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 membrane963
Annotation ExtensionEvidenceWith/FromReference
serine C-palmitoyltransferase complex4
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Inviable

Population Phenotype

Term NameGenotypesCount
inviable vegetative cell populationlcb2Δ1453

Cell Phenotype

Term NameGenotypesCount
elongated vegetative celllcb2Δ791
inviable vegetative cell with abnormal cell shapelcb2Δ769
vegetative cell lysislcb2Δ89
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons4261533..4263964
5' UTR4261533..4261887PMID:21511999
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 90 109 953
PS00599 Prosite Patterns IPR001917 Aminotransferase, class-II, pyridoxal-phosphate binding site 395 404 3
PTHR13693:SF3 HMMPANTHER 59 571 1
PTHR13693 HMMPANTHER 59 571 3
3.40.640.10 Gene3D IPR015421 Pyridoxal phosphate-dependent transferase, major region, subdomain 1 210 430 31
3.90.1150.10 Gene3D IPR015422 Pyridoxal phosphate-dependent transferase, major region, subdomain 2 431 552 25
SSF53383 SuperFamily IPR015424 Pyridoxal phosphate-dependent transferase 136 554 31
Coil ncoils Predicted coiled-coil protein (DUF2205) 34 54 1057

View domain organization at Pfam

Term IDTerm NameReferenceCount
SO:0001812transmembrane_helix465

Protein Properties

Ave. residue weight 111.97 Da
Charge 8.50
Codon Adaptation Index 0.52
Isoelectric point 7.45
Molecular weight 67.52 kDa
Number of residues 603
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serine 1676
present during mitotic M phaseS38
present during mitotic M phaseS35
S35
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence S38 PMID:21712547
present during mitotic M phase experimental evidence S35 PMID:21712547
experimental evidence S35 PMID:24763107
O-phospho-L-threonine 700
present during mitotic M phaseT36
T36
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence T36 PMID:21712547
experimental evidence T36 PMID:24763107
ubiquitinylated lysineK557 512
Annotation ExtensionEvidenceResidueReference
mass spectrometry evidence K557 PMID:26412298
IDA PMID:26412298
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for lcb2 (SPAC21E11.08)

Protein Level

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

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
8.7during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
1.6during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4605
conserved in eukaryotes4515
conserved in metazoa3424
conserved in vertebrates3399
conserved in eukaryotes only2505
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPAC21E11.08 into the Query Builder
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
IntEnz2.3.1.50Integrated relational Enzyme database
Rhea2.3.1.50Annotated reactions database
SPD / RIKEN33/33D10Orfeome Localization Data
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)

Literature for lcb2

Search: Europe PMC or PubMed

Release Version: PomBase:30_58 - 11 Mar 2016