ctp1 (SPCC338.08)


Gene Standard Namectp1 Characterisation Statuspublished
Systematic IDSPCC338.08 Feature Typeprotein coding
Synonymsmug38, nip1, slr9 Name DescriptionMeiotically Upregulated Gene,
Synthetic Lethal with Rad2 mutant,
Nbs1-Interacting Protein 1
ProductCtIP-related endonuclease Product Size294aa, 33.10 kDa
Genomic Location Chromosome III, 1360260-1358737 (1524nt); CDS:1359819-1358891 (929nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0003677DNA bindingIEAUniProtKB-KW:KW-0238GO_REF:0000037385
GO:0004519endonuclease activityISOSGD:S000003143PMID:1804245875
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0000729DNA double-strand break processingIDAPMID:179367104
IGIpku70, exo1PMID:17936710
GO:0000724double-strand break repair via homologous recombinationIDAPMID:1793671031
same_pathwayIGIrad51PMID:18378696
same_pathwayIGInbs1PMID:18378696
IMPPMID:17936710
same_pathwayIGInbs1PMID:17936710
GO:0000706meiotic DNA double-strand break processingIMPPMID:179367103
GO:0010212response to ionizing radiationIMPPMID:179367102
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0000228nuclear chromosomeNASGO_REF:0000001432
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000046decreased cell population growthnot recorded (unrecorded)PMID:17936710343
FYPO:0001098sensitive to 4-nitroquinoline N-oxide159
expressivity FYPO_EXT:0000001Cell growth assayctp1ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0000268sensitive to UV during vegetative growthcompetitive growth assay evidencectp1ΔNullPMID:20537132117
FYPO:0002642sensitive to amphotericin BCell growth assayctp1ΔNullPECO:0000137, PECO:0000005PMID:2225281769
FYPO:0000085sensitive to camptothecincompetitive growth assay evidencectp1ΔNullPMID:20537132211
expressivity FYPO_EXT:0000001Cell growth assayctp1ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0002640sensitive to clotrimazole105
expressivity FYPO_EXT:0000003Cell growth assayctp1ΔNullPECO:0000137, PECO:0000005PMID:22252817
FYPO:0000088sensitive to hydroxyurea506
expressivity FYPO_EXT:0000003Cell growth assayctp1ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0000267sensitive to ionizing radiationnot recorded (unrecorded)PMID:1793671043
expressivity FYPO_EXT:0000001Cell growth assayctp1ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0000089sensitive to methyl methanesulfonate210
expressivity FYPO_EXT:0000001Cell growth assayctp1ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0002328sensitive to terbinafine101
expressivity FYPO_EXT:0000003Cell growth assayctp1ΔNullPECO:0000137, PECO:0000005PMID:22252817
FYPO:0002060viable vegetative cell populationnot recorded (unrecorded)PMID:179367103760
Microscopyctp1ΔNullPMID:20473289
Microscopyctp1ΔNullPECO:0000004, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000059abnormal mitotic cell cycleMicroscopyctp1ΔNullPECO:0000005, PECO:0000137PMID:23697806624
FYPO:0001122elongated vegetative cellnot recorded (unrecorded)PMID:17936710649
FYPO:0001492viable elongated vegetative cell182
penetrance FYPO_EXT:0000001Microscopyctp1ΔNullPECO:0000005, PECO:0000137PMID:23697806
Target Of
OntologyRelationshipGeneProductReference
FYPO affected by mutation in mre11 Mre11 nuclease PMID:23080121
GO regulated by cdc10 MBF transcription factor complex subunit Cdc10 PMID:17936710
GO localized by mre11 Mre11 nuclease PMID:17936710
GO regulated by rep1 MBF transcription factor activator Rep1 PMID:17936710
GO regulated by rep2 MBF transcription factor activator Rep2 PMID:17936710
GO substrate of tel1 ATM checkpoint kinase PMID:18378696
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
113602601359127
213590821358737

UTRs

Region Coordinates Reference
five_prime_UTR1360260..1359820PMID: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
PF08573 Pfam IPR013882 DNA repair protein Sae2/CtIP 209 293 1
Coil ncoils Rabaptin coiled-coil domain 16 44 968

