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 NameCount
ATP binding558
Annotation ExtensionEvidenceWith/FromReference
protein binding831
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
cellular protein localization550
Annotation ExtensionEvidenceWith/FromReference
localizes cut14
mitotic chromosome condensation10
Annotation ExtensionEvidenceWith/FromReference
mitotic sister chromatid segregation192
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
condensed chromosome inner kinetochore21
Annotation ExtensionEvidenceWith/FromReference
Annotation ExtensionEvidenceWith/FromReference
Annotation ExtensionEvidenceWith/FromReference
nuclear condensin complex5
Annotation ExtensionEvidenceWith/FromReference
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopycut3ΔNullPECO:0000005, PECO:0000137PMID:236978061338
Cell growth assaycut3-477PECO:0000004, PECO:0000229PMID:24362309
Microscopynot recorded (unrecorded)PMID:7957061

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000619abnormal cell cycle arrest in mitotic anaphaseMicroscopycut3-477PECO:0000005PMID:243623093
FYPO:0000059abnormal mitotic cell cycleMicroscopycut3ΔNullPECO:0000005, PECO:0000137PMID:23697806686
FYPO:0003165cutMicroscopynot recorded (unrecorded)PMID:795706189
FYPO:0003286decreased mitotic chromosome condensationOthercut3-l23 (S1116P)EndogenousPECO:0000004PMID:232639889
Othercut3-m26 (L289F)EndogenousPECO:0000004PMID:23263988
FYPO:0002909decreased protein localization to chromatin during vegetative growth11
affecting cnd2Microscopycut3-477PECO:0000005, PECO:0000227PMID:24362309
FYPO:0000288gene expression regulation phenotype106
expressivity FYPO_EXT:0000001Microscopycut3-477PECO:0000004, PECO:0000229PMID:24362309
expressivity FYPO_EXT:0000003Microscopycut3-477PECO:0000005, PECO:0000227PMID:24362309
FYPO:0000314inviable after spore germination with elongated germ tube163
penetrance FYPO_EXT:0000003Microscopycut3ΔNullPECO:0000005, PECO:0000137PMID:23697806
FYPO:0002151inviable spore465
penetrance FYPO_EXT:0000001Microscopycut3ΔNullPECO:0000005, PECO:0000137PMID:23697806
Target Of
GO substrate of cdc2 cyclin-dependent protein kinase Cdk1/Cdc2 PMID:10485849
Ensembl transcript structure with UTRs, exons and introns


Exon Start End


Region Coordinates Reference
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 Gene3D 128 294 288 Gene3D 1185 1322 288 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
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 127 290 294
0038317 SuperFamily IPR010935 SMCs flexible hinge 616 798 4
Coil ncoils Rabaptin coiled-coil domain 976 1018 968
Coil ncoils Rabaptin coiled-coil domain 379 421 968
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 867 926 968
Coil ncoils Rabaptin coiled-coil domain 530 551 968
Coil ncoils Rabaptin coiled-coil domain 586 607 968
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

Protein Properties

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

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineexperimental evidenceS68PMID:217125471670
present during mitotic M phase
present during mitotic M phaseexperimental evidenceS32PMID:21712547
present during mitotic M phaseexperimental evidenceS38PMID:21712547
present during mitotic M phaseexperimental evidenceS36PMID:21712547
experimental evidenceS38PMID:24763107
present during mitotic M phaseexperimental evidenceS899PMID:21712547
MOD:00047O-phospho-L-threonineexperimental evidenceT917PMID:21712547692
present during mitotic M phase
present during mitotic M phaseexperimental evidenceT51PMID:21712547
present during mitotic M phaseexperimental evidenceT19PMID:21712547
MOD:00696phosphorylated residueNASPMID:104858491922
Gene Expression

