SPAC1006.07


Gene Standard NameUnassigned Characterisation Statusbiological_role_inferred
Systematic IDSPAC1006.07 Feature Typeprotein coding
Synonymstif1 Name Description
Producttranslation initiation factor eIF4A (predicted) Product Size392aa, 44.44 kDa
Genomic Location Chromosome I, 5085486-5087031 (1546nt); CDS:5085563-5086741 (1179nt)

Ensembl Gene Location
  1. och1
  2. rgf2
  3. SPAC1006.07
  4. etd1
  5. win1
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005524ATP bindingIEAUniProtKB-KW:KW-0067GO_REF:0000037558
GO:0004004ATP-dependent RNA helicase activityISOSGD:S000001767GO_REF:000002440
GO:0003743translation initiation factor activityISOSGD:S000001767GO_REF:000002437
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0002183cytoplasmic translational initiationISOSGD:S000001767GO_REF:000002439
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005829cytosolIDAPMID:168233722315
GO:0016281eukaryotic translation initiation factor 4F complexISOSGD:S000001767GO_REF:00000243
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopySPAC1006.07ΔNullPMID:204732891338
MicroscopySPAC1006.07ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000313inviable after spore germination, without cell division, with abnormal germ tube morphology146
penetrance FYPO_EXT:0000001MicroscopySPAC1006.07ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
150854865087031

UTRs

Region Coordinates Reference
five_prime_UTR5085486..5085562PMID: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
PF00271 Pfam IPR001650 Helicase, C-terminal 277 353 68
PF00270 Pfam IPR011545 DNA/RNA helicase, DEAD/DEAH box type, N-terminal 44 208 43
SM00487 SMART IPR014001 Helicase, superfamily 1/2, ATP-binding domain 38 235 69
SM00490 SMART IPR001650 Helicase, C-terminal 272 353 68
PS00039 Prosite Patterns IPR000629 RNA helicase, ATP-dependent, DEAD-box, conserved site 166 174 19
PS51195 Prosite Profiles IPR014014 RNA helicase, DEAD-box type, Q motif 19 47 23
PS51192 Prosite Profiles IPR014001 Helicase, superfamily 1/2, ATP-binding domain 50 220 69
PS51194 Prosite Profiles IPR001650 Helicase, C-terminal 231 392 69
PTHR24031 HMMPANTHER 1 392 26
3.40.50.300 Gene3D 8 225 288
3.40.50.300 Gene3D 226 389 288
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 87 375 294

View domain organization at Pfam

Manually Curated Family or Sub-families

Term IDTerm NameReferenceCount
PBO:0000174DEAD/DEAH box helicaseTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000174

Protein Properties

Ave. residue weight 113.36 Da
Charge -14.50
Isoelectric point 4.62
Molecular weight 44.44 kDa
Number of residues 392
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineIDAS65PMID:182575171670
present during cellular response to thiabendazole
MOD:00696phosphorylated residueNASPMID:182575171922
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
453348during GO:0000080PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
411267during GO:0000084PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
511304during GO:0000085PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
460691during GO:0000087PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
154934.46during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
438624during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
53576.62during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
110during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
14during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Disease Association
DescriptionQualifierReferenceCount
cancercancer_census142
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4600
conserved in eukaryotes4514
conserved in metazoa3425
conserved in vertebrates3400
conserved in eukaryotes only2497
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
mtl1TRAMP complex ATP-dependent RNA helicase (predicted) Affinity Capture-MSPMID:24713849
pir2zf-C2H2 type zinc finger protein, implicated in RNAi (predicted) Affinity Capture-MSPMID:24713849
iss10Mmi1-driven selective elimination factor Iss10 Affinity Capture-MSPMID:24713849
rmn1RNA-binding protein Affinity Capture-MSPMID:24713849
cbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
sog2leucine-rich repeat protein Lrp1 Affinity Capture-MSPMID:23462181
cwf2RNA-binding protein Cwf2 Affinity Capture-MSPMID:21386897
hhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
tea1cell end marker Tea1 Affinity Capture-MSPMID:21652630
paa1protein phosphatase regulatory subunit Paa1 Affinity Capture-MSPMID:22119525
far8SIP/FAR complex striatin subunit, Far8/Csc3 Affinity Capture-MSPMID:22119525
hhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
red1RNA elimination defective protein Red1 Affinity Capture-MSPMID:24713849
External References
Database Identifier Description
NBRP SPAC1006.07 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC1006.07 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC1006.07 BioGRID Interaction Datasets
Expression Viewer SPAC1006.07 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC1006.07 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC1006.07 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC1006.07 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC1006.07 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC1006.07 Transcriptome Viewer (Bähler Lab)
Cyclebase SPAC1006.07 Cell Cycle Data
GEO SPAC1006.07 GEO profiles
PInt SPAC1006.07 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC1006.07 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC1006.07 Fission yeast phenotypic data & analysis
SPD / RIKEN32/32F01Orfeome Localization Data
UniProtKB/SwissProtP47943ATP-dependent RNA helicase eIF4A
ModBaseP47943Database of comparative protein structure models
STRINGP47943Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_594854translation initiation factor eIF4A (predicted)
RefSeq mRNANM_001020283972h- translation initiation factor eIF4A (predicted) (SPAC1006.07), mRNA
European Nucleotide ArchiveL40627ENA EMBL mapping
European Nucleotide ArchiveX80796ENA EMBL mapping
European Nucleotide ArchiveCAB60237.1ENA Protein Mapping
UniParcUPI000012D369UniProt Archive

Literature for SPAC1006.07

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014