swi6 (SPAC664.01c)

Gene Standard Nameswi6 ChromosomeI
Systematic IDSPAC664.01c Gene Start1704073
SynonymsSPAC824.10c Gene End1702406
ProductHP1 family chromodomain protein Swi6 Gene Length1668
Feature Typeprotein coding CDS Start1704001
Name Descriptionswitching CDS End1703015
Characterisation Statuspublished CDS Length987

Ensembl Gene Location
  1. tim14
  2. SPAC824.07
  3. gda1
  4. SPAC824.09c
  5. SPNCRNA.177
  6. swi6
  7. SPATRNALYS.01
  8. arp8
  9. SPAC664.03
  10. rps1602
Fission Yeast Phenotype Ontology

Ontology Graph

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Term IDTerm NameEvidenceAlleleAllele TypeExpressionConditionReference
FYPO:0000091sensitive to thiabendazolecompetitive growth assay evidenceswi6delta (deletion)deletionPMID:20537132
FYPO:0000220accumulation of centromeric outer repeat transcriptsno_name (unrecorded)unrecordedPMID:12733640
FYPO:0000269sensitive to microtubule depolymerizing drugscompetitive growth assay evidenceswi6delta (deletion)deletionPMID:20537132
FYPO:0000460decreased mitotic centromeric sister chromatid cohesionMicroscopyswi6delta (deletion)deletionPMID:20929775
FYPO:0000634protein localization to centromere abolishedMicroscopyswi6delta (deletion)deletionPMID:20929775
has_input hrk1
has_input pds5Microscopyswi6delta (deletion)deletionPMID:20929775
FYPO:0001132abolished protein localization to heterochromatinMicroscopyswi6delta (deletion)deletionPMID:21385875
assayed_using crb3
assayed_using grc3Microscopyswi6delta (deletion)deletionPMID:21385875
assayed_using rix1Microscopyswi6delta (deletion)deletionPMID:21385875
assayed_using SPCC1393.06Microscopyswi6delta (deletion)deletionPMID:21385875
assayed_using las1Microscopyswi6delta (deletion)deletionPMID:21385875
FYPO:0001491viable vegetative cellMicroscopyswi6delta (deletion)deletionPMID:20473289
no_name (unrecorded)unrecordedPMID:8200530
GO Molecular Function

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Term IDTerm NameEvidenceWith/FromReference
GO:0005515protein bindingIPIhus5PMID:16168376
IPIhrk1PMID:20929775
IPIdfp1PMID:14625560
IPIhsk1PMID:14625560
IPIswi2PMID:14663140
GO:0031493nucleosomal histone binding
has_direct_input PR:000027593IPIhht3PMID:11242054
has_direct_input PR:000027578IPIhht3PMID:11242054
has_direct_input PR:000027604IPIhht3PMID:11242054
GO Biological Process

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Term IDTerm NameEvidenceWith/FromReference
GO:0006338chromatin remodelingNASGO_REF:0000051
GO:0006348chromatin silencing at telomereIMPPMID:7851795
GO:0007062sister chromatid cohesion
requiredIGIrad21PMID:11598266
GO:0007533mating type switching
requiredIMPPMID:1783290
GO:0007535donor selectionIMPPMID:8375648
GO:0030466chromatin silencing at silent mating-type cassetteIMPPMID:8200530
GO:0030702chromatin silencing at centromereIMPPMID:7851795
GO:0034613cellular protein localization
has_input rad21IMPPMID:11598266
has_input rdp1IMPPMID:15615848
GO:0071459protein localization to chromosome, centromeric region
has_input hrk1IMPPMID:20929775
has_input pds5IMPPMID:20929775
GO:0072356chromosome passenger complex localization to kinetochoreNASGO_REF:0000001
GO Cellular Component

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Term IDTerm NameEvidenceWith/FromReference
GO:0005634nucleusIDAPMID:16823372
GO:0005724nuclear telomeric heterochromatinIDAPMID:7660126
GO:0031618nuclear centromeric heterochromatinIDAPMID:20929775
GO:0031933telomeric heterochromatinIDAPMID:20929775
GO:0031934mating-type region heterochromatinIDAPMID:20929775
IDAGO_REF:0000001
GO:0044732mitotic spindle pole bodyIDAPMID:16823372
Transcript
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Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
117040731702406

