cut3 (SPBC146.03c)


Gene Standard Namecut3 Characterisation Statuspublished
Systematic IDSPBC146.03c Feature Typeprotein coding
Synonymssmc4 Name Description
Productcondensin complex subunit Cut3 Product Size1324aa, 150.65 kDa
Genomic Location Chromosome II, 1006688-1002263 (4426nt); CDS:1006463-1002489 (3975nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005524ATP bindingIEAUniProtKB-KW:KW-0067GO_REF:0000037558
GO:0005515protein bindingIPIcti1PMID:15148393865
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0034613cellular protein localization541
same_pathwayIMPPMID:18362178
localizes cut14
GO:0007076mitotic chromosome condensationIMPPMID:795706110
GO:0000070mitotic sister chromatid segregation131
requiredIMPPMID:7957061
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0000939condensed chromosome inner kinetochore21
during mitotic metaphaseIGIcut14PMID:18362178
during mitotic prophaseIGIcut14PMID:18362178
GO:0005737cytoplasm4204
during mitotic interphaseIDAPMID:10485849
GO:0005829cytosolIDAPMID:168233722319
GO:0000799nuclear condensin complexIDAPMID:104858495
GO:0005634nucleusIDAPMID:168233722737
during mitotic cell cycleIDAPMID:10485849
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopynot recorded (unrecorded)PMID:79570611337
Cell growth assaycut3-477PECO:0000004, PECO:0000229PMID:24362309
Microscopycut3ΔNullPECO:0000005, PECO:0000137PMID:23697806
Microscopycut3ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000619abnormal cell cycle arrest in mitotic anaphaseMicroscopycut3-477PECO:0000005PMID:243623093
FYPO:0000059abnormal mitotic cell cycleMicroscopycut3ΔNullPECO:0000005, PECO:0000137PMID:23697806640
FYPO:0003165cutMicroscopynot recorded (unrecorded)PMID:795706180
FYPO:0003286decreased mitotic chromosome condensationOthercut3-m26 (L289F)EndogenousPECO:0000004PMID:232639889
Othercut3-l23 (S1116P)EndogenousPECO:0000004PMID:23263988
FYPO:0002909decreased protein localization to chromatin during vegetative growth11
affecting cnd2Microscopycut3-477PECO:0000005, PECO:0000227PMID:24362309
FYPO:0000288gene expression regulation phenotype93
expressivity FYPO_EXT:0000003Microscopycut3-477PECO:0000005, PECO:0000227PMID:24362309
expressivity FYPO_EXT:0000001Microscopycut3-477PECO:0000004, PECO:0000229PMID:24362309
FYPO:0000314inviable after spore germination with elongated germ tube163
penetrance FYPO_EXT:0000003Microscopycut3ΔNullPECO:0000005, PECO:0000137PMID:23697806
FYPO:0002151inviable spore462
penetrance FYPO_EXT:0000001Microscopycut3ΔNullPECO:0000005, PECO:0000137PMID:23697806
Target Of
OntologyRelationshipGeneProductReference
GO substrate of cdc2 cyclin-dependent protein kinase Cdk1/Cdc2 PMID:10485849
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
110066881002263
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
PF02463 Pfam IPR003395 RecF/RecN/SMC, N-terminal 126 1312 6
PF06470 Pfam IPR010935 SMCs flexible hinge 651 764 4
SM00968 SMART IPR010935 SMCs flexible hinge 651 764 4
PTHR18937:SF13 HMMPANTHER 123 1319 1
PTHR18937 HMMPANTHER 123 1319 5
3.40.50.300 Gene3D 128 294 288
3.40.50.300 Gene3D 1185 1322 288
3.40.50.300 Gene3D 1040 1041 288
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 1205 1309 294
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 426 457 294
0038317 SuperFamily IPR010935 SMCs flexible hinge 616 798 4
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 127 290 294
Coil ncoils Rabaptin coiled-coil domain 379 421 968
Coil ncoils Rabaptin coiled-coil domain 976 1018 968
Coil ncoils Rabaptin coiled-coil domain 477 505 968
Coil ncoils Rabaptin coiled-coil domain 428 449 968
Coil ncoils Rabaptin coiled-coil domain 825 853 968
Coil ncoils Rabaptin coiled-coil domain 586 607 968
Coil ncoils Rabaptin coiled-coil domain 530 551 968
Coil ncoils Rabaptin coiled-coil domain 867 926 968
Coil ncoils Rabaptin coiled-coil domain 1032 1067 968
PIRSF005719 PIRSF IPR024704 Structural maintenance of chromosomes protein 123 1323 3