View domain organization at Pfam

Protein Properties

Ave. residue weight 112.59 Da
Charge -6.50
Isoelectric point 5.17
Molecular weight 33.10 kDa
Number of residues 294
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00696phosphorylated residueNASPMID:183786961915
during cellular response to DNA damage stimulus
NASPMID:19547744
Sequence
Gene Expression

Qualitative Gene Expression

DescriptionLevelEvidenceReference
RNA levelincreased during GO:0051321experimental evidencePMID:16303567

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
NDduring GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
NDduring cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
1.6during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
0.72during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
Subunit Composition
DescriptionQualifierReferenceCount
homomeric(2) PMID:1793671043
Misc
DescriptionQualifierReferenceCount
localizes to double-strand breaks PMID:179367101
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:18378696432
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3080
conserved in fungi4569
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3393
conserved in eukaryotes only2487
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
nrm1MBF complex corepressor Nrm1 Negative GeneticPMID:22681890
pnk1DNA kinase/phosphatase Pnk1 Negative GeneticPMID:22681890
duo1DASH complex subunit Duo1 Negative GeneticPMID:22681890
cdt2WD repeat protein Cdt2 Negative GeneticPMID:22681890
ase1antiparallel microtubule cross-linking factor Ase1 Negative GeneticPMID:22681890
exo1exonuclease I Exo1 Negative GeneticPMID:22681890
arp8actin-like protein, Ino80 complex subunit Arp8 Negative GeneticPMID:22681890
pku70Ku domain protein Pku70 Synthetic RescuePMID:21931565
kin1microtubule affinity-regulating kinase Kin1 Negative GeneticPMID:22681890
clr4histone H3 lysine methyltransferase Clr4 Negative GeneticPMID:22681890
pku80Ku domain protein Pku80 Phenotypic EnhancementPMID:21931565
Synthetic Rescue
taz1human TRF ortholog Taz1 Phenotypic SuppressionPMID:23335786
spc34DASH complex subunit Spc34 Negative GeneticPMID:22681890
spt2non-specific DNA binding protein Spt2 (predicted) Negative GeneticPMID:22681890
cwf26complexed with Cdc5 protein Cwf26 Negative GeneticPMID:22681890
swd1Set1C complex subunit Swd1 Negative GeneticPMID:22681890
pef1Pho85/PhoA-like cyclin-dependent kinase Pef1 Negative GeneticPMID:22681890
rad3ATR checkpoint kinase Rad3 Synthetic RescuePMID:21098122
Phenotypic Suppression
ddb1damaged DNA binding protein Ddb1 Negative GeneticPMID:22681890
raf2Rik1-associated factor Raf2 Negative GeneticPMID:22681890
hta2histone H2A beta Synthetic Growth DefectPMID:21098122
tel1ATM checkpoint kinase Phenotypic EnhancementPMID:21098122
sty1MAP kinase Sty1 Negative GeneticPMID:22681890
dcd1deoxycytidylate deaminase (predicted) Synthetic Growth DefectPMID:22927644
ask1DASH complex subunit Ask1 Negative GeneticPMID:22681890
swi6HP1 family chromodomain protein Swi6 Negative GeneticPMID:22681890
dad4DASH complex subunit Dad4 Negative GeneticPMID:22681890
alp13MRG family Clr6 histone deacetylase complex subunit Alp13 Negative GeneticPMID:22681890
SPBC29A3.09cAAA family ATPase Gcn20 (predicted) Negative GeneticPMID:22681890
cph1Clr6 histone deacetylase associated PHD protein-1 Cph1 Negative GeneticPMID:22681890
SPCC126.13chistone deacetylase complex subunit, SAP128 family (predicted) Negative GeneticPMID:22681890
mug154conserved fungal protein Negative GeneticPMID:22681890
fin1serine/threonine protein kinase, NIMA related Fin1 Negative GeneticPMID:22681890
clr1cryptic loci regulator Clr1 Negative GeneticPMID:22681890
SPCC126.01cconserved fungal protein Negative GeneticPMID:22681890
pus1tRNA pseudouridine synthase Lsp1 Negative GeneticPMID:22681890