Quantitative Gene Expression

Protein Level

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

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1.8during GO:0072690PECO:0000005,
population_wideexperimental evidencePMID:23101633
0.53during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
population_wideexperimental evidencePMID:23101633
Species Distribution
predominantly single copy (one to one)3092
conserved in fungi4600
conserved in eukaryotes4514
conserved in bacteria1000
conserved in metazoa3425
conserved in vertebrates3400
conserved in archaea237

Manually curated orthologous groups


Orthologs in Compara

Physical Interactions

Source: BioGRID

View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
cnd2condensin complex non-SMC subunit Cnd2 Affinity Capture-MSPMID:10485849
Affinity Capture-WesternPMID:21633354
cbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
pku80Ku domain protein Pku80 Affinity Capture-WesternPMID:23084836
cut14condensin complex subunit Cut14 Affinity Capture-WesternPMID:9285594
Affinity Capture-MSPMID:10485849
ccq1telomere maintenance protein Ccq1 Affinity Capture-MSPMID:20709788
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
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
mrf1mitochondrial peptide chain release factor (predicted) Positive GeneticPMID:22681890
ase1antiparallel microtubule cross-linking factor Ase1 Negative GeneticPMID:22681890
pin1peptidyl-prolyl cis-trans isomerase Pin1 Synthetic RescuePMID:24945319
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
cid14poly(A) polymerase Cid14 Synthetic RescuePMID:24945319
ppn1PNUTS homologue, mRNA cleavage and polyadenylation specificity factor complex associated protein Synthetic RescuePMID:24945319
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
mms19Dos2 silencing complex subunit Mms19 Synthetic RescuePMID:24945319
nut2mediator complex subunit Med10 Synthetic RescuePMID:24362309
arp9SWI/SNF and RSC complex subunit Arp9 Synthetic LethalityPMID:24362309
tls1splicing factor Tls1 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
SPCC16C4.106-phosphogluconolactonase (predicted) Negative GeneticPMID:22681890
top2DNA topoisomerase II Synthetic LethalityPMID:24362309
cph2Clr6 histone deacetylase associated PHD protein-2 Cph2 Synthetic LethalityPMID:24362309
csm1chromosome segregation protein Csm1/Pcs1 Synthetic LethalityPMID:21633354
SPAC824.04WD repeat protein (predicted) Synthetic RescuePMID:24945319
nup124nucleoporin Nup124 Negative GeneticPMID:22681890
cdc18MCM loader Dosage RescuePMID:15507118
ypa1protein phosphatase type 2A regulator, PTPA family Ypa1 Synthetic RescuePMID:24945319
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
dis2serine/threonine protein phosphatase PP1 subfamily, Dis2 Synthetic RescuePMID:24945319
cnd3condensin complex non-SMC subunit Cnd3 Synthetic LethalityPMID:24362309
top1DNA topoisomerase I Synthetic RescuePMID:24945319
red1RNA elimination defective protein Red1 Negative GeneticPMID:22681890
sen1ATP-dependent 5' to 3' DNA/RNA helicase Sen1 Synthetic RescuePMID:24945319
ark1aurora-B kinase Ark1 Synthetic LethalityPMID:24362309
orc5origin recognition complex subunit Orc5 Dosage RescuePMID:15507118
raf1CLRC ubiquitin E3 ligase complex specificiy factor Raf1/Dos1 Negative GeneticPMID:22681890
fkbp39FKBP-type peptidyl-prolyl cis-trans isomerase (predicted) Negative GeneticPMID:22681890
ssu72phosphoric ester hydrolase Ssu72 (predicted) Synthetic RescuePMID:24945319
arp6actin-like protein Arp6 Positive GeneticPMID:22681890
sat1Golgi membrane exchange factor subunit Sat1 (predicted) Negative GeneticPMID:22681890
sgf29SAGA complex subunit Sgf29 Negative GeneticPMID:22681890
tfs1transcription elongation factor TFIIS Synthetic RescuePMID:24945319
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
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
SYSGRO SPBC146.03c Fission yeast phenotypic data & analysis
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_47 - 27 Oct 2014