rav1 (SPBC1105.10)


Gene Standard Namerav1 Characterisation Statuspublished
Systematic IDSPBC1105.10 Feature Typeprotein coding
Synonyms Name Description
ProductRAVE complex subunit Rav1 Product Size1297aa, 148.74 kDa
Genomic Location Chromosome II, 3524531-3528845 (4315nt); CDS:3524673-3528681 (4009nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0032403protein complex bindingIPIvma2PMID:1844112345
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0071277cellular response to calcium ionIMPPMID:184411238
GO:0071294cellular response to zinc ionIMPPMID:184411234
GO:0045324late endosome to vacuole transportTASPMID:1844112340
GO:0042493response to drugIMPPMID:1844112313
GO:0007035vacuolar acidificationIMPPMID:1844112323
GO:0070072vacuolar proton-transporting V-type ATPase complex assemblyTASPMID:184411235
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0043291RAVE complexIPIskp1PMID:184411233
GO:0005737cytoplasmIDAPMID:184411234198
GO:0005829cytosolIDAPMID:168233722317
GO:0010008endosome membraneIDAPMID:1844112322
GO:0005634nucleusIDAPMID:168233722730
GO:0005773vacuoleIMPPMID:18441123172
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000096sensitive to cadmiumcell growth assayrav1ΔNullPECO:0000102, PECO:0000005, PECO:0000137PMID:18684775244
expressivity FYPO_EXT:0000001
FYPO:0000085sensitive to camptothecinCell growth assayrav1ΔNullPECO:0000137, PECO:0000005PMID:19264558200
expressivity FYPO_EXT:0000003
FYPO:0000087sensitive to hydrogen peroxidecell growth assayrav1ΔNullPECO:0000102, PECO:0000005, PECO:0000137PMID:18684775112
expressivity FYPO_EXT:0000003
FYPO:0000088sensitive to hydroxyureaCell Growth Assayrav1ΔNullPECO:0000137, PECO:0000102PMID:23697806233
expressivity FYPO_EXT:0000003
FYPO:0000271sensitive to salt stresscell growth assayrav1ΔNullPECO:0000207, PECO:0000137, PECO:0000102, PECO:0000005PMID:1868477573
expressivity FYPO_EXT:0000003
FYPO:0002060viable vegetative cell populationMicroscopyrav1ΔNullPMID:204732893755
Microscopyrav1ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000708decreased mating efficiencyhigh throughput nucleotide sequencing assay evidencerav1ΔNullPECO:0000015PMID:23950735222
FYPO:0002177viable vegetative cell with normal cell morphologyMicroscopyrav1ΔNullPECO:0000005, PECO:0000137PMID:236978063078
penetrance FYPO_EXT:0000001
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
135245313524759
235248753528845

UTRs

Region Start End Reference
five_prime_UTR35245313524672PMID:21511999
three_prime_UTR35286823528845PMID: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
PF12234 Pfam IPR022033 RAVE complex protein Rav1 C-terminal 574 1231 1
PTHR13950 HMMPANTHER 589 1296 1
SSF101908 SuperFamily 24 270 4
SSF50978 SuperFamily IPR017986 382 726 135
Low complexity (SEG) seg 139 151
Low complexity (SEG) seg 551 561
Low complexity (SEG) seg 632 643
Low complexity (SEG) seg 763 783
Low complexity (SEG) seg 860 875

View domain organization at Pfam

Manually Curated Family or Sub-families

Term IDTerm NameReferenceCount
PBO:0000190WD repeat proteinTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000190

Protein Properties

Ave. residue weight 114.68 Da
Charge 6.50
Isoelectric point 6.82
Molecular weight 148.74 kDa
Number of residues 1297
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
239.65during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
526.23during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
1.3during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.44during 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)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


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
prp43ATP-dependent RNA helicase Prp43 Negative GeneticPMID:22681890
hta1histone H2A alpha Negative GeneticPMID:22681890
iwr1RNA polymerase II nuclear import protein Iwr1 (predicted) Positive GeneticPMID:22681890
mpr1histidine-containing response regulator phosphotransferase Mpr1 Negative GeneticPMID:22681890
pef1Pho85/PhoA-like cyclin-dependent kinase Pef1 Negative GeneticPMID:22681890
cut2securin, sister chromatid separation inhibitor Negative GeneticPMID:22681890
tom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
ste20Rictor homolog, Ste20 Positive GeneticPMID:22681890
snf5SWI/SNF complex subunit Snf5 Negative GeneticPMID:22681890
rad55RecA family ATPase Rad55/Rhp55 Synthetic Growth DefectPMID:23365689
Phenotypic Enhancement
erg31C-5 sterol desaturase Erg31 Positive GeneticPMID:22681890
iec1Ino80 complex subunit Iec1 Phenotypic EnhancementPMID:23365689
dad5DASH complex subunit Dad5 Phenotypic EnhancementPMID:23365689
ccr4CCR4-Not complex subunit Ccr4 (predicted) Positive GeneticPMID:22681890
sdc1Dpy-30 domain protein Sdc1 Positive GeneticPMID:22681890
arp8actin-like protein, Ino80 complex subunit Arp8 Positive GeneticPMID:22681890
lac1sphingosine N-acyltransferase Lac1 Phenotypic EnhancementPMID:18441123
sfp1transcription factor Sfp1 (predicted) Negative GeneticPMID:22681890
sif1Sad1 interacting factor 1 Negative GeneticPMID:22681890
mcs2TFIIH complex cyclin Mcs2 Negative GeneticPMID:22681890
rad51RecA family recombinase Rad51/Rhp51 Negative GeneticPMID:22681890
lag1sphingosine N-acyltransferase Lag1 Phenotypic EnhancementPMID:18441123
ubp2ubiquitin C-terminal hydrolase Ubp2 Positive GeneticPMID:22681890
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
skp1SCF ubiquitin ligase complex subunit Skp1 Affinity Capture-WesternPMID:18441123
External References
Database Identifier Description
NBRP SPBC1105.10 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC1105.10 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC1105.10 BioGRID Interaction Datasets
Expression Viewer SPBC1105.10 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC1105.10 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC1105.10 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC1105.10 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC1105.10 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC1105.10 Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC1105.10 Cell Cycle Data
GEO SPBC1105.10 GEO profiles
PInt SPBC1105.10 Protein-Protein Interaction Predictor (Bähler Lab)
SPD / RIKEN48/48F07Orfeome Localization Data
WikiGene2539705RAVE complex subunit Rav1
EntrezGene2539705RAVE complex subunit Rav1
UniProtKB/SwissProtQ9Y817Putative regulator of V-ATPase in vacuolar membrane protein 1
ModBaseQ9Y817Database of comparative protein structure models
StringQ9Y817Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596466RAVE complex subunit Rav1
RefSeq mRNANM_001022385972h- RAVE complex subunit Rav1 (rav1), mRNA
European Nucleotide ArchiveCAB50973ENA Protein Mapping
UniParcUPI00000696DFUniProt Archive

Literature for rav1

Search: Europe PMC or PubMed

Release Version: PomBase:21_41 - 24 Feb 2014