atp11F1-ATPase chaperone Atp11 (predicted) Positive GeneticPMID:22681890
set5histone lysine methyltransferase Set5 (predicted) Negative GeneticPMID:22681890
fft3SMARCAD1 family ATP-dependent DNA helicase Fft3 Negative GeneticPMID:22681890
tom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
arp42SWI/SNF and RSC complex subunit Arp42 Negative GeneticPMID:22681890
cph2Clr6 histone deacetylase associated PHD protein-2 Cph2 Negative GeneticPMID:22681890
rad1checkpoint clamp complex protein Rad1 Negative GeneticPMID:22681890
tas3RITS complex subunit 3 Negative GeneticPMID:22681890
rhp14XP-A family homolog Rhp14 Negative GeneticPMID:22681890
csn1COP9/signalosome complex subunit Csn1 Negative GeneticPMID:22681890
hip4histone promoter control protein Hip4 Negative GeneticPMID:22681890
atb2tubulin alpha 2 Positive GeneticPMID:22681890
res2MBF transcription factor complex subunit Res2 Negative GeneticPMID:22681890
trt1telomerase reverse transcriptase 1 protein Trt1 Phenotypic SuppressionPMID:23335786
csn2COP9/signalosome complex subunit Csn2 Negative GeneticPMID:22681890
res1MBF transcription factor complex subunit Res1 Negative GeneticPMID:22681890
raf1CLRC ubiquitin E3 ligase complex specificiy factor Raf1/Dos1 Negative GeneticPMID:22681890
mug55Cdc20/Fizzy subfamily WD repeat protein Negative GeneticPMID:22681890
hrq1RecQ type DNA helicase Hrq1 (predicted) Negative GeneticPMID:22681890
rad51RecA family recombinase Rad51/Rhp51 Positive GeneticPMID:22681890
prw1Clr6 histone deacetylase complex subunit Prw1 Negative GeneticPMID:22681890
hus1checkpoint clamp complex protein Hus1 Phenotypic EnhancementPMID:21098122
Synthetic Growth Defect
nbs1Mre11 complex subunit Nbs1 Phenotypic EnhancementPMID:21098122
Synthetic Growth Defect
crb2DNA repair protein Rad9 homolog, Rhp9 Phenotypic EnhancementPMID:21098122
Synthetic Growth Defect
clr3histone deacetylase (class II) Clr3 Negative GeneticPMID:22681890
dam1DASH complex subunit Dam1 Negative GeneticPMID:22681890
dad3DASH complex subunit Dad3 Negative GeneticPMID:22681890
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
nbs1Mre11 complex subunit Nbs1 Protein-peptidePMID:19804756
Affinity Capture-WesternPMID:20421724
Affinity Capture-WesternPMID:19804755
External References
Database Identifier Description
NBRP SPCC338.08 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPCC338.08 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPCC338.08 BioGRID Interaction Datasets
Expression Viewer SPCC338.08 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPCC338.08 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPCC338.08 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPCC338.08 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPCC338.08 Polyadenylation Viewer (Gullerova lab)
pombeTV SPCC338.08 Transcriptome Viewer (Bähler Lab)
Cyclebase SPCC338.08 Cell Cycle Data
GEO SPCC338.08 GEO profiles
PInt SPCC338.08 Protein-Protein Interaction Predictor (Bähler Lab)
EntrezGene2538706CtIP-related endonuclease
WikiGene2538706CtIP-related endonuclease
SPD / RIKEN11/11D10Orfeome Localization Data
UniProtKB/SwissProtO74986DNA endonuclease ctp1
ModBaseO74986Database of comparative protein structure models
STRINGO74986Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_588159CtIP-related endonuclease
RefSeq mRNANM_001023148972h- CtIP-related endonuclease (ctp1), mRNA
European Nucleotide ArchiveAB363065ENA EMBL mapping
European Nucleotide ArchiveEU168806ENA EMBL mapping
ePDB3HUFThe European PDB
PDB3HUFPDB
PDBsum3HUFPDBsum
European Nucleotide ArchiveABX10016ENA Protein Mapping
European Nucleotide ArchiveBAG16512ENA Protein Mapping
European Nucleotide ArchiveCAA19339ENA Protein Mapping
European Nucleotide ArchiveCAA19339.2ENA Protein Mapping
UniParcUPI00015FED0CUniProt Archive

Literature for ctp1

Search: Europe PMC or PubMed

Release Version: PomBase:22_44 - 08 Jul 2014