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 process4
Annotation ExtensionEvidenceWith/FromReference
N-terminal protein myristoylation2
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytoplasm4207
Annotation ExtensionEvidenceWith/FromReference
fungal-type vacuole membrane91
Annotation ExtensionEvidenceWith/FromReference
Golgi apparatus357
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term NameAlleleExpressionCount
decreased cell density in stationary phaselcf2ΔNull4
increased viability in stationary phaselcf2ΔNull56
normal viability in stationary phaselcf2ΔNull21
viable vegetative cell populationlcf2ΔNull3795

Cell Phenotype

Term NameAlleleExpressionCount
abnormal ascospore wall biogenesislcf2ΔNull16
decreased myristoyl-CoA ligase activitylcf2ΔNull2
normal conjugation frequencylcf2ΔNull10
normal oleoyl-CoA ligase activitylcf2ΔNull1
normal palmitoyl-CoA ligase activitylcf2ΔNull1
spores sensitive to acetonelcf2ΔNull3
viable stubby vegetative celllcf2ΔNull72
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons2894902..2892129
mRNA2894902..2892129
5' UTR2894902..2894409PMID:21511999
CDS2894408..2892339
3' 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:SF153 HMMPANTHER 15 688 2
PTHR24096 HMMPANTHER 15 688 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 99 256 9
3.40.50.980 Gene3D 42 64 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 fungi4604
conserved in eukaryotes4516
conserved in metazoa3430
conserved in vertebrates3405
conserved in eukaryotes only2502
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
affinity captured bycbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
binds DNA-binding domain construct withskp1SCF ubiquitin ligase complex subunit Skp1 Two-hybridPMID:17016471
affinity captured bytea1cell end marker Tea1 Affinity Capture-MSPMID:21652630
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
phenotype enhanced bylcf1long-chain-fatty-acid-CoA ligase Lcf1 Phenotypic EnhancementPMID:18071249
synthetic growth defect withlcf1long-chain-fatty-acid-CoA ligase Lcf1 Synthetic Growth DefectPMID:18071249
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)
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
Cyclebase SPBP4H10.11c.1 Cell Cycle Data
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:26_51 - 07 Apr 2015