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:0000037559
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:00000244198
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:1807124913
FYPO:0001310normal viability in stationary phaseCell growth assaylcf2ΔNullPECO:0000157PMID:180712497
Cell growth assaylcf2ΔNullPECO:0000104PMID:18071249
FYPO:0002060viable vegetative cell populationMicroscopylcf2ΔNullPMID:204732893755
Microscopylcf2ΔNullPECO:0000005, PECO:0000137PMID:23697806

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 cellMicroscopylcf2ΔNullPECO:0000005, PECO:0000137PMID:2369780649
penetrance FYPO:0000001
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
128949022892129

UTRs

Region Start End Reference
three_prime_UTR28923382892129PMID:21511999
five_prime_UTR28949022894409PMID: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
G3DSA:3.40.50.980 Gene3D 99 256 9
G3DSA:3.40.50.980 Gene3D 399 455 9
G3DSA:3.40.50.980 Gene3D 42 64 9
G3DSA:3.40.50.980 Gene3D 257 356 9
G3DSA:2.30.38.10 Gene3D 462 534 7
SSF56801 SuperFamily 626 686 9
SSF56801 SuperFamily 17 64 9
SSF56801 SuperFamily 402 597 9
SSF56801 SuperFamily 93 361 9
Low complexity (SEG) seg 63 78

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)DuringConditionScaleEvidenceReference
9396.81during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
16850.92during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
1.3during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
7.2during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
Disease Association
DescriptionQualifierReferenceCount
cancer141
Misc
DescriptionQualifierReferenceCount
substrate myristic acid preferring PMID:180712491
Species Distribution
DescriptionQualifierReferenceCount
conserved in fungi4564
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3394
conserved in eukaryotes only2485
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)
IntEnz6.2.1.3Integrated relational Enzyme database
Rhea6.2.1.3Annotated reactions database
EntrezGene2541350long-chain-fatty-acid-CoA ligase
WikiGene2541350long-chain-fatty-acid-CoA ligase
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 ArchiveCAB83169ENA Protein Mapping
UniParcUPI000006AE1AUniProt Archive

Literature for lcf2

Search: Europe PMC or PubMed

Release Version: PomBase:21_41 - 24 Feb 2014