References

Region Start End Reference
three_prime_UTR17030141702406PMID:21511999
Protein Features
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Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID InterPro Database Description Start End All Genes
PF00385 IPR023780 Pfam Chromo domain/shadow 81 133 7
PF01393 IPR008251 Pfam Chromo shadow domain 265 326 2
SM00298 IPR000953 SMART Chromo domain/shadow 80 136 9
SM00300 IPR008251 SMART Chromo shadow domain 261 327 2
PS00598 IPR023779 Prosite Patterns Chromo domain/shadow 100 121 4
PS50013 IPR000953 Prosite Profiles Chromo domain/shadow 81 143 7
PS50013 IPR000953 Prosite Profiles Chromo domain/shadow 267 328 7
G3DSA:2.40.50.40 Gene3D 70 135 7
G3DSA:2.40.50.40 Gene3D 264 327 7
SSF54160 IPR016197 SuperFamily 263 322 9
SSF54160 IPR016197 SuperFamily 74 143 9
PTHR22812:SF11 hmmpanther 41 173 2
PTHR22812 hmmpanther 41 173 3
Coil ncoils Rabaptin coiled-coil domain 60 81 974

View domain organization at Pfam

Protein Modifications (PSI-MOD)

Term IDTerm NameEvidenceResidueReference
MOD:00696phosphorylated residuePMID:18257517
PMID:19547744

Manually Curated Family or Sub-families

Term IDTerm NameReferenceAll Genes
PBO:0001050chromodomain proteinTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0001050
PBO:0012553HP1/CBX familyTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0012553

Protein Properties

Ave. residue weight 113.70 Da
Charge -13.50
Isoelectric point 4.87
Molecular weight 37.29 kDa
Number of residues 328
Sequence
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Gene Expression
DescriptionEvidenceDuringConditionRangeAverage per CellReference
protein levelexperimental evidencecell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005		population_wide3469.27PMID:23101633
experimental evidencevegetative growth of a single-celled organismPECO:0000014,
PECO:0000005		population_wide2394.42PMID:23101633
RNA levelexperimental evidencevegetative growth of a single-celled organismPECO:0000014,
PECO:0000005		population_wide7PMID:23101633
experimental evidencecell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005		population_wide1.1PMID:23101633
Species Distribution
DescriptionQualifierReference
no apparent S. cerevisiae ortholog
conserved in fungi
conserved in eukaryotes
conserved in metazoa
conserved in vertebrates
conserved in eukaryotes only
Manually curated orthologous groups
SpeciesGeneDescription

