pmt3 (SPBC365.06)


Gene Standard Namepmt3 Characterisation Statuspublished
Systematic IDSPBC365.06 Feature Typeprotein coding
Synonymssmt3, ubl2 Name Descriptionswitching of mating type
ProductSUMO Product Size117aa, 12.93 kDa
Genomic Location Chromosome II, 2506815-2510260 (3446nt); CDS:2506894-2507390 (497nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
protein binding872
Annotation ExtensionEvidenceWith/FromReference
protein tag5
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
chromatin silencing at centromere58
Annotation ExtensionEvidenceWith/FromReference
chromatin silencing at silent mating-type cassette36
Annotation ExtensionEvidenceWith/FromReference
mitotic sister chromatid segregation185
Annotation ExtensionEvidenceWith/FromReference
negative regulation of histone H3-K14 acetylation2
Annotation ExtensionEvidenceWith/FromReference
negative regulation of histone H3-K4 methylation5
Annotation ExtensionEvidenceWith/FromReference
negative regulation of histone H3-K9 methylation1
Annotation ExtensionEvidenceWith/FromReference
protein sumoylation11
Annotation ExtensionEvidenceWith/FromReference
telomere maintenance46
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
linear element6
Annotation ExtensionEvidenceWith/FromReference
mitotic spindle pole body220
Annotation ExtensionEvidenceWith/FromReference
nucleus2691
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
sensitive to cisplatinpmt3Δ106
sensitive to hydroxyureapmt3Δ580
viable vegetative cell populationpmt3Δ3844

Cell Phenotype

Term NameGenotypesCount
abnormal mitotic cell cyclepmt3Δ882
cutpmt3Δ128
cut during cellular response to hydroxyureapmt3Δ44
decreased replication fork arrest at mating-type locuspmt3Δ5
decreased site-specific DNA replication termination at RTS1 barrierpmt3Δ2
elongated telomerespmt3Δ174
elongated vegetative cellpmt3Δ794
normal protein level during vegetative growth83
affecting mei2pmt3Δ
viable elongated vegetative cellpmt3Δ320

FYPO Multi-allele Phenotypes

Cell Phenotype

Term NameGenotypes
decreased replication fork arrest at mating-type locusrtf2Δ, pmt3Δ
decreased site-specific DNA replication termination at RTS1 barrierrtf2Δ, pmt3Δ
increased level of large-Y replication intermediatesrtf2Δ, pmt3Δ
Target Of
OntologyRelationshipGeneProduct
FYPO affected by mutation in slx1 structure-specific endonuclease catalytic subunit Slx1
FYPO localization affected by mutation in hus5 SUMO conjugating enzyme E2 Hus5
FYPO localization affected by mutation in pli1 SUMO E3 ligase Pli1
FYPO localization affected by mutation in rec10 meiotic recombination protein Rec10
GO substrate of ulp1 SUMO deconjugating enzyme Ulp1
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons2506815..2507022, 2507117..2507266, 2507316..2510125, 2510164..2510260
Intron2507023..2507116, 2507267..2507315, 2510126..2510163
mRNA2506815..2510260
5' UTR2506815..2506893PMID:21511999
CDS2506894..2507022, 2507117..2507266, 2507316..2507390
3' UTR2507391..2510125, 2510164..2510260PMID: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
PF11976 Pfam IPR022617 Rad60/SUMO-like domain 36 106 2
SM00213 SMART IPR000626 Ubiquitin domain 36 107 13
PS50053 Prosite Profiles IPR000626 Ubiquitin domain 34 111 18
PTHR10562 HMMPANTHER 26 112 2
3.10.20.90 Gene3D Ubiquitin 27 111 28
SSF54236 SuperFamily IPR029071 Ubiquitin-related domain 23 111 29

View domain organization at Pfam

Term IDTerm NameReferenceCount
PBO:0001447ubiquitin family proteinTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0001447

