normal vegetative cell morphologypsd1Δ570
viable vegetative cell with normal cell morphologypsd1Δ3100

FYPO Multi-allele Phenotypes

Population Phenotype

Term NameGenotypes
growth auxotrophic for ethanolaminepsd1Δ, psd2Δ, psd3Δ
inviable vegetative cell populationpsd1Δ, psd2Δ, psd3Δ
viable vegetative cell populationpsd2Δ, psd1Δ
psd1Δ, psd3Δ
psd1Δ, psd2Δ, psd3Δ

Cell Phenotype

Term NameGenotypes
abnormal actomyosin contractile ring assemblypsd3Δ, psd1Δ
abnormal cell wall organization during vegetative growthpsd3Δ, psd1Δ
abnormal vegetative cell morphologypsd1Δ, psd2Δ, psd3Δ
decreased cellular phosphatidylethanolamine levelpsd1Δ, psd2Δ, psd3Δ
increased cellular phosphatidylserine levelpsd1Δ, psd2Δ, psd3Δ
mislocalized septum during vegetative growthpsd1Δ, psd2Δ, psd3Δ
misoriented septum during vegetative growthpsd1Δ, psd2Δ, psd3Δ
normal cellular phosphatidylcholine levelpsd1Δ, psd2Δ, psd3Δ
normal cellular phosphatidylinositol levelpsd1Δ, psd2Δ, psd3Δ
normal septationpsd1Δ, psd2Δ, psd3Δ
normal vegetative cell morphologypsd1Δ, psd2Δ
psd1Δ, psd2Δ, psd3Δ
psd3Δ, psd1Δ
pear-shaped vegetative cellpsd1Δ, psd2Δ, psd3Δ
spheroid vegetative cellpsd1Δ, psd2Δ, psd3Δ
viable elongated multiseptate vegetative cellpsd1Δ, psd2Δ, psd3Δ
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons1955636..1957371
mRNA1955636..1957371PMID:19286980
5' UTR1955636..1955708PMID:21511999
CDS1955709..1957022PMID:19286980
3' UTR1957023..1957371PMID:21511999
Protein Features

Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID Database InterPro Description Start End Count
PF02666 Pfam IPR003817 Phosphatidylserine decarboxylase-related 131 430 3
TMhelix TMHMM 30 52 953
PTHR10067:SF6 HMMPANTHER 252 437 2
PTHR10067:SF6 HMMPANTHER 27 187 2
PTHR10067 HMMPANTHER IPR033177 Phosphatidylserine decarboxylase 27 187 3
PTHR10067 HMMPANTHER IPR033177 Phosphatidylserine decarboxylase 252 437 3
TIGR00163 TIGRFAM IPR033177 Phosphatidylserine decarboxylase 118 430 3

View domain organization at Pfam

Protein Properties

Ave. residue weight 112.42 Da
Charge 22.50
Codon Adaptation Index 0.38
Isoelectric point 9.95
Molecular weight 49.13 kDa
Number of residues 437
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for psd1 (SPBC16E9.18)

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
3258during GO:0000080PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
3113during GO:0000085PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
3112during GO:0072690PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
851.73during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2.7during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
0.66during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4606
conserved in eukaryotes4516
conserved in bacteria1001
conserved in metazoa3424
conserved in vertebrates3399
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


External References
Database Identifier Description
NBRP SPBC16E9.18 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC16E9.18 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC16E9.18 BioGRID Interaction Datasets
Expression Viewer SPBC16E9.18 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC16E9.18 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC16E9.18 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC16E9.18 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC16E9.18 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC16E9.18 Transcriptome Viewer (Bähler Lab)
GEO SPBC16E9.18 GEO profiles
PInt SPBC16E9.18 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC16E9.18 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC16E9.18 Fission yeast phenotypic data & analysis
Cyclebase SPBC16E9.18.1 Cell Cycle Data
IntEnz4.1.1.65Integrated relational Enzyme database
Rhea4.1.1.65Annotated reactions database
SPD / RIKEN22/22H06Orfeome Localization Data
UniProtKB/SwissProtO14333Phosphatidylserine decarboxylase proenzyme 1, mitochondrial Phosphatidylserine decarboxylase 1 beta chain Phosphatidylserine decarboxylase 1 alpha chain
ModBaseO14333Database of comparative protein structure models
STRINGO14333Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_595799phosphatidylserine decarboxylase Psd1
RefSeq mRNANM_001021700972h- phosphatidylserine decarboxylase Psd1 (psd1), mRNA
MetaCycPWY-5669Phosphatidylethanolamine biosynthesis I
KEGG00564+4.1.1.65Glycerophospholipid metabolism
UniPathwayUPA00558Phospholipid metabolism; phosphatidylethanolamine biosynthesis; phosphatidylethanolamine from CDP-diacylglycerol: step 2/2

Literature for psd1

Search: Europe PMC or PubMed

Release Version: PomBase:30_59 - 12 Apr 2016