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 binding851
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
cellular protein localization553
Annotation ExtensionEvidenceWith/FromReference
localizes cut14
mitotic chromosome condensation10
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
condensed chromosome inner kinetochore22
Annotation ExtensionEvidenceWith/FromReference
cytoplasm4206
Annotation ExtensionEvidenceWith/FromReference
cytosol2316
Annotation ExtensionEvidenceWith/FromReference
nuclear condensin complex5
Annotation ExtensionEvidenceWith/FromReference
nucleus2697
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term NameAlleleExpressionCount
inviable vegetative cell populationcut3-477Not specified1428
cut3-477
cut3::ura4+ (disruption)Null
cut3ΔNull
loss of viability at high temperaturecut3-477Not specified36
viable vegetative cell populationcut3-477Not specified3783

Cell Phenotype

Term NameAlleleExpressionCount
abnormal cell cycle arrest in mitotic anaphasecut3-4774
abnormal mitotic cell cyclecut3ΔNull808
abnormal mitotic sister chromatid segregationcut3-477Not specified187
decreased mitotic chromosome condensationcut3-477Not specified10
cut3-l23 (S1116P)Endogenous
cut3-m26 (L289F)Endogenous
decreased protein localization to chromatin during vegetative growth21
affecting cut14cut3-477Not specified
affecting cnd2cut3-477
gene expression regulation phenotypecut3-477133
incomplete mitotic sister chromatid segregation, with chromatin bridgecut3-477Not specified2
incomplete, unequal mitotic sister chromatid segregation, with smeared DNAcut3-477Not specified4
inviable after spore germination with elongated germ tubecut3ΔNull163
inviable after spore germination, without cell division, elongated cell with abnormal nuclear morphologycut3::ura4+ (disruption)Null1
inviable sporecut3ΔNull468
septation following abnormal chromosome segregationcut3-477Not specified120
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

UTRs

Region Coordinates Reference
five_prime_UTR1006688..1006464PMID:21511999
exon1006463..1002489
mRNA1006688..1002263
three_prime_UTR1002488..1002263AU009580
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 HMMPANTHER 134 1322 5
PTHR18937:SF148 HMMPANTHER 134 1322 1
3.40.50.300 Gene3D IPR027417 P-loop containing nucleoside triphosphate hydrolase 128 294 288
3.40.50.300 Gene3D IPR027417 P-loop containing nucleoside triphosphate hydrolase 1185 1322 288
3.40.50.300 Gene3D IPR027417 P-loop containing nucleoside triphosphate hydrolase 1040 1041 288
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 1205 1309 294
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 127 290 294
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 426 457 294
0038317 SuperFamily IPR010935 SMCs flexible hinge 616 798 4
Coil ncoils Rabaptin coiled-coil domain 477 505 968
Coil ncoils Rabaptin coiled-coil domain 428 449 968
Coil ncoils Rabaptin coiled-coil domain 586 607 968
Coil ncoils Rabaptin coiled-coil domain 1032 1067 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 379 421 968
Coil ncoils Rabaptin coiled-coil domain 976 1018 968
Coil ncoils Rabaptin coiled-coil domain 530 551 968
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_signal7

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 NameResidueCount
O-phospho-L-serine 1670
present during mitotic M phaseS36
S38
present during mitotic M phaseS32
present during mitotic M phaseS38
present during mitotic M phaseS899
present during mitotic M phaseS68
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence S32 PMID:21712547
present during mitotic M phase experimental evidence S36 PMID:21712547
experimental evidence S38 PMID:24763107
present during mitotic M phase experimental evidence S38 PMID:21712547
present during mitotic M phase experimental evidence S68 PMID:21712547
present during mitotic M phase experimental evidence S899 PMID:21712547
O-phospho-L-threonine 694
present during mitotic M phaseT51
present during mitotic M phaseT19
present during mitotic M phaseT917
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence T19 PMID:21712547
present during mitotic M phase experimental evidence T51 PMID:21712547
present during mitotic M phase experimental evidence T917 PMID:21712547
phosphorylated residue 1923
Annotation ExtensionEvidenceResidueReference
NAS PMID:10485849
IDA PMID:19547744
Sequence
Gene Expression

Qualitative Gene Expression

DescriptionLevelEvidenceReference
protein levelunchanged during GO:0000278Western blot evidencePMID:7957061