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Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
csn1COP9/signalosome complex subunit Csn1 Synthetic Growth DefectPMID:18931302
clp1Cdc14-related protein phosphatase Clp1/Flp1 Negative GeneticPMID:22681890
Phenotypic SuppressionPMID:22264609
Phenotypic Enhancement
alp14TOG ortholog Alp14 Negative GeneticPMID:18818364
ypa1protein phosphatase type 2A regulator, PTPA family Ypa1 Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
SPBC26H8.05cserine/threonine protein phosphatase (predicted) Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
clr4histone H3 lysine methyltransferase Clr4 Positive GeneticPMID:22681890
prp4serine/threonine protein kinase Prp4 Negative GeneticPMID:22681890
atb2tubulin alpha 2 Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
ash2Ash2-trithorax family protein Synthetic Growth DefectPMID:18931302
SPBC216.01cDNA damage response protein (predicted) Negative GeneticPMID:22681890
fin1serine/threonine protein kinase, NIMA related Fin1 Synthetic Growth DefectPMID:18931302
mst2histone acetyltransferase Mst2 Synthetic Growth DefectPMID:16199868
cgi121EKC/KEOPS complex subunit Cgi121 (predicted) Negative GeneticPMID:22681890
mph1dual specificity protein kinase Mph1 Synthetic Growth DefectPMID:18931302
Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
gtb1gamma-tubulin Gtb1 Synthetic Growth DefectPMID:22737087
pek1MAP kinase kinase Pek1 Positive GeneticPMID:22681890
usp102U1 snRNP-associated protein Usp102 Negative GeneticPMID:22681890
mcl1DNA polymerase alpha accessory factor Mcl1 Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
clr3histone deacetylase (class II) Clr3 Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
ago1argonaute Positive GeneticPMID:22681890
Positive GeneticPMID:18818364
rps2340S ribosomal protein S23 (predicted) Negative GeneticPMID:22681890
lsg1Lsk1 complex gamma subunit (predicted) Negative GeneticPMID:22681890
ctp1CtIP-related endonuclease Negative GeneticPMID:22681890
pmk1MAP kinase Pmk1 Positive GeneticPMID:22681890
pof3F-box protein Pof3 Synthetic Growth DefectPMID:18931302
SPCC16C4.20cHMG box protein (predicted) Negative GeneticPMID:22681890
dad2DASH complex subunit Dad2 Negative GeneticPMID:18818364
rad55RecA family ATPase Rad55/Rhp55 Negative GeneticPMID:22681890
arp42SWI/SNF and RSC complex subunit Arp42 Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
caf1CCR4-Not complex CAF1 family ribonuclease subunit Caf1 Negative GeneticPMID:18818364
mrc1mediator of replication checkpoint 1 Synthetic Growth DefectPMID:18931302
Negative GeneticPMID:18818364
cph2Clr6 histone deacetylase associated PHD protein-2 Cph2 Negative GeneticPMID:22681890
nda3tubulin beta Nda3 Synthetic Growth DefectPMID:8937982
Synthetic Growth DefectPMID:9722643
sap114splicing factor Sap114 Negative GeneticPMID:22681890
brc1BRCT domain protein Brc1 Phenotypic EnhancementPMID:23358415
sfp1transcription factor Sfp1 (predicted) Negative GeneticPMID:22681890
eso1sister chromatid cohesion protein/DNA polymerase eta Eso1 fusion protein Synthetic Growth DefectPMID:23050226
Negative Genetic
chp1chromodomain protein Chp1 Phenotypic EnhancementPMID:10835380
Negative GeneticPMID:18818364
nrm1negative regulator of MBF Negative GeneticPMID:22681890
cut7kinesin-like protein Cut7 Phenotypic SuppressionPMID:22264609
mad2spindle checkpoint protein Mad2 Synthetic Growth DefectPMID:22737087
Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
klp9kinesin-like protein Klp9 Phenotypic SuppressionPMID:22264609
alp31tubulin specific chaperone cofactor A, Alp31 Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
ark1aurora-B kinase Ark1 Synthetic Growth DefectPMID:17322402
Synthetic Growth DefectPMID:22264609
Synthetic Lethality
Phenotypic Suppression
rad57RecA family ATPase Rad57/Rhp57 Synthetic Growth DefectPMID:18931302
imp1importin alpha Negative GeneticPMID:22681890
pef1Pho85/PhoA-like cyclin-dependent kinase Pef1 Positive GeneticPMID:22681890
asp1inositol hexakisphosphate kinase/inositol pyrophosphate synthase (predicted) Negative GeneticPMID:22681890
clr5Clr5 protein Phenotypic EnhancementPMID:21253571
rnc1RNA-binding protein that suppresses calcineurin deletion Rnc1 Positive GeneticPMID:22681890
rpa12DNA-directed RNA polymerase complex I subunit Rpa12 Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
klp5kinesin-like protein Klp5 Negative GeneticPMID:22681890
swi5Swi5 protein Phenotypic SuppressionPMID:22042869
raf2Rik1-associated factor Raf2 Positive GeneticPMID:22681890
tas3RITS complex subunit 3 Positive GeneticPMID:22681890
Positive GeneticPMID:18818364
