lcb2 (SPAC21E11.08)


Gene Standard Namelcb2 Characterisation Statusbiological_role_inferred
Systematic IDSPAC21E11.08 Feature Typeprotein coding
SynonymsSPAC2C4.02 Name Description
Productserine palmitoyltransferase Lcb2 (predicted) Product Size603aa, 67.52 kDa
Genomic Location Chromosome I, 4261533-4263964 (2432nt); CDS:4261888-4263699 (1812nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
serine C-palmitoyltransferase activity2
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
sphingolipid biosynthetic process21
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
endoplasmic reticulum596
Annotation ExtensionEvidenceWith/FromReference
integral component of membrane1018
Annotation ExtensionEvidenceWith/FromReference
serine C-palmitoyltransferase complex4
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term NameAlleleExpressionCount
inviable vegetative cell populationlcb2ΔNull1438

Cell Phenotype

Term NameAlleleExpressionCount
elongated vegetative celllcb2ΔNull174
inviable vegetative cell with abnormal cell shapelcb2ΔNull472
vegetative cell lysislcb2ΔNull83
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons4261533..4263964
mRNA4261533..4263964
5' UTR4261533..4261887PMID:21511999
CDS4261888..4263699
3' UTR4263700..4263964PMID: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
PF00155 Pfam IPR004839 Aminotransferase, class I/classII 190 546 11
TMhelix TMHMM 90 109 959
PS00599 Prosite Patterns IPR001917 Aminotransferase, class-II, pyridoxal-phosphate binding site 395 404 3
PTHR13693 HMMPANTHER 26 588 3
PTHR13693:SF3 HMMPANTHER 26 588 1
3.90.1150.10 Gene3D IPR015422 Pyridoxal phosphate-dependent transferase, major region, subdomain 2 431 552 25
3.40.640.10 Gene3D IPR015421 Pyridoxal phosphate-dependent transferase, major region, subdomain 1 210 430 31
SSF53383 SuperFamily IPR015424 Pyridoxal phosphate-dependent transferase 136 554 31
Coil ncoils Rabaptin coiled-coil domain 34 55 968

View domain organization at Pfam

Sequence Ontology

Term IDTerm NameReferenceCount
SO:0001812transmembrane_helix465

Protein Properties

Ave. residue weight 111.97 Da
Charge 8.50
Isoelectric point 7.45
Molecular weight 67.52 kDa
Number of residues 603
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serineS35 1672
present during mitotic M phaseS38
present during mitotic M phaseS35
Annotation ExtensionEvidenceResidueReference
experimental evidence S35 PMID:24763107
present during mitotic M phase experimental evidence S35 PMID:21712547
present during mitotic M phase experimental evidence S38 PMID:21712547
O-phospho-L-threonineT36 698
present during mitotic M phaseT36
Annotation ExtensionEvidenceResidueReference
experimental evidence T36 PMID:24763107
present during mitotic M phase experimental evidence T36 PMID:21712547
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
40771during GO:0000080PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
45162during GO:0000084PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
39114during GO:0000085PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
41079during GO:0000087PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
17468.94during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
41248during GO:0072690PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
4512.4during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
8.7during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
1.6during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4603
conserved in eukaryotes4514
conserved in metazoa3424
conserved in vertebrates3399
conserved in eukaryotes only2501
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 byfar8SIP/FAR complex striatin subunit, Far8/Csc3 Affinity Capture-MSPMID:22119525
affinity captured bypaa1protein phosphatase regulatory subunit Paa1 Affinity Capture-MSPMID:22119525
affinity captured bytea1cell end marker Tea1 Affinity Capture-MSPMID:21652630
External References
Database Identifier Description
NBRP SPAC21E11.08 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC21E11.08 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC21E11.08 BioGRID Interaction Datasets
Expression Viewer SPAC21E11.08 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC21E11.08 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC21E11.08 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC21E11.08 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC21E11.08 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC21E11.08 Transcriptome Viewer (Bähler Lab)
GEO SPAC21E11.08 GEO profiles
PInt SPAC21E11.08 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC21E11.08 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC21E11.08 Fission yeast phenotypic data & analysis
Cyclebase SPAC21E11.08.1 Cell Cycle Data
SPD / RIKEN33/33D10Orfeome Localization Data
IntEnz2.3.1.50Integrated relational Enzyme database
Rhea2.3.1.50Annotated reactions database
UniProtKB/SwissProtQ09925Serine palmitoyltransferase 2
ModBaseQ09925Database of comparative protein structure models
STRINGQ09925Network display of known and predicted interactions and functional associations
RefSeq mRNAXM_001713051972h- serine palmitoyltransferase Lcb2 (predicted) (lcb2), mRNA
RefSeq PeptideXP_001713103serine palmitoyltransferase Lcb2 (predicted)
European Nucleotide ArchiveAAC49534.1ENA Protein Mapping
European Nucleotide ArchiveCAA91967.2ENA Protein Mapping
UniParcUPI000012E27FUniProt Archive

Literature for lcb2

Search: Europe PMC or PubMed

Release Version: PomBase:26_52 - 11 May 2015