lcf2 (SPBP4H10.11c)


Gene Standard Namelcf2 Characterisation Statuspublished
Systematic IDSPBP4H10.11c Feature Typeprotein coding
Synonyms Name Description
Productlong-chain-fatty-acid-CoA ligase Product Size689aa, 75.79 kDa
Genomic Location Chromosome II, 2894902-2892129 (2774nt); CDS:2894408-2892339 (2070nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
ATP binding558
Annotation ExtensionEvidenceWith/FromReference
myristoyl-CoA ligase activity2
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
long-chain fatty acid metabolic process5
Annotation ExtensionEvidenceWith/FromReference
N-terminal protein myristoylation2
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytoplasm4205
Annotation ExtensionEvidenceWith/FromReference
fungal-type vacuole membrane91
Annotation ExtensionEvidenceWith/FromReference
Golgi apparatus355
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001187decreased cell density in stationary phaseCell growth assaylcf2ΔNullPECO:0000159PMID:180712494
Cell growth assaylcf2ΔNullPECO:0000126PMID:18071249
FYPO:0001309increased viability in stationary phaseCell growth assaylcf2ΔNullPECO:0000126PMID:1807124953
FYPO:0001310normal viability in stationary phaseCell growth assaylcf2ΔNullPECO:0000157PMID:1807124916
Cell growth assaylcf2ΔNullPECO:0000104PMID:18071249
FYPO:0002060viable vegetative cell populationMicroscopylcf2ΔNullPECO:0000005, PECO:0000137PMID:236978063759
Microscopylcf2ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000580abnormal ascospore wall biogenesisMicroscopySPBP4H10.11CΔNullPMID:2472729116
FYPO:0001304decreased myristoyl-CoA ligase activityEnzyme assay datalcf2ΔNullPMID:180712492
FYPO:0003797normal conjugation frequencyMicroscopySPBP4H10.11CΔNullPMID:247272919
FYPO:0001296normal oleoyl-CoA ligase activityEnzyme assay datalcf2ΔNullPMID:180712491
FYPO:0001295normal palmitoyl-CoA ligase activityEnzyme assay datalcf2ΔNullPMID:180712491
FYPO:0003846spores sensitive to acetoneCell growth assaylcf2ΔNullPMID:247272913
FYPO:0002106viable stubby vegetative cell69
penetrance FYPO_EXT:0000001Microscopylcf2ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
128949022892129

UTRs

Region Coordinates Reference
five_prime_UTR2894902..2894409PMID:21511999
three_prime_UTR2892338..2892129PMID: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
PF00501 Pfam IPR000873 AMP-dependent synthetase/ligase 93 546 9
PS00455 Prosite Patterns IPR020845 AMP-binding, conserved site 250 261 7
PTHR24096:SF46 HMMPANTHER 16 687 2
PTHR24096 HMMPANTHER 16 687 2
3.40.50.980 Gene3D 399 455 9
3.40.50.980 Gene3D 257 356 9
2.30.38.10 Gene3D 462 534 7
3.40.50.980 Gene3D 42 64 9
3.40.50.980 Gene3D 99 256 9
SSF56801 SuperFamily 626 686 9
SSF56801 SuperFamily 17 64 9
SSF56801 SuperFamily 402 597 9
SSF56801 SuperFamily 93 361 9

View domain organization at Pfam

Protein Properties

Ave. residue weight 110.00 Da
Charge 3.00
Isoelectric point 6.91
Molecular weight 75.79 kDa
Number of residues 689
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
64886during GO:0000080PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
67605during GO:0000084PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
65680during GO:0000085PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
63208during GO:0000087PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
65269during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
16850.92during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
9396.81during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
7.2during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
1.3during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Disease Association
DescriptionQualifierReferenceCount
cancer142
Misc
DescriptionQualifierReferenceCount
substrate myristic acid preferring PMID:180712491
Species Distribution
DescriptionQualifierReferenceCount
conserved in fungi4600
conserved in eukaryotes4514
conserved in metazoa3425
conserved in vertebrates3400
conserved in eukaryotes only2497
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
hhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
hhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
cbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
tea1cell end marker Tea1 Affinity Capture-MSPMID:21652630
skp1SCF ubiquitin ligase complex subunit Skp1 Two-hybridPMID:17016471
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
lcf1long-chain-fatty-acid-CoA ligase Lcf1 Synthetic Growth DefectPMID:18071249
Phenotypic Enhancement
External References
Database Identifier Description
NBRP SPBP4H10.11c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBP4H10.11c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBP4H10.11c BioGRID Interaction Datasets
Expression Viewer SPBP4H10.11c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBP4H10.11c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBP4H10.11c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBP4H10.11c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBP4H10.11c Polyadenylation Viewer (Gullerova lab)
pombeTV SPBP4H10.11c Transcriptome Viewer (Bähler Lab)
Cyclebase SPBP4H10.11c Cell Cycle Data
GEO SPBP4H10.11c GEO profiles
PInt SPBP4H10.11c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBP4H10.11c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBP4H10.11c Fission yeast phenotypic data & analysis
IntEnz6.2.1.3Integrated relational Enzyme database
Rhea6.2.1.3Annotated reactions database
SPD / RIKEN46/46E01Orfeome Localization Data
UniProtKB/SwissProtQ9P7D7Long-chain-fatty-acid--CoA ligase 2
ModBaseQ9P7D7Database of comparative protein structure models
STRINGQ9P7D7Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596185long-chain-fatty-acid-CoA ligase
RefSeq mRNANM_001022104972h- long-chain-fatty-acid-CoA ligase (lcf2), mRNA
European Nucleotide ArchiveCAB83169.1ENA Protein Mapping
UniParcUPI000006AE1AUniProt Archive

Literature for lcf2

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014