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 binding557
Annotation ExtensionEvidenceWith/FromReference
decanoate--CoA ligase activity2
Annotation ExtensionEvidenceWith/FromReference
myristoyl-CoA ligase activity2
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
N-terminal protein myristoylation2
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
Annotation ExtensionEvidenceWith/FromReference
fungal-type vacuole membrane88
Annotation ExtensionEvidenceWith/FromReference
Golgi apparatus357
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
decreased cell density in stationary phaselcf2Δ4
increased viability in stationary phaselcf2Δ62
normal viability in stationary phaselcf2Δ33
sensitive to tamoxifenlcf2Δ58
viable vegetative cell populationlcf2Δ3850

Cell Phenotype

Term NameGenotypesCount
abnormal ascospore wall biogenesislcf2Δ18
decreased myristoyl-CoA ligase activitylcf2Δ2
normal conjugation frequencylcf2Δ15
normal oleoyl-CoA ligase activitylcf2Δ1
normal palmitoyl-CoA ligase activitylcf2Δ1
spores sensitive to acetonelcf2Δ3
viable stubby vegetative celllcf2Δ75
Target Of
GO regulated by cbf11 CBF1/Su(H)/LAG-1 family transcription factor Cbf11
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
5' UTR2894902..2894409PMID:21511999
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 85 689 2
PTHR24096 HMMPANTHER 15 62 2
PTHR24096 HMMPANTHER 85 689 2
PTHR24096:SF153 HMMPANTHER 15 62 2 Gene3D AMP-dependent synthetase/ligase 399 455 9 Gene3D AMP-dependent synthetase/ligase 257 356 9 Gene3D AMP-dependent synthetase/ligase 99 256 9 Gene3D AMP-dependent synthetase/ligase 42 64 9 Gene3D AMP-dependent synthetase/ligase 462 534 7
SSF56801 SuperFamily 626 686 9
SSF56801 SuperFamily 402 597 9
SSF56801 SuperFamily 93 361 9
SSF56801 SuperFamily 17 64 9

View domain organization at Pfam

Protein Properties

Ave. residue weight 110.00 Da
Charge 3.00
Codon Adaptation Index 0.53
Isoelectric point 6.91
Molecular weight 75.79 kDa
Number of residues 689

Protein Modifications

Term NameResidueCount
O-phospho-L-serineS547, S601, S603, S604 2289
Annotation ExtensionEvidenceResidueReference
IDA S604 PMID:25720772
IDA S603 PMID:25720772
IDA S601 PMID:25720772
IDA S547 PMID:25720772
Gene Expression

Qualitative Gene Expression

RNA levelincreased during GO:0071456expression microarray evidencePMID:22235339

Quantitative Gene Expression

View graphical display of gene expression data for lcf2 (SPBP4H10.11c)

Protein Level

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

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
7.2during GO:0072690PECO:0000014,
population wideexperimental evidencePMID:23101633
1.3during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
population wideexperimental evidencePMID:23101633
Disease Association
substrate myristic acid preferring PMID:180712491
Taxonomic Conservation
conserved in fungi4607
conserved in eukaryotes4517
conserved in metazoa3427
conserved in vertebrates3402
conserved in eukaryotes only2502

Manually curated orthologous groups


Orthologs in Compara

Physical Interactions

Source: BioGRID

Load genes that interact physically with SPBP4H10.11c into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity captured bytea1cell end marker Tea1 Affinity Capture-MSPMID:21652630
affinity captured bycbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
binds DNA-binding domain construct withalp7centrosomal transforming acidic coiled-coil (TACC) protein ortholog Alp7 Two-hybridPMID:26771498
binds DNA-binding domain construct withskp1SCF ubiquitin ligase complex subunit Skp1 Two-hybridPMID:17016471
Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPBP4H10.11c into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
synthetic growth defect withlcf1long-chain-fatty-acid-CoA ligase Lcf1 Synthetic Growth DefectPMID:18071249
phenotype enhanced bylcf1long-chain-fatty-acid-CoA ligase Lcf1 Phenotypic EnhancementPMID: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
SPD / RIKEN46/46E01Orfeome Localization Data
IntEnz6.2.1.3Integrated relational Enzyme database
Rhea6.2.1.3Annotated reactions database
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:30_61 - 12 Sep 2016