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 ribosome255
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
cytoplasmic translation470
Annotation ExtensionEvidenceWith/FromReference
protein ubiquitination115
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

Population Phenotype

Term NameAlleleExpressionCount
sensitive to 4-nitroquinoline N-oxide159
expressivity FYPO_EXT:0000002ubi1ΔNull
sensitive to bortezomib256
expressivity FYPO_EXT:0000003ubi1ΔNull
sensitive to camptothecin214
expressivity FYPO_EXT:0000003ubi1ΔNull
sensitive to hydroxyurea518
expressivity FYPO_EXT:0000002ubi1ΔNull
sensitive to ionizing radiation58
expressivity FYPO_EXT:0000002ubi1ΔNull
sensitive to methyl methanesulfonate227
expressivity FYPO_EXT:0000002ubi1ΔNull
viable vegetative cell populationubi1ΔNull3781

Cell Phenotype

Term NameAlleleExpressionCount
abnormal microtubule cytoskeleton morphology during mitotic interphase186
penetrance FYPO_EXT:0000002ubi1ΔNull
vegetative cell lysisubi1ΔNull82
viable vegetative cell with abnormal cell shape472
penetrance FYPO_EXT:0000002ubi1ΔNull
viable vegetative cell, abnormal cell shape, normal cell size215
penetrance FYPO_EXT:0000001, expressivity FYPO_EXT:0000003ubi1ΔNull
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
139689323969558

UTRs

Region Coordinates Reference
five_prime_UTR3968932..3969008PMID:21511999
three_prime_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
PF01020 Pfam IPR001975 Ribosomal protein L40e 78 128 2
PF00240 Pfam IPR000626 Ubiquitin-like 6 74 14
SM00213 SMART IPR000626 Ubiquitin-like 1 72 13
PS00299 Prosite Patterns IPR019954 Ubiquitin conserved site 27 52 7
PS50053 Prosite Profiles IPR000626 Ubiquitin-like 1 76 18
PTHR10666 HMMPANTHER 1 128 6
3.10.20.90 Gene3D 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

Manually Curated Family or Sub-families

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 1670
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:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
43during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
5.3during 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 fungi4604
conserved in eukaryotes4516
conserved in metazoa3432
conserved in vertebrates3407
conserved in eukaryotes only2503
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
cbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
rhp23Rad23 homolog Rhp23 Two-hybridPMID:11788722
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
ecm33cell wall protein Ecm33 Dosage RescuePMID:24454826
cis4cation diffusion family zinc transmembrane transporter Cis4 Dosage RescuePMID:24454826
apm1AP-1 adaptor complex mu subunit Apm1 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)
Cyclebase SPAC11G7.04 Cell Cycle Data
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
UniProtKB/SwissProtP0CH06Ubiquitin-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
ePDB4II2The European PDB
PDB4II2PDB
PDBsum4II2PDBsum
ePDB4II3The European PDB
PDB4II3PDB
PDBsum4II3PDBsum
European Nucleotide ArchiveCAB16209.1ENA Protein Mapping
European Nucleotide ArchiveCAB55853.1ENA Protein Mapping
UniParcUPI0000069E71UniProt Archive

Literature for ubi1

Search: Europe PMC or PubMed

Release Version: PomBase:25_48 - 10 Jan 2015