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 IDTerm NameEvidenceWith/FromReferenceCount
GO:0005524ATP bindingIEAUniProtKB-KW:KW-0067GO_REF:0000037558
GO:0090432myristoyl-CoA ligase activityIMPPMID:180712492
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0006499N-terminal protein myristoylationISOSGD:S000005844GO_REF:00000242
GO:0001676long-chain fatty acid metabolic processIMPPMID:180712495
redundant_withIGIlcf1PMID:18071249
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005794Golgi apparatusIDAPMID:16823372355
GO:0005737cytoplasmISOSGD:S000004860GO_REF:00000244204
GO:0000329fungal-type vacuole membraneIDAPMID:1682337291
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001187decreased cell density in stationary phaseCell growth assaylcf2ΔNullPECO:0000159PMID:180712492
Cell growth assaylcf2ΔNullPECO:0000126PMID:18071249
FYPO:0001309increased viability in stationary phaseCell growth assaylcf2ΔNullPECO:0000126PMID:1807124919
FYPO:0001310normal viability in stationary phaseCell growth assaylcf2ΔNullPECO:0000157PMID:1807124910
Cell growth assaylcf2ΔNullPECO:0000104PMID:18071249
FYPO:0002060viable vegetative cell populationMicroscopylcf2ΔNullPECO:0000005, PECO:0000137PMID:236978063751
Microscopylcf2ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001304decreased myristoyl-CoA ligase activityEnzyme assay datalcf2ΔNullPMID:180712492
FYPO:0001296normal oleoyl-CoA ligase activityEnzyme assay datalcf2ΔNullPMID:180712491
FYPO:0001295normal palmitoyl-CoA ligase activityEnzyme assay datalcf2ΔNullPMID:180712491
FYPO:0002106viable stubby vegetative cell53
penetrance FYPO_EXT:0000001Microscopylcf2ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
128949022892129
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
16850.92during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
65269during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
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 fungi4599
conserved in eukaryotes4514
conserved in metazoa3428
conserved in vertebrates3402
conserved in eukaryotes only2498
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
lcf1long-chain-fatty-acid-CoA ligase Lcf1 Phenotypic EnhancementPMID:18071249
Synthetic Growth Defect
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
skp1SCF ubiquitin ligase complex subunit Skp1 Two-hybridPMID:17016471
cbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
bdf2BET family double bromodomain protein Bdf2 Affinity Capture-MSPMID:24013502
hhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
tea1cell end marker Tea1 Affinity Capture-MSPMID:21652630
epe1Jmjc domain chromatin associated protein Epe1 Affinity Capture-MSPMID:24013502
hhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
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
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_46 - 30 Aug 2014