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 IDTerm NameEvidenceWith/FromReferenceCount
GO:0003735structural constituent of ribosomeISOSGD:S000001410GO_REF:0000024255
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0006281DNA repairIEAUniProtKB-KW:KW-0234GO_REF:0000037203
GO:0002181cytoplasmic translationNASGO_REF:0000051445
GO:0016567protein ubiquitinationISMPFAM:PF00240GO_REF:0000001115
GO:0042254ribosome biogenesisISOSGD:S000001410GO_REF:0000024327
GO:0006412translationISOSGD:S000001410GO_REF:0000024597
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0022625cytosolic large ribosomal subunitISOSGD:S000001410GO_REF:000002482
GO:0005634nucleusIEAUniProtKB-KW:KW-0539GO_REF:00000372730
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001098sensitive to 4-nitroquinoline N-oxideCell growth assayubi1ΔNullPECO:0000137, PECO:0000005PMID:19264558159
expressivity FYPO_EXT:0000002
FYPO:0001701sensitive to bortezomibCell growth assayubi1ΔNullPECO:0000005, PECO:0000137PMID:21760946256
expressivity FYPO_EXT:0000003
FYPO:0000085sensitive to camptothecinCell growth assayubi1ΔNullPECO:0000137, PECO:0000005PMID:19264558200
expressivity FYPO_EXT:0000003
FYPO:0000088sensitive to hydroxyureaCell growth assayubi1ΔNullPECO:0000137, PECO:0000005PMID:19264558233
expressivity FYPO_EXT:0000002
FYPO:0000267sensitive to ionizing radiationCell growth assayubi1ΔNullPECO:0000137, PECO:0000005PMID:1926455841
expressivity FYPO_EXT:0000002
FYPO:0000089sensitive to methyl methanesulfonateCell growth assayubi1ΔNullPECO:0000137, PECO:0000005PMID:1926455863
expressivity FYPO_EXT:0000002
FYPO:0002060viable vegetative cell populationMicroscopyubi1ΔNullPMID:204732893755
Microscopyubi1ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001510viable vegetative cell, abnormal cell shape, normal cell sizeMicroscopyubi1ΔNullPECO:0000137, PECO:0000005PMID:23697806215
expressivity FYPO_EXT:0000003
penetrance FYPO_EXT:0000001
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
139689323969558

UTRs

Region Start End Reference
three_prime_UTR39693963969558PMID:21511999
five_prime_UTR39689323969008PMID: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 domain 6 74 15
SM00213 SMART IPR000626 Ubiquitin domain 1 72 16
PS50053 Prosite Profiles IPR000626 Ubiquitin domain 1 76 18
PS00299 Prosite Patterns IPR019954 Ubiquitin domain 27 52 7
PTHR10666 HMMPANTHER 1 128 6
G3DSA:3.10.20.90 Gene3D 1 96 26
SSF54236 SuperFamily 1 95 29
PR00348 PRINTS IPR019956 Ubiquitin 53 74 6
PR00348 PRINTS IPR019956 Ubiquitin 32 52 6
PR00348 PRINTS IPR019956 Ubiquitin 11 31 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
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
NDduring GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
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)DuringConditionScaleEvidenceReference
5.3during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
43during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3080
conserved in fungi4564
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3394
conserved in eukaryotes only2485
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
cbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
bdf2BET family double bromodomain protein Bdf2 Affinity Capture-MSPMID:24013502
rhp23Rad23 homolog Rhp23 Two-hybridPMID:11788722
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)
WikiGene2542428ribosomal-ubiquitin fusion protein Ubi2
WikiGene2541768ribosomal-ubiquitin fusion protein Ubi1
EntrezGene2542428ribosomal-ubiquitin fusion protein Ubi2
EntrezGene2541768ribosomal-ubiquitin fusion protein Ubi1
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
UniProtKB/SwissProtP0CH07Ubiquitin-60S ribosomal protein L40 Ubiquitin 60S ribosomal protein L40
ModBaseP0CH07Database of comparative protein structure models
StringP0CH07Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_594398ribosomal-ubiquitin fusion protein Ubi1
RefSeq mRNANM_001019821972h- ribosomal-ubiquitin fusion protein Ubi1 (ubi1), mRNA
European Nucleotide ArchiveCAB16209ENA Protein Mapping
European Nucleotide ArchiveCAB55853ENA Protein Mapping
UniParcUPI0000069E71UniProt Archive

Literature for ubi1

Search: Europe PMC or PubMed

Release Version: PomBase:21_41 - 24 Feb 2014