rpl3001 (SPAC9G1.03c)


Gene Standard Namerpl3001 Characterisation Statusbiological role inferred
Systematic IDSPAC9G1.03c Feature Typeprotein coding
Synonymsrpl30, rpl30-1 Name Description
Product60S ribosomal protein L30 (predicted) Product Size109aa, 11.59 kDa
Genomic Location Chromosome I, 1974092-1973479 (614nt); CDS:1974054-1973666 (389nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
structural constituent of ribosome257
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
cytoplasmic translation469
Annotation ExtensionEvidenceWith/FromReference
rRNA processing197
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2302
Annotation ExtensionEvidenceWith/FromReference
cytosolic large ribosomal subunit83
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
sensitive to 5-fluorouracilrpl3001Δ307
sensitive to tacrolimusrpl3001Δ81
viable vegetative cell populationrpl3001Δ3850

Cell Phenotype

Term NameGenotypesCount
abnormal actin cytoskeleton during vegetative growthrpl3001Δ54
abnormal microtubule cytoskeletonrpl3001Δ244
abnormal microtubule cytoskeleton morphology during mitotic interphaserpl3001Δ186
abolished activation of bipolar cell growthrpl3001Δ14
decreased pre-mRNA level5
affecting rpl3002rpl3001::kanMX6
elongated telomeresrpl3001Δ176
single microtubule bundlerpl3001Δ10
viable vegetative cell, abnormal cell shape, normal cell sizerpl3001Δ215
Target Of
OntologyRelationshipGeneProduct
GO substrate of ubp15 ubiquitin C-terminal hydrolase Ubp15
GO substrate of ubp4 ubiquitin C-terminal hydrolase Ubp4
GO substrate of ubp5 ubiquitin C-terminal hydrolase Ubp5
GO substrate of ubp9 ubiquitin C-terminal hydrolase Ubp9
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons1974092..1973816, 1973756..1973479
Intron1973815..1973757
mRNA1974092..1973479
5' UTR1974092..1974055PMID:21511999
CDS1974054..1973816, 1973756..1973666
3' UTR1973665..1973479PMID: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
PF01248 Pfam IPR004038 Ribosomal protein L7Ae/L30e/S12e/Gadd45 15 107 7
PS00993 Prosite Patterns IPR022991 Ribosomal protein L30e, conserved site 82 102 2
PS00709 Prosite Patterns IPR022991 Ribosomal protein L30e, conserved site 26 50 2
PTHR11449 HMMPANTHER IPR000231 Ribosomal protein L30e 4 108 2
3.30.1330.30 Gene3D IPR029064 50S ribosomal protein L30e-like 8 107 10
SSF55315 SuperFamily IPR029064 50S ribosomal protein L30e-like 15 107 10

View domain organization at Pfam

Protein Properties

Ave. residue weight 106.35 Da
Charge 10.00
Codon Adaptation Index 0.70
Isoelectric point 10.25
Molecular weight 11.59 kDa
Number of residues 109
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serineS26, S60, S104 2289
Annotation ExtensionEvidenceResidueReference
IDA S60 PMID:25720772
IDA S26 PMID:25720772
IDA S104 PMID:25720772
phosphorylated residue 2511
Annotation ExtensionEvidenceResidueReference
IDA PMID:19547744
ubiquitinylated lysineK25, K28, K89 512
Annotation ExtensionEvidenceResidueReference
mass spectrometry evidence K28 PMID:26412298
mass spectrometry evidence K25 PMID:26412298
IDA PMID:26412298
mass spectrometry evidence K89 PMID:26412298
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for rpl3001 (SPAC9G1.03c)

