lcf1 (SPBC18H10.02)


Gene Standard Namelcf1 Characterisation Statuspublished
Systematic IDSPBC18H10.02 Feature Typeprotein coding
Synonyms Name DescriptionLong Chain Fatty acyl-CoA synthetase
Productlong-chain-fatty-acid-CoA ligase Lcf1 Product Size676aa, 75.97 kDa
Genomic Location Chromosome II, 1769946-1772629 (2684nt); CDS:1770093-1772249 (2157nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
ATP binding558
Annotation ExtensionEvidenceWith/FromReference
myristoyl-CoA ligase activity2
Annotation ExtensionEvidenceWith/FromReference
oleoyl-CoA ligase activity1
Annotation ExtensionEvidenceWith/FromReference
palmitoyl-CoA ligase activity1
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
long-chain fatty acid metabolic process5
Annotation ExtensionEvidenceWith/FromReference
long-chain fatty-acyl-CoA metabolic process1
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytoplasm4209
Annotation ExtensionEvidenceWith/FromReference
endoplasmic reticulum596
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term NameAlleleExpressionCount
increased viability in stationary phaselcf1+ (wild type)Overexpression57
loss of viability at high temperaturelcf1ΔNull41
loss of viability in stationary phaseE4 (G310D)Not specified49
E464K (E464K)Not specified
G249D (G249D)Not specified
G339D (G339D)Not specified
G457E (G457E)Not specified
G490D (G490D)Not specified
lcf1ΔNull
W344 (W344->stop)Not specified
W376 (W376->stop)Not specified
normal growth on glucose carbon sourceE4 (G310D)Not specified207
lcf1ΔNull
normal growth on sorbitollcf1ΔNull19
normal vegetative cell population growth rateE4 (G310D)Not specified70
lcf1ΔNull
sensitive to cobaltlcf1ΔNull56
sensitive to doxorubicinlcf1ΔNull91
sensitive to salt stresslcf1ΔNull91
viable vegetative cell populationlcf1ΔNull3809

Cell Phenotype

Term NameAlleleExpressionCount
decreased myristoyl-CoA ligase activitylcf1ΔNull2
decreased oleoyl-CoA ligase activitylcf1ΔNull1
decreased palmitoyl-CoA ligase activitylcf1ΔNull1
increased long-chain fatty acid-CoA ligase activitylcf1+ (wild type)Overexpression1
viable vegetative cell with normal cell morphologylcf1ΔNull3094
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons1769946..1770111, 1770238..1772629
mRNA1769946..1772629
5' UTR1769946..1770092PMID:21511999
CDS1770093..1770111, 1770238..1772249
3' UTR1772250..1772629AU013877
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
PF00501 Pfam IPR000873 AMP-dependent synthetase/ligase 92 540 9
PS00455 Prosite Patterns IPR020845 AMP-binding, conserved site 244 255 7
PTHR24096:SF153 HMMPANTHER 10 676 2
PTHR24096 HMMPANTHER 10 676 2
3.40.50.980 Gene3D 251 349 9
3.40.50.980 Gene3D 393 447 9
3.40.50.980 Gene3D 95 250 9
3.40.50.980 Gene3D 37 60 9
2.30.38.10 Gene3D 455 530 7
SSF56801 SuperFamily 19 60 9
SSF56801 SuperFamily 396 674 9
SSF56801 SuperFamily 89 354 9

View domain organization at Pfam

Protein Properties

Ave. residue weight 112.38 Da
Charge 14.00
Isoelectric point 8.33
Molecular weight 75.97 kDa
Number of residues 676
Sequence
Gene Expression

Qualitative Gene Expression

DescriptionLevelEvidenceReference
RNA levelpresent during GO:0072690Northern assay evidencePMID:12684881

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
55966during GO:0000080PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
62967during GO:0000084PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
57752during GO:0000085PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
56774during GO:0000087PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
33181.56during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
58580during GO:0072690PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
23445.64during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
19during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
3during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633
Disease Association
DescriptionQualifierReferenceCount
cancer142
Species Distribution
DescriptionQualifierReferenceCount
conserved in fungi4603
conserved in eukaryotes4514
conserved in bacteria1001
conserved in metazoa3424
conserved in vertebrates3399
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
synthetic growth defect withlcf2long-chain-fatty-acid-CoA ligase Synthetic Growth DefectPMID:18071249
enhances phenotype oflcf2long-chain-fatty-acid-CoA ligase Phenotypic EnhancementPMID:18071249
External References
Database Identifier Description
NBRP SPBC18H10.02 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC18H10.02 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC18H10.02 BioGRID Interaction Datasets
Expression Viewer SPBC18H10.02 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC18H10.02 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC18H10.02 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC18H10.02 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC18H10.02 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC18H10.02 Transcriptome Viewer (Bähler Lab)
GEO SPBC18H10.02 GEO profiles
PInt SPBC18H10.02 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC18H10.02 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC18H10.02 Fission yeast phenotypic data & analysis
Cyclebase SPBC18H10.02.1 Cell Cycle Data
IntEnz6.2.1.3Integrated relational Enzyme database
Rhea6.2.1.3Annotated reactions database
SPD / RIKEN37/37F06Orfeome Localization Data
UniProtKB/SwissProtO60135Long-chain-fatty-acid--CoA ligase 1
ModBaseO60135Database of comparative protein structure models
STRINGO60135Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_595726long-chain-fatty-acid-CoA ligase Lcf1
RefSeq mRNANM_001021624972h- long-chain-fatty-acid-CoA ligase Lcf1 (lcf1), mRNA
European Nucleotide ArchiveCAA18399.1ENA Protein Mapping
UniParcUPI000006C32FUniProt Archive

Literature for lcf1

Search: Europe PMC or PubMed

Release Version: PomBase:26_53 - 27 May 2015