ssp2serine/threonine protein kinase Ssp2 Positive GeneticPMID:22681890
psc3mitotic cohesin complex, non-SMC subunit Psc3 Synthetic LethalityPMID:16682348
Synthetic LethalityPMID:11780129
alp13MRG family Clr6 histone deacetylase complex subunit Alp13 Synthetic Growth DefectPMID:18252195
SPAC18G6.13sequence orphan Negative GeneticPMID:22681890
epe1Jmjc domain chromatin associated protein Epe1 Positive GeneticPMID:22681890
Positive GeneticPMID:18818364
elp3elongator complex, histone acetyltransferase subunit Elp3 (predicted) Negative GeneticPMID:18818364
lsc1Lsk1 associated cyclin Negative GeneticPMID:22681890
msd1mitotic-spindle disanchored Msd1 Negative GeneticPMID:22681890
swi10DNA repair endonuclease Swi10 Synthetic Growth DefectPMID:18931302
mde4monopolin-like complex subunit Mde4 Phenotypic SuppressionPMID:22264609
mcs2TFIIH complex cyclin Mcs2 Negative GeneticPMID:22681890
ypa2protein phosphatase type 2A regulator, PTPA family Ypa2 Positive GeneticPMID:22681890
elp2elongator complex subunit Elp2 (predicted) Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
ams2cell cycle regulated GATA-type transcription factor Ams2 Negative GeneticPMID:22681890
SPAC750.04cS. pombe specific 5Tm protein family Positive GeneticPMID:22681890
bub1serine/threonine protein kinase Bub1 Synthetic Growth DefectPMID:14730319
Synthetic LethalityPMID:9864354
psm1mitotic cohesin complex subunit Psm1 Synthetic LethalityPMID:16682348
med20mediator complex subunit Med20 Positive GeneticPMID:18818364
fkbp39FKBP-type peptidyl-prolyl cis-trans isomerase (predicted) Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
dis33'-5' exoribonuclease subunit Dis3 (predicted) Synthetic LethalityPMID:17380189
cph1Clr6 histone deacetylase associated PHD protein-1 Cph1 Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
mst1KAT5 family histone acetyltransferase Mst1 Synthetic Growth DefectPMID:18505873
hrr1Helicase Required for RNAi-mediated heterochromatin assembly Hrr1 Positive GeneticPMID:18818364
set2histone lysine methyltransferase Set2 Synthetic Growth DefectPMID:18252195
ccr4CCR4-Not complex subunit Ccr4 (predicted) Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
top1DNA topoisomerase I Positive GeneticPMID:22681890
ssl3cohesin loading factor Ssl3 Synthetic LethalityPMID:16682348
klp6kinesin-like protein Klp6 Synthetic Growth DefectPMID:18931302
Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
bir1survivin, Bir1 Synthetic Growth DefectPMID:17322402
Synthetic LethalityPMID:22264609
mre11Mre11 nuclease Negative GeneticPMID:18818364
cdr2serine/threonine protein kinase Cdr2 Negative GeneticPMID:22681890
mis4adherin, cohesin loading factor Mis4 Phenotypic SuppressionPMID:21189291
Negative GeneticPMID:23050226
SPAC10F6.08cHMG box protein Negative GeneticPMID:22681890
mug80cyclin Clg1 (predicted) Positive GeneticPMID:22681890
cid14poly(A) polymerase Cid14 Phenotypic EnhancementPMID:22683269
ryh1GTPase Ryh1 Negative GeneticPMID:22681890
bub3mitotic spindle checkpoint protein Bub3 Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
slm9hira protein Slm9 Synthetic Growth DefectPMID:18931302
sec28coatomer epsilon subunit (predicted) Positive GeneticPMID:18818364
lsk1P-TEFb-associated cyclin-dependent protein kinase Lsk1 Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
eme1Holliday junction resolvase subunit Eme1 Negative GeneticPMID:18818364
rad51RecA family recombinase Rad51/Rhp51 Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
swi1replication fork protection complex subunit Swi1 Synthetic Growth DefectPMID:20176980
chl1ATP-dependent DNA helicase Chl1 (predicted) Negative GeneticPMID:22681890
Synthetic Growth DefectPMID:18931302
Negative GeneticPMID:18818364
cbp1CENP-B homolog Negative GeneticPMID:18818364
chp2HP1 family chromodomain protein 2 Phenotypic EnhancementPMID:20421495
prp1U4/U6 x U5 tri-snRNP complex subunit Prp1 Positive GeneticPMID:22681890
dcr1dicer Positive GeneticPMID:18818364
Phenotypic EnhancementPMID:15475954
pic1INCENP, Pic1 Synthetic Growth DefectPMID:17322402
Synthetic LethalityPMID:22264609
mpr1histidine-containing response regulator phosphotransferase Mpr1 Positive GeneticPMID:22681890
elp5elongator complex subunit Elp5 (predicted) Negative GeneticPMID:18818364
gma12alpha-1,2-galactosyltransferase Gma12 Negative GeneticPMID:22681890
tip41TIP41-like type 2a phosphatase regulator Tip41 Negative GeneticPMID:22681890
msh6MutS protein homolog Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
spf30splicing factor Spf30 (predicted) Negative GeneticPMID:22681890
Synthetic Growth DefectPMID:20028739
sgo2inner centromere protein, shugoshin Sgo2 Synthetic Growth DefectPMID:14730319