Protein Properties

Ave. residue weight 110.55 Da
Charge -5.00
Codon Adaptation Index 0.50
Isoelectric point 4.59
Molecular weight 12.93 kDa
Number of residues 117
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serine 1677
present during mitotic M phaseS4
present during mitotic M phaseS15
present during mitotic M phaseS25
present during mitotic M phaseS10
present during mitotic M phaseS2
S2, S4, S10
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence S4 PMID:21712547
present during mitotic M phase experimental evidence S15 PMID:21712547
present during mitotic M phase experimental evidence S25 PMID:21712547
present during mitotic M phase experimental evidence S10 PMID:21712547
present during mitotic M phase experimental evidence S2 PMID:21712547
experimental evidence S4 PMID:24763107
experimental evidence S10 PMID:24763107
experimental evidence S2 PMID:24763107
O-phospho-L-threonine 701
present during mitotic M phaseT20
present during mitotic M phaseT18
present during mitotic M phaseT24
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence T20 PMID:21712547
present during mitotic M phase experimental evidence T18 PMID:21712547
present during mitotic M phase experimental evidence T24 PMID:21712547
phosphorylated residue 1932
Annotation ExtensionEvidenceResidueReference
IDA PMID:19547744
sumoylated lysine 173
Annotation ExtensionEvidenceResidueReference
IDA PMID:26404184
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for pmt3 (SPBC365.06)

