chr4 (SPBC1289.01c)


Gene Standard Namechr4 Characterisation Statuspublished
Systematic IDSPBC1289.01c Feature Typeprotein coding
Synonymscfh3, SPBC1539.11c Name DescriptionChs Four Homologue
Product1,3-beta-glucan synthase regulatory factor Chf3/Chr4 Product Size633aa, 70.02 kDa
Genomic Location Chromosome II, 4383830-4381386 (2445nt); CDS:4383541-4381640 (1902nt)

Ensembl Gene Location
GO Biological Process
Term NameCount
barrier septum assembly40
Annotation ExtensionEvidenceWith/FromReference
cellular protein localization495
Annotation ExtensionEvidenceWith/FromReference
regulation of fungal-type cell wall beta-glucan biosynthetic process1
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
1,3-beta-D-glucan synthase complex5
Annotation ExtensionEvidenceWith/FromReference
anchored component of plasma membrane26
Annotation ExtensionEvidenceWith/FromReference
barrier septum25
Annotation ExtensionEvidenceWith/FromReference
cell division site317
Annotation ExtensionEvidenceWith/FromReference
cell tip209
Annotation ExtensionEvidenceWith/FromReference
cytosol2302
Annotation ExtensionEvidenceWith/FromReference
nucleus2700
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
resistance to benomylchr4Δ10
sensitive to enfumafunginchr4Δ1
sensitive to osmotic stresschr4Δ108
viable vegetative cell population3850
chr4Δ

Cell Phenotype

Term NameGenotypesCount
abnormal glucan synthesischr4Δ1
viable vegetative cellchr4Δ3659
viable vegetative cell with normal cell morphologychr4Δ3102
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons4383830..4381386
mRNA4383830..4381386
5' UTR4383830..4383542PMID:21511999
CDS4383541..4381640
3' UTR4381639..4381386PMID: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
PF08238 Pfam IPR006597 Sel1-like repeat 438 473 6
PF08238 Pfam IPR006597 Sel1-like repeat 278 314 6
PF08238 Pfam IPR006597 Sel1-like repeat 478 511 6
PF08238 Pfam IPR006597 Sel1-like repeat 513 543 6
PF13181 Pfam IPR019734 Tetratricopeptide repeat 316 343 15
SM00671 SMART IPR006597 Sel1-like repeat 278 314 7
SM00671 SMART IPR006597 Sel1-like repeat 475 511 7
SM00671 SMART IPR006597 Sel1-like repeat 315 346 7
SM00671 SMART IPR006597 Sel1-like repeat 438 474 7
SM00671 SMART IPR006597 Sel1-like repeat 512 543 7
SM00028 SMART IPR019734 Tetratricopeptide repeat 315 348 26
SM00028 SMART IPR019734 Tetratricopeptide repeat 512 545 26
PS50293 Prosite Profiles IPR013026 Tetratricopeptide repeat-containing domain 315 348 27
PS50293 Prosite Profiles IPR013026 Tetratricopeptide repeat-containing domain 512 545 27
PS50005 Prosite Profiles IPR019734 Tetratricopeptide repeat 512 545 23
PS50005 Prosite Profiles IPR019734 Tetratricopeptide repeat 315 348 23
PTHR11102 HMMPANTHER 20 33 7
PTHR11102 HMMPANTHER 256 401 7
PTHR11102 HMMPANTHER 420 558 7
PTHR11102:SF60 HMMPANTHER 256 401 1
PTHR11102:SF60 HMMPANTHER 20 33 1
PTHR11102:SF60 HMMPANTHER 420 558 1
1.25.40.10 Gene3D IPR011990 Tetratricopeptide-like helical domain 259 367 62
1.25.40.10 Gene3D IPR011990 Tetratricopeptide-like helical domain 422 560 62
SSF81901 SuperFamily 220 360 9
SSF81901 SuperFamily 423 552 9
Coil ncoils Predicted coiled-coil protein (DUF2205) 536 556 1055

View domain organization at Pfam

Term IDTerm NameReferenceCount
PBO:0000212SEL1 repeat proteinTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000212

