cwf4 (SPBC31F10.11c)


Gene Standard Namecwf4 Characterisation Statuspublished
Systematic IDSPBC31F10.11c Feature Typeprotein coding
Synonymssyf3 Name Description
Productcomplexed with Cdc5 protein Cwf4 Product Size674aa, 80.84 kDa
Genomic Location Chromosome II, 3773191-3770856 (2336nt); CDS:3773057-3771033 (2025nt)

Ensembl Gene Location
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0007049cell cycleIEAUniProtKB-KW:KW-0131GO_REF:0000037641
GO:0045292mRNA cis splicing, via spliceosome113
requiredICGO:0005681GO_REF:0000001
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0000974Prp19 complexIDAPMID:2138689713
GO:0005634nucleusIDAPMID:168233722740
GO:0005681spliceosomal complexIDAPMID:12088152107
IDAPMID:11884590
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopycwf4ΔNullPECO:0000005, PECO:0000137PMID:236978061315
Microscopycwf4ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000059abnormal mitotic cell cycleMicroscopycwf4ΔNullPECO:0000005, PECO:0000137PMID:23697806624
FYPO:0000314inviable after spore germination with elongated germ tube162
penetrance FYPO_EXT:0000001Microscopycwf4ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
137731913770856

UTRs

Region Coordinates Reference
five_prime_UTR3773191..3773058PMID:21511999
three_prime_UTR3771032..3770856PMID: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
PF02184 Pfam IPR003107 RNA-processing protein, HAT helix 519 547 1
PF02184 Pfam IPR003107 RNA-processing protein, HAT helix 185 216 1
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 50 82 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 218 253 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 415 446 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 299 331 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 152 183 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 333 367 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 518 549 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 377 413 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 448 480 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 84 116 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 185 216 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 255 289 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 118 150 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 482 516 8
PS50293 Prosite Profiles IPR013026 Tetratricopeptide repeat-containing domain 378 434 27
PS50293 Prosite Profiles IPR013026 Tetratricopeptide repeat-containing domain 70 171 27
PS50293 Prosite Profiles IPR013026 Tetratricopeptide repeat-containing domain 241 274 27
PTHR11246:SF3 HMMPANTHER 2 671 1
PTHR11246 HMMPANTHER 2 671 3
1.25.40.10 Gene3D IPR011990 Tetratricopeptide-like helical 308 388 55
1.25.40.10 Gene3D IPR011990 Tetratricopeptide-like helical 73 202 55
1.25.40.10 Gene3D IPR011990 Tetratricopeptide-like helical 389 495 55
1.25.40.10 Gene3D IPR011990 Tetratricopeptide-like helical 252 275 55
SSF48452 SuperFamily 505 616 50
SSF48452 SuperFamily 60 501 50

View domain organization at Pfam

Protein Properties

Ave. residue weight 119.94 Da
Charge 4.00
Isoelectric point 7.12
Molecular weight 80.84 kDa
Number of residues 674
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
2657during GO:0000085PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
3485during GO:0000087PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
3145during GO:0072690PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
3584.76during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
3136during GO:0000080PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
3661during GO:0000084PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
1473.34during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
0.98during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
2.4during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3080
conserved in fungi4569
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3393
conserved in eukaryotes only2487
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
mto1MT organizer Mto1 Negative GeneticPMID:22681890
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
nab2poly(A) binding protein Nab2 (predicted) Affinity Capture-MSPMID:24081329
dre4splicing associated factor Dre4 Affinity Capture-MSPMID:21386897
saf3splicing associated factor Saf3 Affinity Capture-MSPMID:21386897
prp19ubiquitin-protein ligase E4 Affinity Capture-MSPMID:21386897
cwf2RNA-binding protein Cwf2 Affinity Capture-MSPMID:21386897
prp17splicing factor Prp17 Affinity Capture-MSPMID:21386897
cwf10U5 snRNP GTPase subunit Cwf10 Affinity Capture-MSPMID:24442611
Affinity Capture-Western
Co-purificationPMID:24014766
hhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
cdc11SIN component scaffold protein, centriolin ortholog Cdc11 Two-hybridPMID:23695164
lea1U2 snRNP-associated protein Lea1 (predicted) Affinity Capture-WesternPMID:24442611
Affinity Capture-MS
epe1Jmjc domain chromatin associated protein Epe1 Affinity Capture-MSPMID:24013502
hhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
cdc5splicing factor, Prp19 complex subunit Cdc5 Co-purificationPMID:24014766
Affinity Capture-MSPMID:15755920
Affinity Capture-MSPMID:10409726
Affinity Capture-Western
saf2splicing associated factor Saf2 Affinity Capture-MSPMID:21386897
External References
Database Identifier Description
NBRP SPBC31F10.11c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC31F10.11c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC31F10.11c BioGRID Interaction Datasets
Expression Viewer SPBC31F10.11c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC31F10.11c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC31F10.11c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC31F10.11c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC31F10.11c Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC31F10.11c Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC31F10.11c Cell Cycle Data
GEO SPBC31F10.11c GEO profiles
PInt SPBC31F10.11c Protein-Protein Interaction Predictor (Bähler Lab)
WikiGene2540328complexed with Cdc5 protein Cwf4
EntrezGene2540328complexed with Cdc5 protein Cwf4
SPD / RIKEN46/46C09Orfeome Localization Data
UniProtKB/SwissProtP87312Pre-mRNA-splicing factor cwf4
ModBaseP87312Database of comparative protein structure models
STRINGP87312Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596573complexed with Cdc5 protein Cwf4
RefSeq mRNANM_001022494972h- complexed with Cdc5 protein Cwf4 (cwf4), mRNA
European Nucleotide ArchiveAAF67752ENA Protein Mapping
European Nucleotide ArchiveAAF67752.1ENA Protein Mapping
European Nucleotide ArchiveCAB10088ENA Protein Mapping
European Nucleotide ArchiveCAB10088.1ENA Protein Mapping
UniParcUPI0000128734UniProt Archive

Literature for cwf4

Search: Europe PMC or PubMed

Release Version: PomBase:22_44 - 08 Jul 2014