View domain organization at Pfam

Manually Curated Family or Sub-families

Term IDTerm NameReferenceCount
PBO:0000849SMC familyTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000849

Sequence Ontology

Term IDTerm NameReferenceCount
SO:0001531nuclear_export_signalPMID:104858497

Protein Properties

Ave. residue weight 113.79 Da
Charge -1.00
Isoelectric point 6.46
Molecular weight 150.65 kDa
Number of residues 1324
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineS68PMID:217125471670
present during mitotic M phase
present during mitotic M phaseS36PMID:21712547
S38PMID:24763107
present during mitotic M phaseS899PMID:21712547
present during mitotic M phaseS38PMID:21712547
present during mitotic M phaseS32PMID:21712547
MOD:00047O-phospho-L-threonineT19PMID:21712547690
present during mitotic M phase
present during mitotic M phaseT917PMID:21712547
present during mitotic M phaseT51PMID:21712547
MOD:00696phosphorylated residueNASPMID:104858491922
NASPMID:19547744
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
4353during GO:0000080PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
5178during GO:0000084PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
3677during GO:0000085PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
4807during GO:0000087PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
1019.97during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
4969during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
437.27during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1.8during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.53during 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 bacteria1002
conserved in metazoa3428
conserved in vertebrates3402
conserved in archaea237
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
SPAC2F7.17mitochondrial peptide chain release factor (predicted) Positive GeneticPMID:22681890
ase1antiparallel microtubule cross-linking factor Ase1 Negative GeneticPMID:22681890
nic1NiCoT heavy metal ion transporter Nic1 Negative GeneticPMID:22681890
liz1pantothenate transporter Liz1 Negative GeneticPMID:22681890
rtt109RTT109 family histone lysine acetyltransferase Positive GeneticPMID:22681890
clr4histone H3 lysine methyltransferase Clr4 Negative GeneticPMID:22681890
pab2poly(A) binding protein Pab2 Negative GeneticPMID:22681890
sfc3transcription factor TFIIIC complex B box binding subunit Sfc3 Phenotypic EnhancementPMID:19910488
Synthetic RescuePMID:21633354
snf5SWI/SNF complex subunit Snf5 Negative GeneticPMID:22681890
sil1nucleotide exchange factor for the ER lumenal Hsp70 chaperone, Sil1 (predicted) Positive GeneticPMID:22681890
SPAC222.08cglutamine aminotransferase subunit (predicted) Positive GeneticPMID:22681890
SPAC222.14cGTP binding protein Sey1 (predicted) Negative GeneticPMID:22681890
snf21ATP-dependent DNA helicase Snf21 Synthetic LethalityPMID:24362309
SPCC16C4.106-phosphogluconolactonase (predicted) Negative GeneticPMID:22681890
raf2Rik1-associated factor Raf2 Negative GeneticPMID:22681890
cut14condensin complex subunit Cut14 Synthetic LethalityPMID:24362309
Dosage RescuePMID:15507118
SPBC9B6.11cCCR4/nocturin family endoribonuclease (predicted) Negative GeneticPMID:22681890
apq12nuclear membrane organization protein Apq12 (predicted) Negative GeneticPMID:22681890
nut2mediator complex subunit Med10 Synthetic RescuePMID:24362309
arp9SWI/SNF and RSC complex subunit Arp9 Synthetic LethalityPMID:24362309
SPAC1D4.01human C9orf78 ortholog Negative GeneticPMID:22681890
gcn5SAGA complex histone acetyltransferase catalytic subunit Gcn5 Negative GeneticPMID:22681890
cph1Clr6 histone deacetylase associated PHD protein-1 Cph1 Negative GeneticPMID:22681890
hrk1haspin related kinase Hrk1 Negative GeneticPMID:22681890
top2DNA topoisomerase II Synthetic LethalityPMID:24362309
csm1chromosome segregation protein Csm1/Pcs1 Synthetic LethalityPMID:21633354
nup124nucleoporin Nup124 Negative GeneticPMID:22681890
