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 binding557
Annotation ExtensionEvidenceWith/FromReference
decanoate--CoA ligase activity2
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 process2
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
Annotation ExtensionEvidenceWith/FromReference
endoplasmic reticulum599
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
abolished cell population growth at high temperaturelcf1Δ38
increased viability in stationary phaselcf1+62
loss of viability in stationary phaseW376 (W376->stop)61
G490D (G490D)
E464K (E464K)
G457E (G457E)
G249D (G249D)
G339D (G339D)
W344 (W344->stop)
E4 (G310D)
normal growth on glucose carbon sourceE4 (G310D)294
normal growth on sorbitollcf1Δ21
normal vegetative cell population growth rateE4 (G310D)80
sensitive to cobaltlcf1Δ113
sensitive to doxorubicinlcf1Δ95
sensitive to methyl methanesulfonatelcf1Δ331
sensitive to salt stresslcf1Δ99
sensitive to thiabendazolelcf1Δ329
viable vegetative cell populationlcf1Δ3850

Cell Phenotype

Term NameGenotypesCount
decreased myristoyl-CoA ligase activitylcf1Δ2
decreased oleoyl-CoA ligase activitylcf1Δ1
decreased palmitoyl-CoA ligase activitylcf1Δ1
increased long-chain fatty acid-CoA ligase activitylcf1+1
viable vegetative cell with normal cell morphologylcf1Δ3102
Target Of
FYPO affected by mutation in mga2 IPT/TIG ankyrin repeat containing transcription regulator of fatty acid biosynthesis (predicted)
GO regulated by cbf11 CBF1/Su(H)/LAG-1 family transcription factor Cbf11
GO regulated by mga2 IPT/TIG ankyrin repeat containing transcription regulator of fatty acid biosynthesis (predicted)
GO substrate of sst2 human AMSH/STAMBP protein homolog, ubiquitin specific-protease
GO substrate of ubp15 ubiquitin C-terminal hydrolase Ubp15
GO substrate of ubp4 ubiquitin C-terminal hydrolase Ubp4
GO substrate of ubp5 ubiquitin C-terminal hydrolase Ubp5
GO substrate of ubp9 ubiquitin C-terminal hydrolase Ubp9
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons1769946..1770111, 1770238..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 81 676 2
PTHR24096:SF153 HMMPANTHER 4 58 2
PTHR24096 HMMPANTHER 81 676 2
PTHR24096 HMMPANTHER 4 58 2 Gene3D AMP-dependent synthetase/ligase 95 250 9 Gene3D AMP-dependent synthetase/ligase 393 447 9 Gene3D AMP-dependent synthetase/ligase 455 530 7 Gene3D AMP-dependent synthetase/ligase 37 60 9 Gene3D AMP-dependent synthetase/ligase 251 349 9
SSF56801 SuperFamily 19 60 9
SSF56801 SuperFamily 89 354 9
SSF56801 SuperFamily 396 674 9

View domain organization at Pfam

Protein Properties

Ave. residue weight 112.38 Da
Charge 14.00
Codon Adaptation Index 0.58
Isoelectric point 8.33
Molecular weight 75.97 kDa
Number of residues 676
Gene Expression

Qualitative Gene Expression

RNA levelincreased during GO:0071456quantitative PCRPMID:27053105
present during GO:0072690Northern assay evidencePMID:12684881

Quantitative Gene Expression

View graphical display of gene expression data for lcf1 (SPBC18H10.02)

Protein Level

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

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
19during GO:0072690PECO:0000014,
population wideexperimental evidencePMID:23101633
3during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
population wideexperimental evidencePMID:23101633
Disease Association
Taxonomic Conservation
conserved in fungi4607
conserved in eukaryotes4517
conserved in bacteria1005
conserved in metazoa3427
conserved in vertebrates3402

Manually curated orthologous groups


Orthologs in Compara

Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPBC18H10.02 into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
rescued bytop2DNA topoisomerase II Phenotypic SuppressionPMID:25669599
enhances phenotype oflcf2long-chain-fatty-acid-CoA ligase Phenotypic EnhancementPMID:18071249
synthetic growth defect withlcf2long-chain-fatty-acid-CoA ligase Synthetic Growth DefectPMID: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
SPD / RIKEN37/37F06Orfeome Localization Data
IntEnz6.2.1.3Integrated relational Enzyme database
Rhea6.2.1.3Annotated reactions database
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:30_61 - 12 Sep 2016