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 fungi4604
conserved in eukaryotes4516
conserved in bacteria1000
conserved in metazoa3432
conserved in vertebrates3407
conserved in archaea237
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity captured bycbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
affinity captured byccq1telomere maintenance protein Ccq1 Affinity Capture-MSPMID:20709788
modified bycdc2cyclin-dependent protein kinase Cdk1/Cdc2 Biochemical ActivityPMID:10485849
affinity capturescnd1condensin complex non-SMC subunit Cnd1 Affinity Capture-MSPMID:10485849
affinity capturescnd2condensin complex non-SMC subunit Cnd2 Affinity Capture-MSPMID:10485849
affinity captured bycnd2condensin complex non-SMC subunit Cnd2 Affinity Capture-WesternPMID:21633354
affinity capturescnd3condensin complex non-SMC subunit Cnd3 Affinity Capture-MSPMID:10485849
binds DNA-binding domain construct withcsm1chromosome segregation protein Csm1/Pcs1 Two-hybridPMID:21633354
affinity captured bycut14condensin complex subunit Cut14 Affinity Capture-WesternPMID:9285594
affinity capturescut14condensin complex subunit Cut14 Affinity Capture-MSPMID:10485849
affinity captured bycut14condensin complex subunit Cut14 Affinity Capture-MSPMID:10485849
affinity captured byepe1Jmjc domain chromatin associated protein Epe1 Affinity Capture-MSPMID:24013502
affinity captured byhhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
affinity captured byhhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
affinity capturespku80Ku domain protein Pku80 Affinity Capture-WesternPMID:23084836
affinity captured byrpc25DNA-directed RNA polymerase III complex subunit Rpc25 Affinity Capture-WesternPMID:19910488
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
negative genetic interaction withapq12nuclear membrane organization protein Apq12 (predicted) Negative GeneticPMID:22681890
synthetic lethal withark1aurora-B kinase Ark1 Synthetic LethalityPMID:24362309
negative genetic interaction witharp42SWI/SNF and RSC complex subunit Arp42 Negative GeneticPMID:22681890
positive genetic interaction witharp6actin-like protein Arp6 Positive GeneticPMID:22681890
synthetic lethal witharp9SWI/SNF and RSC complex subunit Arp9 Synthetic LethalityPMID:24362309
negative genetic interaction withase1antiparallel microtubule cross-linking factor Ase1 Negative GeneticPMID:22681890
rescuesccq1telomere maintenance protein Ccq1 Phenotypic SuppressionPMID:20709788
negative genetic interaction withccq1telomere maintenance protein Ccq1 Negative GeneticPMID:22681890
overexpression rescuescdc18MCM loader Dosage RescuePMID:15507118
synthetically rescued bycid14poly(A) polymerase Cid14 Synthetic RescuePMID:24945319
negative genetic interaction withclr4histone H3 lysine methyltransferase Clr4 Negative GeneticPMID:22681890
synthetic lethal withcnd1condensin complex non-SMC subunit Cnd1 Synthetic LethalityPMID:24362309
synthetic lethal withcnd3condensin complex non-SMC subunit Cnd3 Synthetic LethalityPMID:24362309
negative genetic interaction withcph1Clr6 histone deacetylase associated PHD protein-1 Cph1 Negative GeneticPMID:22681890
synthetic lethal withcph2Clr6 histone deacetylase associated PHD protein-2 Cph2 Synthetic LethalityPMID:24362309
synthetic lethal withcsm1chromosome segregation protein Csm1/Pcs1 Synthetic LethalityPMID:21633354
synthetic lethal withcut14condensin complex subunit Cut14 Synthetic LethalityPMID:24362309
overexpression rescuescut14condensin complex subunit Cut14 Dosage RescuePMID:15507118
synthetically rescued bydis2serine/threonine protein phosphatase PP1 subfamily, Dis2 Synthetic RescuePMID:24945319
negative genetic interaction withfkbp39FKBP-type peptidyl-prolyl cis-trans isomerase (predicted) Negative GeneticPMID:22681890
negative genetic interaction withgcn5SAGA complex histone acetyltransferase catalytic subunit Gcn5 Negative GeneticPMID:22681890
negative genetic interaction withhrk1haspin related kinase Hrk1 Negative GeneticPMID:22681890
negative genetic interaction withliz1pantothenate transmembrane transporter Liz1 Negative GeneticPMID:22681890
synthetic growth defect withmde4monopolin-like complex subunit Mde4 Synthetic Growth DefectPMID:24945319
