SPBC28F2.08c

Gene Standard NameUnassigned ChromosomeII
Systematic IDSPBC28F2.08c Gene Start1584320
Synonyms Gene End1581815
ProductHRD ubiquitin ligase complex subunit (predicted) Gene Length2506
Feature Typeprotein coding CDS Start1584244
Name Description CDS End1582103
Characterisation Statusbiological_role_inferred CDS Length2142

Ensembl Gene Location
  1. mep33
  2. ppi1
  3. cwf7
  4. SPBC28F2.05c
  5. SPNCRNA.1449
  6. mdm12
  7. sfr1
  8. SPBC28F2.08c
  9. toa1
  10. ngg1
  11. SPNCRNA.1450
  12. SPBC28F2.11
Fission Yeast Phenotype Ontology

Ontology Graph

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Term IDTerm NameEvidenceAlleleAllele TypeExpressionConditionReference
FYPO:0001491viable vegetative cellMicroscopySPBC28F2.08cdelta (deletion)deletionPMID:20473289
GO Biological Process

Ontology Graph

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Term IDTerm NameEvidenceWith/FromReference
GO:0016567protein ubiquitinationNASGO_REF:0000051
GO:0030433ER-associated protein catabolic processISSUniProtKB:Q05787GO_REF:0000001
GO Cellular Component

Ontology Graph

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Term IDTerm NameEvidenceWith/FromReference
GO:0000151ubiquitin ligase complexNASGO_REF:0000051
GO:0005783endoplasmic reticulumIDAPMID:16823372
GO:0005789endoplasmic reticulum membraneISSUniProtKB:Q05787GO_REF:0000001
GO:0016021integral to membraneIEAUniProtKB:KW-0812GO_REF:0000037
Transcript
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Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
115843201581815

References

Region Start End Reference
three_prime_UTR15821021581815PMID:21511999
Protein Features
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Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID InterPro Database Description Start End All Genes
PF08238 IPR006597 Pfam Sel1-like 83 123 6
PF08238 IPR006597 Pfam Sel1-like 527 554 6
PF08238 IPR006597 Pfam Sel1-like 215 243 6
PF08238 IPR006597 Pfam Sel1-like 473 489 6
PF08238 IPR006597 Pfam Sel1-like 495 522 6
PF08238 IPR006597 Pfam Sel1-like 281 315 6
PF08238 IPR006597 Pfam Sel1-like 127 157 6
SM00671 IPR006597 SMART Sel1-like 490 525 7
SM00671 IPR006597 SMART Sel1-like 527 562 7
SM00671 IPR006597 SMART Sel1-like 212 248 7
SM00671 IPR006597 SMART Sel1-like 280 315 7
SM00671 IPR006597 SMART Sel1-like 125 160 7
SM00671 IPR006597 SMART Sel1-like 83 124 7
TMhelix TMHMM 673 690 955
G3DSA:1.25.40.10 IPR011990 Gene3D 193 370 55
G3DSA:1.25.40.10 IPR011990 Gene3D 76 158 55
G3DSA:1.25.40.10 IPR011990 Gene3D 473 562 55
SSF81901 SuperFamily 210 246 9
SSF81901 SuperFamily 458 561 9
SSF81901 SuperFamily 78 158 9
SSF81901 SuperFamily 281 400 9
PTHR11102:SF1 hmmpanther 84 713 1
PTHR11102 hmmpanther 84 713 7
SignalP-noTM signalp 1 19 212

View domain organization at Pfam

Manually Curated Family or Sub-families

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

Sequence Ontology

Term IDTerm NameReference
SO:0000418signal_peptide
SO:0001812transmembrane_helix

Protein Properties

Ave. residue weight 112.57 Da
Charge 10.00
Isoelectric point 7.57
Molecular weight 80.26 kDa
Number of residues 713
Sequence
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Gene Expression
DescriptionEvidenceDuringConditionRangeAverage per CellReference
protein levelexperimental evidencevegetative growth of a single-celled organismPECO:0000014,
PECO:0000005		population_wide1039.54PMID:23101633
experimental evidencecell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127		population_widePMID:23101633
RNA levelexperimental evidencecell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005		population_wide1.7PMID:23101633
experimental evidencevegetative growth of a single-celled organismPECO:0000014,
PECO:0000005		population_wide5.8PMID:23101633
Species Distribution
DescriptionQualifierReference
predominantly single copy (one to one)
conserved in fungi
conserved in eukaryotes
conserved in metazoa
conserved in vertebrates
conserved in eukaryotes only
Manually curated orthologous groups
SpeciesGeneDescription

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Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
cdt2WD repeat protein Cdt2 Negative GeneticPMID:22681890
SPAC821.05translation initiation factor eIF3h (p40) Negative GeneticPMID:22681890
vph2endoplasmic reticulum membrane protein involved in assembly of the V-ATPase (predicted) Positive GeneticPMID:22681890
SPBC29A3.09cAAA family ATPase Gcn20 (predicted) Positive GeneticPMID:22681890
rad57RecA family ATPase Rad57/Rhp57 Negative GeneticPMID:22681890
SPCC162.11curidine kinase/uracil phosphoribosyltransferase (predicted) Negative GeneticPMID:22681890
SPCC1322.02sequence orphan Negative GeneticPMID:22681890
ams2cell cycle regulated GATA-type transcription factor Ams2 Negative GeneticPMID:22681890
rad55RecA family ATPase Rad55/Rhp55 Negative GeneticPMID:22681890
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External References
Database Identifier Description
NBRP SPBC28F2.08c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC28F2.08c Retrieval of eukaryotic orthologs
BioGrid SPBC28F2.08c BioGRID Interaction Datasets
Bähler Lab SPBC28F2.08c Cell Cycle Expression Profile
Bähler Lab SPBC28F2.08c Meiosis/Sporulation Expression Profies
Bähler Lab SPBC28F2.08c Pheromone response/mating expression profiles
Bähler Lab SPBC28F2.08c Environmental stress expression profiles
Bähler Lab SPBC28F2.08c Bähler Lab Transcriptome Viewer
Cyclebase SPBC28F2.08c Cell Cycle Data
PInt SPBC28F2.08c Bähler Lab Protein-Protein Interaction Predictor
Entrez Gene SPBC28F2.08c Entrez Gene
WikiGene2540568HRD ubiquitin ligase complex subunit (predicted)
EntrezGene2540568HRD ubiquitin ligase complex subunit (predicted)
SPD / RIKEN37/37E08Orfeome Localization Data
UniProtKB/SwissProtQ9USV0Putative ERAD-associated E3 ubiquitin-protein ligase component
ModBaseQ9USV0Database of comparative protein structure models
Pfam Protein DomainsQ9USV0Pfam Domain Arrangement
RefSeq PeptideNP_595669HRD ubiquitin ligase complex subunit (predicted)
RefSeq mRNANM_001021564972h- HRD ubiquitin ligase complex subunit (predicted) (SPBC28F2.08c), mRNA
European Nucleotide ArchiveBAA12178ENA Protein Mapping
European Nucleotide ArchiveBAA12179ENA Protein Mapping
European Nucleotide ArchiveCAB57937ENA Protein Mapping
SPD / RIKEN37/37E08Orfeome Localization Data

Literature for SPBC28F2.08c
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Search: UK PMC or PubMed

Release Version: PomBase:18.34 - 04 Apr 2013