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:0002181cytoplasmic translationNASGO_REF:0000051446
GO:0016567protein ubiquitinationISMPFAM:PF00240GO_REF:0000001108
GO:0042254ribosome biogenesisISOSGD:S000001410GO_REF:0000024338
GO:0006412translationISOSGD:S000001410GO_REF:0000024599
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0022625cytosolic large ribosomal subunitISOSGD:S000001410GO_REF:000002482
GO:0005634nucleusIEAUniProtKB-KW:KW-0539GO_REF:00000372737
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001098sensitive to 4-nitroquinoline N-oxide159
expressivity FYPO_EXT:0000002Cell growth assayubi1ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0001701sensitive to bortezomib256
expressivity FYPO_EXT:0000003Cell growth assayubi1ΔNullPECO:0000005, PECO:0000137PMID:21760946
FYPO:0000085sensitive to camptothecin211
expressivity FYPO_EXT:0000003Cell growth assayubi1ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0000088sensitive to hydroxyurea513
expressivity FYPO_EXT:0000002Cell growth assayubi1ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0000267sensitive to ionizing radiation44
expressivity FYPO_EXT:0000002Cell growth assayubi1ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0000089sensitive to methyl methanesulfonate214
expressivity FYPO_EXT:0000002Cell growth assayubi1ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0002060viable vegetative cell populationMicroscopyubi1ΔNullPECO:0000005, PECO:0000137PMID:236978063751
Microscopyubi1ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000647vegetative cell lysisCell growth assayubi1ΔNullPECO:0000137, PECO:0000005PMID:2373802179
FYPO:0001510viable vegetative cell, abnormal cell shape, normal cell size215
expressivity FYPO_EXT:0000003
penetrance FYPO_EXT:0000001
Microscopyubi1ΔNullPECO:0000137, PECO:0000005PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
139689323969558
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 14
SM00213 SMART IPR000626 Ubiquitin domain 1 72 13
PS50053 Prosite Profiles IPR000626 Ubiquitin domain 1 76 18
PS00299 Prosite Patterns IPR019954 Ubiquitin conserved site 27 52 7
PTHR10666 HMMPANTHER 1 128 6
3.10.20.90 Gene3D 1 96 28
SSF54236 SuperFamily Ubiquitin-related domain 1 95 29
PR00348 PRINTS IPR019956 Ubiquitin 11 31 6
PR00348 PRINTS IPR019956 Ubiquitin 53 74 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 IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineIDAS57PMID:182575171670
present during cellular response to thiabendazole
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
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)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 fungi4599
conserved in eukaryotes4514
conserved in metazoa3428
conserved in vertebrates3402
conserved in eukaryotes only2498
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
ecm33cell wall protein Ecm33 Dosage RescuePMID:24454826
cis4cation diffusion family zinc membrane transporter Cis4 Dosage RescuePMID:24454826
apm1AP-1 adaptor complex mu subunit Apm1 Dosage RescuePMID:24454826
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)
PeptideAtlas SPAC11G7.04 Peptides identified in tandem mass spectrometry proteomics experiments
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:23_46 - 30 Aug 2014