Negative GeneticPMID:22681890
Synthetic Growth DefectPMID:20929775
Negative GeneticPMID:18818364
rad21mitotic cohesin complex, non-SMC subunit Rad21 (kleisin) Synthetic LethalityPMID:11780129
Synthetic LethalityPMID:11598266
mal3EB1 family Mal3 Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
hip4histone promoter control protein Hip4 Negative GeneticPMID:22681890
Negative GeneticPMID:18818364
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
atf1transcription factor, Atf-CREB family Atf1 Affinity Capture-WesternPMID:15292231
epe1Jmjc domain chromatin associated protein Epe1 Two-hybridPMID:21215368
Affinity Capture-WesternPMID:18809570
Reconstituted Complex
Affinity Capture-WesternPMID:16762840
Reconstituted Complex
Co-localization
pol1DNA polymerase alpha catalytic subunit Reconstituted ComplexPMID:11387218
sir2Sir2 family histone deacetylase Sir2 Co-localizationPMID:15545655
hip3HIRA interacting protein Hip3 Affinity Capture-MSPMID:21211723
clr4histone H3 lysine methyltransferase Clr4 Affinity Capture-WesternPMID:21224386
Co-localizationPMID:11283354
Co-localizationPMID:15976807
hrp3ATP-dependent DNA helicase Hrp3 Affinity Capture-WesternPMID:22990236
hht2histone H3 h3.2 Reconstituted ComplexPMID:21211724
Protein-peptidePMID:22727667
Co-localizationPMID:12215653
ers1RNA-silencing factor Ers1 Two-hybridPMID:22474355
Affinity Capture-Western
Reconstituted ComplexPMID:22733737
Two-hybrid
Affinity Capture-Western
chp1chromodomain protein Chp1 Co-localizationPMID:12361567
Co-localizationPMID:15976807
hht1histone H3 h3.1 Reconstituted ComplexPMID:21211724
Protein-peptidePMID:22727667
Co-localizationPMID:12215653
sgo1inner centromere protein, shugoshin, Sgo1 Two-hybridPMID:18716626
hip1hira protein, histone chaperone Hip1 Affinity Capture-WesternPMID:21211723
hht3histone H3 h3.3 Reconstituted ComplexPMID:21211724
Protein-peptidePMID:22727667
Protein-peptidePMID:23281010
Co-localizationPMID:12215653
clr3histone deacetylase (class II) Clr3 Affinity Capture-WesternPMID:16246721
dcr1dicer Co-localizationPMID:15976807
pcf2CAF assembly factor (CAF-1) complex subunit B, Pcf2 Affinity Capture-WesternPMID:18761674
swi2Swi5 complex subunit Swi2 Co-localizationPMID:17304215
Two-hybridPMID:14663140
Affinity Capture-WesternPMID:15537537
Two-hybrid
dfp1Hsk1-Dfp1 kinase complex regulatory subunit Dfp1 Affinity Capture-WesternPMID:14625560
rdp1RNA-directed RNA polymerase Rdp1 Co-localizationPMID:15615848
pcr1transcription factor Pcr1 Affinity Capture-WesternPMID:15292231
hsk1Dbf4(Dfp1)-dependent protein kinase Hsk1 Biochemical ActivityPMID:14625560
Affinity Capture-Western
hus5SUMO conjugating enzyme Hus5 Affinity Capture-WesternPMID:16168376
Two-hybrid
sgo2inner centromere protein, shugoshin Sgo2 Two-hybridPMID:20929775
raf1Rik1-associated factor Raf1 Co-localizationPMID:16040243
rad21mitotic cohesin complex, non-SMC subunit Rad21 (kleisin) Co-localizationPMID:11598266
cdc18MCM loader Affinity Capture-WesternPMID:21239883
Reconstituted Complex
raf2Rik1-associated factor Raf2 Co-localizationPMID:16040243
psc3mitotic cohesin complex, non-SMC subunit Psc3 Two-hybridPMID:11780129
Affinity Capture-Western
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External References
Database Identifier Description
NBRP SPAC664.01c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC664.01c Retrieval of eukaryotic orthologs
BioGrid SPAC664.01c BioGRID Interaction Datasets
Bähler Lab SPAC664.01c Cell Cycle Expression Profile
Bähler Lab SPAC664.01c Meiosis/Sporulation Expression Profies
Bähler Lab SPAC664.01c Pheromone response/mating expression profiles
Bähler Lab SPAC664.01c Environmental stress expression profiles
Bähler Lab SPAC664.01c Bähler Lab Transcriptome Viewer
Cyclebase SPAC664.01c Cell Cycle Data
PInt SPAC664.01c Bähler Lab Protein-Protein Interaction Predictor
Entrez Gene SPAC664.01c Entrez Gene
WikiGene2541633chromodomain protein Swi6
Uniprot_genenameSWI6
EntrezGene2541633chromodomain protein Swi6
SPD / RIKEN14/14C10Orfeome Localization Data
UniProtKB/SwissProtP40381Chromatin-associated protein swi6
ModBaseP40381Database of comparative protein structure models
Pfam Protein DomainsP40381Pfam Domain Arrangement
RefSeq PeptideNP_593449chromodomain protein Swi6
RefSeq mRNANM_001018882972h- chromodomain protein Swi6 (swi6), mRNA
European Nucleotide ArchiveCAA50668ENA Protein Mapping
European Nucleotide ArchiveCAB57340ENA Protein Mapping
SPD / RIKEN14/14C10Orfeome Localization Data

Literature for swi6
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Search: UK PMC or PubMed

Release Version: PomBase:18.34 - 04 Apr 2013