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
55597during GO:0000080PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
66840during GO:0000084PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
59282during GO:0000085PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
58397during GO:0000087PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
56319during GO:0072690PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
29295.21during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
27901.42during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
6during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
1during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
conserved in fungi4606
conserved in eukaryotes4516
conserved in metazoa3424
conserved in vertebrates3399
conserved in eukaryotes only2505
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPBC365.06 into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
forms complex withhus5SUMO conjugating enzyme E2 Hus5 Reconstituted ComplexPMID:21444718
forms complex withrfp1SUMO-targeted ubiquitin-protein ligase subunit Rfp1 Reconstituted ComplexPMID:17762864
forms complex withslx1structure-specific endonuclease catalytic subunit Slx1 Reconstituted ComplexPMID:26787556
affinity capturestpz1Tppl homolog Tpz1 Affinity Capture-WesternPMID:24925530
affinity capturestif471translation initiation factor eIF4G Affinity Capture-WesternPMID:24818994
binds activation domain construct withstn1telomere cap complex subunit Stn1 Two-hybridPMID:24711392
binds activation domain construct withbrl2ubiquitin-protein ligase E3 Brl2 Two-hybridPMID:17762865
binds activation domain construct withbrl1ubiquitin-protein ligase E3 Brl1 Two-hybridPMID:17762865
binds activation domain construct withrrp2ATP-dependent DNA helicase, ubiquitin-protein ligase E3 (predicted) Two-hybridPMID:23828040
binds activation domain construct withrrp1ATP-dependent DNA helicase/ ubiquitin-protein ligase E3 (predicted) Two-hybridPMID:23828040
binds DNA-binding domain construct withrfp1SUMO-targeted ubiquitin-protein ligase subunit Rfp1 Two-hybridPMID:17762864
binds DNA-binding domain construct withbrl2ubiquitin-protein ligase E3 Brl2 Two-hybridPMID:17762865
binds DNA-binding domain construct withhsp16heat shock protein Hsp16 Two-hybridPMID:11452028
binds DNA-binding domain construct withstn1telomere cap complex subunit Stn1 Two-hybridPMID:24925530
modified byulp2SUMO deconjugating cysteine peptidase Ulp2 (predicted) Biochemical ActivityPMID:24818994
modified byulp1SUMO deconjugating enzyme Ulp1 Biochemical ActivityPMID:24818994
Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPBC365.06 into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
negative genetic interaction withhip1hira protein, histone chaperone Hip1 Negative GeneticPMID:22681890
negative genetic interaction withspc34DASH complex subunit Spc34 Negative GeneticPMID:22681890
negative genetic interaction withcdt2WD repeat protein Cdt2 Negative GeneticPMID:22681890
negative genetic interaction withddb1damaged DNA binding protein Ddb1 Negative GeneticPMID:22681890
negative genetic interaction withhrq1RecQ type DNA helicase Hrq1 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withelp2elongator complex subunit Elp2 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withhip4histone promoter control protein Hip4 Negative GeneticPMID:22681890
negative genetic interaction withrad57RecA family ATPase Rad57/Rhp57 Negative GeneticPMID:22681890
negative genetic interaction withbrc1BRCT domain protein Brc1 Negative GeneticPMID:22681890
negative genetic interaction withcwf21complexed with Cdc5 protein Cwf21 Negative GeneticPMID:22681890
negative genetic interaction withklp6kinesin-like protein Klp6 Negative GeneticPMID:22681890
negative genetic interaction withdad3DASH complex subunit Dad3 Negative GeneticPMID:22681890
negative genetic interaction withdad2DASH complex subunit Dad2 Negative GeneticPMID:22681890
negative genetic interaction withrad55RecA family ATPase Rad55/Rhp55 Negative GeneticPMID:22681890
negative genetic interaction withpho8vacuolar membrane alkaline phosphatase (predicted) Negative GeneticPMID:22681890
negative genetic interaction withrad51RecA family recombinase Rad51/Rhp51 Negative GeneticPMID:22681890
negative genetic interaction withrsc4RSC complex subunit Rsc4 Negative GeneticPMID:22681890
negative genetic interaction withspc19DASH complex subunit Spc19 Negative GeneticPMID:22681890
negative genetic interaction withdam1DASH complex subunit Dam1 Negative GeneticPMID:22681890
negative genetic interaction withnup132nucleoporin Nup132 Negative GeneticPMID:22681890
negative genetic interaction withcsn2COP9/signalosome complex subunit Csn2 Negative GeneticPMID:22681890
negative genetic interaction withgcn20AAA family ATPase Gcn20 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withdad4DASH complex subunit Dad4 Negative GeneticPMID:22681890
negative genetic interaction withcsn1COP9/signalosome complex subunit Csn1 Negative GeneticPMID:22681890
negative genetic interaction withres1MBF transcription factor complex subunit Res1 Negative GeneticPMID:22681890
negative genetic interaction withams2cell cycle regulated GATA-type transcription factor Ams2 Negative GeneticPMID:22681890
negative genetic interaction withpob3FACT complex subunit Pob3 Negative GeneticPMID:22681890
negative genetic interaction withnrm1MBF complex corepressor Nrm1 Negative GeneticPMID:22681890
negative genetic interaction withprw1Clr6 histone deacetylase complex subunit Prw1 Negative GeneticPMID:22681890
rescued byulp1SUMO deconjugating enzyme Ulp1 Phenotypic SuppressionPMID:24818994
positive genetic interaction withypa2protein phosphatase type 2A regulator, PTPA family Ypa2 Positive GeneticPMID:22681890
positive genetic interaction withSPAC1952.06cspliceosomal complex subunit (predicted) Positive GeneticPMID:22681890
positive genetic interaction withrpl160160S ribosomal protein L13/L16 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withpef1Pho85/PhoA-like cyclin-dependent kinase Pef1 Positive GeneticPMID:22681890
positive genetic interaction withvps35retromer complex subunit Vps35 Positive GeneticPMID:22681890
positive genetic interaction withsts5RNB-like protein Positive GeneticPMID:22681890
synthetic growth defect withsrs2ATP-dependent DNA helicase, UvrD subfamily Synthetic Growth DefectPMID:18931302
synthetic growth defect withnse2Smc5-6 complex non-SMC subunit 2, SUMO ligase Synthetic Growth DefectPMID:21444718
synthetic growth defect withrhp14XP-A family homolog Rhp14 Synthetic Growth DefectPMID:18931302
synthetic growth defect withslm9hira protein Slm9 Synthetic Growth DefectPMID:18931302
synthetic growth defect withrad60DNA repair protein Rad60 Synthetic Growth DefectPMID:21444718
synthetic lethal withrad51RecA family recombinase Rad51/Rhp51 Synthetic LethalityPMID:21444718
synthetically rescuesslx8SUMO-targeted ubiquitin-protein ligase E3 Slx8 Synthetic RescuePMID:21444718
synthetically rescuesulp2SUMO deconjugating cysteine peptidase Ulp2 (predicted) Synthetic RescuePMID:21444718
synthetically rescued bytop1DNA topoisomerase I Synthetic RescuePMID:21444718
External References
Database Identifier Description
NBRP SPBC365.06 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC365.06 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC365.06 BioGRID Interaction Datasets
Expression Viewer SPBC365.06 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC365.06 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC365.06 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC365.06 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC365.06 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC365.06 Transcriptome Viewer (Bähler Lab)
GEO SPBC365.06 GEO profiles
PInt SPBC365.06 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC365.06 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC365.06 Fission yeast phenotypic data & analysis
Cyclebase SPBC365.06.1 Cell Cycle Data
SPD / RIKEN31/31E04Orfeome Localization Data
UniProtKB/SwissProtO13351Ubiquitin-like protein pmt3/smt3
ModBaseO13351Database of comparative protein structure models
STRINGO13351Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596035ubiquitin-like protein
RefSeq mRNANM_001021945972h- ubiquitin-like protein (pmt3), mRNA
European Nucleotide ArchiveAF019235ENA EMBL mapping
European Nucleotide ArchiveBAA32595.1ENA Protein Mapping
European Nucleotide ArchiveCAB44758.1ENA Protein Mapping
UniParcUPI0000135AEAUniProt Archive

Literature for pmt3

Search: Europe PMC or PubMed

Release Version: PomBase:30_60 - 12 May 2016