cdc18MCM loader Dosage RescuePMID:15507118
sgf29SAGA complex subunit Sgf29 Negative GeneticPMID:22681890
arp42SWI/SNF and RSC complex subunit Arp42 Negative GeneticPMID:22681890
cnd1condensin complex non-SMC subunit Cnd1 Synthetic LethalityPMID:24362309
SPBC15C4.04camino acid permease (predicted) Negative GeneticPMID:22681890
ccq1telomere maintenance protein Ccq1 Phenotypic SuppressionPMID:20709788
Negative GeneticPMID:22681890
cnd3condensin complex non-SMC subunit Cnd3 Synthetic LethalityPMID:24362309
cph2Clr6 histone deacetylase associated PHD protein-2 Cph2 Synthetic LethalityPMID:24362309
red1RNA elimination defective protein Red1 Negative GeneticPMID:22681890
ark1aurora-B kinase Ark1 Synthetic LethalityPMID:24362309
orc5origin recognition complex subunit Orc5 Dosage RescuePMID:15507118
fkbp39FKBP-type peptidyl-prolyl cis-trans isomerase (predicted) Negative GeneticPMID:22681890
raf1CLRC ubiquitin E3 ligase complex specificiy factor Raf1/Dos1 Negative GeneticPMID:22681890
arp6actin-like protein Arp6 Positive GeneticPMID:22681890
sat1Golgi membrane exchange factor subunit Sat1 (predicted) Negative GeneticPMID:22681890
ulp2SUMO deconjugating cysteine peptidase Ulp2 (predicted) Synthetic LethalityPMID:24362309
Negative GeneticPMID:22681890
SPBC32H8.01cconserved fungal protein, involved in endocytic trafficking (predicted) Negative GeneticPMID:22681890
SPBC1778.05chuman LAMTOR2 ortholog Negative GeneticPMID:22681890
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
cnd2condensin complex non-SMC subunit Cnd2 Affinity Capture-MSPMID:10485849
Affinity Capture-WesternPMID:21633354
ccq1telomere maintenance protein Ccq1 Affinity Capture-MSPMID:20709788
pku80Ku domain protein Pku80 Affinity Capture-WesternPMID:23084836
cbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
cut14condensin complex subunit Cut14 Affinity Capture-WesternPMID:9285594
Affinity Capture-MSPMID:10485849
cdc2cyclin-dependent protein kinase Cdk1/Cdc2 Biochemical ActivityPMID:10485849
cnd1condensin complex non-SMC subunit Cnd1 Affinity Capture-MSPMID:10485849
rpc25DNA-directed RNA polymerase III complex subunit Rpc25 Affinity Capture-WesternPMID:19910488
hhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
csm1chromosome segregation protein Csm1/Pcs1 Two-hybridPMID:21633354
cnd3condensin complex non-SMC subunit Cnd3 Affinity Capture-MSPMID:10485849
epe1Jmjc domain chromatin associated protein Epe1 Affinity Capture-MSPMID:24013502
hhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
External References
Database Identifier Description
NBRP SPBC146.03c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC146.03c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC146.03c BioGRID Interaction Datasets
Expression Viewer SPBC146.03c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC146.03c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC146.03c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC146.03c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC146.03c Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC146.03c Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC146.03c Cell Cycle Data
GEO SPBC146.03c GEO profiles
PInt SPBC146.03c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC146.03c Peptides identified in tandem mass spectrometry proteomics experiments
SPD / RIKEN34/34A12Orfeome Localization Data
UniProtKB/SwissProtP41004Structural maintenance of chromosomes protein 4
ModBaseP41004Database of comparative protein structure models
STRINGP41004Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_595392condensin complex subunit Cut3
RefSeq mRNANM_001021299972h- condensin complex subunit Cut3 (cut3), mRNA
European Nucleotide ArchiveBAA06454.1ENA Protein Mapping
European Nucleotide ArchiveBAA87263.1ENA Protein Mapping
European Nucleotide ArchiveCAB46756.1ENA Protein Mapping
UniParcUPI000012870DUniProt Archive

Literature for cut3

Search: Europe PMC or PubMed

Release Version: PomBase:23_46 - 30 Aug 2014