synthetically rescued bymms19Dos2 silencing complex subunit Mms19 Synthetic RescuePMID:24945319
positive genetic interaction withmrf1mitochondrial peptide chain release factor (predicted) Positive GeneticPMID:22681890
negative genetic interaction withnic1NiCoT heavy metal ion transmembrane transporter Nic1 Negative GeneticPMID:22681890
negative genetic interaction withnup124nucleoporin Nup124 Negative GeneticPMID:22681890
synthetically rescued bynut2mediator complex subunit Med10 Synthetic RescuePMID:24362309
overexpression rescuesorc5origin recognition complex subunit Orc5 Dosage RescuePMID:15507118
negative genetic interaction withpab2poly(A) binding protein Pab2 Negative GeneticPMID:22681890
synthetically rescued bypin1peptidyl-prolyl cis-trans isomerase Pin1 Synthetic RescuePMID:24945319
synthetically rescued byppn1PNUTS homologue, mRNA cleavage and polyadenylation specificity factor complex associated protein Synthetic RescuePMID:24945319
negative genetic interaction withraf1CLRC ubiquitin E3 ligase complex specificiy factor Raf1/Dos1 Negative GeneticPMID:22681890
negative genetic interaction withraf2Rik1-associated factor Raf2 Negative GeneticPMID:22681890
negative genetic interaction withred1RNA elimination defective protein Red1 Negative GeneticPMID:22681890
positive genetic interaction withrtt109RTT109 family histone lysine acetyltransferase Positive GeneticPMID:22681890
negative genetic interaction withsat1Golgi membrane exchange factor subunit Sat1 (predicted) Negative GeneticPMID:22681890
synthetically rescued bysen1ATP-dependent 5' to 3' DNA/RNA helicase Sen1 Synthetic RescuePMID:24945319
synthetically rescued bysen1ATP-dependent 5' to 3' DNA/RNA helicase Sen1 Synthetic RescuePMID:25392932
phenotype enhanced bysfc3transcription factor TFIIIC complex B box binding subunit Sfc3 Phenotypic EnhancementPMID:19910488
synthetically rescued bysfc3transcription factor TFIIIC complex B box binding subunit Sfc3 Synthetic RescuePMID:21633354
negative genetic interaction withsgf29SAGA complex subunit Sgf29 Negative GeneticPMID:22681890
positive genetic interaction withsil1nucleotide exchange factor for the ER lumenal Hsp70 chaperone, Sil1 (predicted) Positive GeneticPMID:22681890
synthetic lethal withsnf21ATP-dependent DNA helicase Snf21 Synthetic LethalityPMID:24362309
negative genetic interaction withsnf5SWI/SNF complex subunit Snf5 Negative GeneticPMID:22681890
positive genetic interaction withsno1glutamine aminotransferase subunit Sno1 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withSPAC222.14cGTP binding protein Sey1 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withSPBC15C4.04camino acid transmembrane transporter (predicted) Negative GeneticPMID:22681890
negative genetic interaction withSPBC1778.05chuman LAMTOR2 ortholog Negative GeneticPMID:22681890
negative genetic interaction withSPBC32H8.01cconserved fungal protein, involved in endocytic trafficking (predicted) Negative GeneticPMID:22681890
negative genetic interaction withSPBC9B6.11cCCR4/nocturin family endoribonuclease (predicted) Negative GeneticPMID:22681890
negative genetic interaction withSPCC16C4.106-phosphogluconolactonase (predicted) Negative GeneticPMID:22681890
synthetically rescued byssu72phosphoric ester hydrolase Ssu72 (predicted) Synthetic RescuePMID:24945319
synthetically rescued byswd22WD repeat protein (predicted) Synthetic RescuePMID:24945319
synthetically rescued byswd22WD repeat protein (predicted) Synthetic RescuePMID:25392932
synthetically rescued bytfs1transcription elongation factor TFIIS Synthetic RescuePMID:24945319
negative genetic interaction withtls1splicing factor Tls1 Negative GeneticPMID:22681890
synthetically rescued bytop1DNA topoisomerase I Synthetic RescuePMID:24945319
synthetic lethal withtop2DNA topoisomerase II Synthetic LethalityPMID:24362309
synthetic lethal withulp2SUMO deconjugating cysteine peptidase Ulp2 (predicted) Synthetic LethalityPMID:24362309
negative genetic interaction withulp2SUMO deconjugating cysteine peptidase Ulp2 (predicted) Negative GeneticPMID:22681890
synthetically rescued byypa1protein phosphatase type 2A regulator, PTPA family Ypa1 Synthetic RescuePMID:24945319
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:25_49 - 02 Feb 2015