Protein Properties

Ave. residue weight 110.61 Da
Charge -20.00
Codon Adaptation Index 0.37
Isoelectric point 4.83
Molecular weight 70.02 kDa
Number of residues 633
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serine 2289
present during mitotic M phaseS123
present during mitotic M phaseS111
present during mitotic M phaseS3
present during mitotic M phaseS110
present during mitotic M phaseS112
present during mitotic M phaseS105
present during mitotic M phaseS24
present during mitotic M phaseS113
S11, S21, S22, S24, S37, S38, S42, S113, S139, S148, S374
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence S123 PMID:21712547
present during mitotic M phase experimental evidence S111 PMID:21712547
present during mitotic M phase experimental evidence S3 PMID:21712547
present during mitotic M phase experimental evidence S110 PMID:21712547
present during mitotic M phase experimental evidence S112 PMID:21712547
present during mitotic M phase experimental evidence S105 PMID:21712547
present during mitotic M phase experimental evidence S24 PMID:21712547
present during mitotic M phase experimental evidence S113 PMID:21712547
IDA S11 PMID:25720772
IDA S21 PMID:25720772
IDA S374 PMID:25720772
IDA S148 PMID:25720772
IDA S38 PMID:25720772
IDA S24 PMID:25720772
IDA S37 PMID:25720772
IDA S22 PMID:25720772
IDA S139 PMID:25720772
IDA S42 PMID:25720772
experimental evidence S113 PMID:24763107
O-phospho-L-threonine 1085
present during mitotic M phaseT122
present during mitotic M phaseT117
T149
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence T122 PMID:21712547
present during mitotic M phase experimental evidence T117 PMID:21712547
IDA T149 PMID:25720772
isoprenylated residue 17
Annotation ExtensionEvidenceResidueReference
NAS PMID:19237545
O-phosphorylated residueS11,S19, S11,S19,S22, S11,S19,S24, S11,S19,Y20, S11,S21, S11,S21,S22, S11,S21,S24, S11,S22, S11,S22,S24, S11,S24, S21,S22, S21,S24, S22,S24, S37,S38, S37,S38,S42, S37,S42, S38,S42, S105,S110,S111, S110,S111, S110,S111,S112, S110,S111,S113, S110,S112, S110,S113, S111,S112, S111,S112,S113, S111,S113, S111,S113,T117, S112,S113, S112,S113,T117, S113,T117, T122,S123,S124, Y20,S24, Y104,S105, Y104,S105,S110 2457
Annotation ExtensionEvidenceResidueReference
IDA S11,S22,S24 PMID:25720772
IDA S11,S21,S24 PMID:25720772
IDA S11,S19,Y20 PMID:25720772
IDA T122,S123,S124 PMID:25720772
IDA S111,S113,T117 PMID:25720772
IDA S37,S38,S42 PMID:25720772
IDA S113,T117 PMID:25720772
IDA S110,S111 PMID:25720772
IDA S11,S19 PMID:25720772
IDA S11,S22 PMID:25720772
IDA S112,S113,T117 PMID:25720772
IDA S110,S113 PMID:25720772
IDA S111,S112,S113 PMID:25720772
IDA S110,S112 PMID:25720772
IDA S38,S42 PMID:25720772
IDA S111,S113 PMID:25720772
IDA S112,S113 PMID:25720772
IDA S37,S38 PMID:25720772
IDA Y20,S24 PMID:25720772
IDA S21,S24 PMID:25720772
IDA S111,S112 PMID:25720772
IDA S110,S111,S112 PMID:25720772
IDA S21,S22 PMID:25720772
IDA S11,S19,S24 PMID:25720772
IDA S11,S21 PMID:25720772
IDA S110,S111,S113 PMID:25720772
IDA S11,S19,S22 PMID:25720772
IDA Y104,S105,S110 PMID:25720772
IDA S11,S21,S22 PMID:25720772
IDA S37,S42 PMID:25720772
IDA S11,S24 PMID:25720772
IDA S22,S24 PMID:25720772
IDA Y104,S105 PMID:25720772
IDA S105,S110,S111 PMID:25720772
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for chr4 (SPBC1289.01c)

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
4013.68during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
3.1during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
0.7during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
conserved in fungi only616
conserved in fungi4607
conserved in eukaryotes4517
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPBC1289.01c into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity captured bycdc15extended Fer/CIP4 (EFC) domain protein Cdc15 Affinity Capture-WesternPMID:22905165
Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPBC1289.01c into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
synthetic growth defect withimp2contractile ring protein Imp2 Synthetic Growth DefectPMID:22905165
synthetic growth defect withact1actin Act1 Synthetic Growth DefectPMID:22905165
synthetic growth defect withcdc15extended Fer/CIP4 (EFC) domain protein Cdc15 Synthetic Growth DefectPMID:22905165
External References
Database Identifier Description
NBRP SPBC1289.01c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC1289.01c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC1289.01c BioGRID Interaction Datasets
Expression Viewer SPBC1289.01c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC1289.01c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC1289.01c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC1289.01c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC1289.01c Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC1289.01c Transcriptome Viewer (Bähler Lab)
GEO SPBC1289.01c GEO profiles
PInt SPBC1289.01c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC1289.01c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC1289.01c Fission yeast phenotypic data & analysis
Cyclebase SPBC1289.01c.1 Cell Cycle Data
SPD / RIKEN46/46B04Orfeome Localization Data
UniProtKB/SwissProtO94614Chitin synthase regulatory factor 4
ModBaseO94614Database of comparative protein structure models
STRINGO94614Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_5968251,3-beta-glucan synthase regulatory factor Chf3/Chr4
RefSeq mRNANM_001023845972h- 1,3-beta-glucan synthase regulatory factor Chf3/Chr4 (chr4), mRNA
European Nucleotide ArchiveCAB51343.1ENA Protein Mapping
UniParcUPI000006B463UniProt Archive

Literature for chr4

Search: Europe PMC or PubMed

Release Version: PomBase:30_61 - 12 Sep 2016