ubi1 (SPAC11G7.04)


Gene Standard Nameubi1 Characterisation Statusbiological role inferred
Systematic IDSPAC11G7.04 Feature Typeprotein coding
Synonyms Name Description
Productribosomal-ubiquitin fusion protein Ubi1 (predicted) Product Size128aa, 14.60 kDa
Genomic Location Chromosome I, 3968932-3969558 (627nt); CDS:3969009-3969395 (387nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
structural constituent of ribosome257
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
cytoplasmic translation468
Annotation ExtensionEvidenceWith/FromReference
protein ubiquitination121
Annotation ExtensionEvidenceWith/FromReference
ribosome biogenesis337
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosolic large ribosomal subunit83
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Single-allele Phenotypes

Population Phenotype

Term NameGenotypesCount
sensitive to 4-nitroquinoline N-oxideubi1Δ159
sensitive to bortezomibubi1Δ256
sensitive to camptothecinubi1Δ225
sensitive to hydroxyureaubi1Δ542
sensitive to ionizing radiation during vegetative growthubi1Δ64
sensitive to methyl methanesulfonateubi1Δ242
viable vegetative cell populationubi1Δ3819

Cell Phenotype

Term NameGenotypesCount
abnormal microtubule cytoskeleton morphology during mitotic interphaseubi1Δ186
vegetative cell lysisubi1Δ86
viable vegetative cell with abnormal cell shapeubi1Δ687
viable vegetative cell, abnormal cell shape, normal cell sizeubi1Δ215
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons3968932..3969558
mRNA3968932..3969558
5' UTR3968932..3969008PMID:21511999
CDS3969009..3969395
3' UTR3969396..3969558PMID: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
PF00240 Pfam IPR000626 Ubiquitin domain 6 74 13
PF01020 Pfam IPR001975 Ribosomal protein L40e 78 127 2
SM00213 SMART IPR000626 Ubiquitin domain 1 72 13
PS00299 Prosite Patterns IPR019954 Ubiquitin conserved site 27 52 7
PS50053 Prosite Profiles IPR000626 Ubiquitin domain 1 76 18
PTHR10666 HMMPANTHER 1 127 6
3.10.20.90 Gene3D Rad60/SUMO-like domain 1 96 28
SSF54236 SuperFamily IPR029071 Ubiquitin-related domain 1 95 29
PR00348 PRINTS IPR019956 Ubiquitin 53 74 6
PR00348 PRINTS IPR019956 Ubiquitin 11 31 6
PR00348 PRINTS IPR019956 Ubiquitin 32 52 6

View domain organization at Pfam

Term IDTerm NameReferenceCount
PBO:0001447ubiquitin family proteinTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0001447
PBO:0001733ribosomal-ubiquitin fusion proteinTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0001733

Protein Properties

Ave. residue weight 114.02 Da
Charge 15.00
Isoelectric point 10.48
Molecular weight 14.60 kDa
Number of residues 128
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serine 1674
present during cellular response to thiabendazoleS57
Annotation ExtensionEvidenceResidueReference
present during cellular response to thiabendazole IDA S57 PMID:18257517
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
3127.67during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
43during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
5.3during 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)3090
conserved in fungi4604
conserved in eukaryotes4514
conserved in metazoa3421
conserved in vertebrates3396
conserved in eukaryotes only2503
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load gene that interact physically with SPAC11G7.04 into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
binds DNA-binding domain construct withrhp23Rad23 homolog Rhp23 Two-hybridPMID:11788722
affinity captured bycbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
Genetic Interactions

Source: BioGRID

Load gene that interact geneitically with SPAC11G7.04 into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
overexpression rescuescis4cation diffusion family zinc transmembrane transporter Cis4 Dosage RescuePMID:24454826
overexpression rescuesapm1AP-1 adaptor complex mu subunit Apm1 Dosage RescuePMID:24454826
overexpression rescuesecm33cell wall protein Ecm33 Dosage RescuePMID:24454826
External References
Database Identifier Description
NBRP SPAC11G7.04 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC11G7.04 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC11G7.04 BioGRID Interaction Datasets
Expression Viewer SPAC11G7.04 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC11G7.04 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC11G7.04 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC11G7.04 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC11G7.04 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC11G7.04 Transcriptome Viewer (Bähler Lab)
GEO SPAC11G7.04 GEO profiles
PInt SPAC11G7.04 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC11G7.04 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC11G7.04 Fission yeast phenotypic data & analysis
Cyclebase SPAC11G7.04.1 Cell Cycle Data
UniProtKB/SwissProtP0CH06Ubiquitin-60S ribosomal protein L40 Ubiquitin 60S ribosomal protein L40
ModBaseP0CH06Database of comparative protein structure models
STRINGP0CH06Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_594398ubiquitin-60S ribosomal protein L40 fusion protein
RefSeq mRNANM_001019821972h- ubiquitin-60S ribosomal protein L40 fusion protein (ubi1), mRNA
European Nucleotide ArchiveCU329670ENA EMBL mapping
ePDB4II2The European PDB
PDB4II2PDB
PDBsum4II2PDBsum
ePDB4II3The European PDB
PDB4II3PDB
PDBsum4II3PDBsum
European Nucleotide ArchiveCAB16209ENA Protein Mapping
European Nucleotide ArchiveCAB16209.1ENA Protein Mapping
European Nucleotide ArchiveCAB55853ENA Protein Mapping
European Nucleotide ArchiveCAB55853.1ENA Protein Mapping
UniParcUPI0000069E71UniProt Archive

Literature for ubi1

Search: Europe PMC or PubMed

Release Version: PomBase:29_56 - 12 Nov 2015