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
276697during GO:0000080PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
251282during GO:0000084PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
228835during GO:0000085PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
266670during GO:0000087PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
138909.29during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
258070during GO:0072690PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
48435.93during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
62during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
5.9during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
conserved in fungi4607
conserved in eukaryotes4517
conserved in bacteria1005
conserved in metazoa3427
conserved in vertebrates3402
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPAC9G1.03c into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity captured bypab2poly(A) binding protein Pab2 Affinity Capture-MSPMID:19336419
affinity captured bycid14poly(A) polymerase Cid14 Affinity Capture-MSPMID:20403971
affinity captured byfic1C2 domain protein Fic1 Affinity Capture-MSPMID:19139265
affinity captured bysog2leucine-rich repeat protein Lrp1 Affinity Capture-MSPMID:23462181
Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPAC9G1.03c into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
negative genetic interaction withprp19ubiquitin-protein ligase E4 Prp19 Negative GeneticPMID:22681890
negative genetic interaction withsrp1SR family protein, human SRFS2 ortholog Srp1 Negative GeneticPMID:22681890
negative genetic interaction withSPAC1952.06cspliceosomal complex subunit (predicted) Negative GeneticPMID:22681890
negative genetic interaction withcdr2serine/threonine protein kinase Cdr2 Negative GeneticPMID:22681890
negative genetic interaction withdam1DASH complex subunit Dam1 Negative GeneticPMID:22681890
negative genetic interaction withdsc4Golgi Dsc E3 ligase complex subunit Dsc4 Negative GeneticPMID:22681890
negative genetic interaction withsdh4TIM22 inner membrane protein import complex anchor subunit Tim18 Negative GeneticPMID:22681890
negative genetic interaction withpuf1pumilio family RNA-binding protein Puf1 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withspc19DASH complex subunit Spc19 Negative GeneticPMID:22681890
negative genetic interaction withhip4histone promoter control protein Hip4 Negative GeneticPMID:22681890
negative genetic interaction withdad1DASH complex subunit Dad1 Negative GeneticPMID:22681890
negative genetic interaction withccr4CCR4-Not complex subunit Ccr4 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withmug154conserved fungal protein Negative GeneticPMID:22681890
negative genetic interaction withmed14mediator complex subunit Med14 Negative GeneticPMID:22681890
negative genetic interaction withnot2CCR4-Not complex subunit Not2 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withdad4DASH complex subunit Dad4 Negative GeneticPMID:22681890
negative genetic interaction withSPBC16H5.13WD repeat protein, human WDR7 ortholog Negative GeneticPMID:22681890
negative genetic interaction withcwf28splicing factor Cwf28 Negative GeneticPMID:22681890
negative genetic interaction withcwf18complexed with Cdc5 protein Cwf18 Negative GeneticPMID:22681890
negative genetic interaction withask1DASH complex subunit Ask1 Negative GeneticPMID:22681890
negative genetic interaction withint6eIF3e subunit Int6 Negative GeneticPMID:22681890
negative genetic interaction withgim6prefoldin subunit 1 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withduo1DASH complex subunit Duo1 Negative GeneticPMID:22681890
negative genetic interaction withswr1SNF2 family ATP-dependent DNA helicase Swr1 Negative GeneticPMID:22681890
negative genetic interaction withgcn20AAA family ATPase Gcn20 (predicted) Negative GeneticPMID:22681890
positive genetic interaction withaar2U5 snRNP-associated protein Aar2 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withsif1Sad1 interacting factor 1 Positive GeneticPMID:22681890
positive genetic interaction withelp2elongator complex subunit Elp2 (predicted) Positive GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPAC9G1.03c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC9G1.03c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC9G1.03c BioGRID Interaction Datasets
Expression Viewer SPAC9G1.03c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC9G1.03c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC9G1.03c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC9G1.03c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC9G1.03c Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC9G1.03c Transcriptome Viewer (Bähler Lab)
GEO SPAC9G1.03c GEO profiles
PInt SPAC9G1.03c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC9G1.03c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC9G1.03c Fission yeast phenotypic data & analysis
Cyclebase SPAC9G1.03c.1 Cell Cycle Data
SPD / RIKEN02/02H06Orfeome Localization Data
UniProtKB/SwissProtP5280860S ribosomal protein L30-1
ModBaseP52808Database of comparative protein structure models
STRINGP52808Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_59355860S ribosomal protein L30
RefSeq mRNANM_001018991972h- 60S ribosomal protein L30 (rpl3001), mRNA
European Nucleotide ArchiveU97398ENA EMBL mapping
European Nucleotide ArchiveAAB17132.1ENA Protein Mapping
European Nucleotide ArchiveCAB11499.1ENA Protein Mapping
UniParcUPI0000132F9BUniProt Archive

Literature for rpl3001

Search: Europe PMC or PubMed

Release Version: PomBase:30_61 - 12 Sep 2016