nse1 (SPCC550.05)


Gene Standard Namense1 Characterisation Statuspublished
Systematic IDSPCC550.05 Feature Typeprotein coding
Synonyms Name Description
ProductSmc5-6 complex ubiquitin-protein ligase E3 subunit 1 Product Size232aa, 27.05 kDa
Genomic Location Chromosome III, 1193982-1196023 (2042nt); CDS:1194197-1194943 (747nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
metal ion binding747
Annotation ExtensionEvidenceWith/FromReference
protein binding831
Annotation ExtensionEvidenceWith/FromReference
ubiquitin protein ligase activity60
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
DNA repair165
Annotation ExtensionEvidenceWith/FromReference
double-strand break repair via homologous recombination32
Annotation ExtensionEvidenceWith/FromReference
meiotic gene conversion8
Annotation ExtensionEvidenceWith/FromReference
protein ubiquitination115
Annotation ExtensionEvidenceWith/FromReference
reciprocal meiotic recombination43
Annotation ExtensionEvidenceWith/FromReference
replication fork protection12
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2315
Annotation ExtensionEvidenceWith/FromReference
nucleus2740
Annotation ExtensionEvidenceWith/FromReference
Smc5-Smc6 complex8
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopynse1ΔNullPECO:0000005, PECO:0000137PMID:236978061338
Microscopynse1ΔNullPMID:20473289
Microscopynot recorded (unrecorded)PMID:12966087

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000059abnormal mitotic cell cycleMicroscopynse1ΔNullPECO:0000004, PECO:0000137PMID:23697806686
FYPO:0001122elongated vegetative cellMicroscopynot recorded (unrecorded)PMID:12966087685
FYPO:0001490inviable elongated vegetative cell393
penetrance FYPO_EXT:0000003Microscopynse1ΔNullPECO:0000005, PECO:0000137PMID:23697806
FYPO:0001511inviable vegetative cell, abnormal cell shape, normal cell size199
expressivity FYPO_EXT:0000003
penetrance FYPO_EXT:0000001
Microscopynse1ΔNullPECO:0000137, PECO:0000005PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
111939821194775
211948241196023

UTRs

Region Coordinates Reference
five_prime_UTR1193982..1194196PMID:21511999
three_prime_UTR1194944..1196023PMID:21511999
intron1194776..1194823PMID:1296608
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
PF07574 Pfam IPR011513 Non-structural maintenance of chromosomes element 1 11 169 1
PTHR20973:SF0 HMMPANTHER 8 231 1
PTHR20973 HMMPANTHER IPR011513 Non-structural maintenance of chromosomes element 1 8 231 1

View domain organization at Pfam

Manually Curated Family or Sub-families

Term IDTerm NameReferenceCount
PBO:0000173zf-C3HC4 type (RING finger)PMID:15331764Temporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000173
PBO:0000176ubiquitin-protein ligase E3PMID:15331764Temporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000176

Protein Properties

Ave. residue weight 116.60 Da
Charge -5.00
Isoelectric point 5.53
Molecular weight 27.05 kDa
Number of residues 232
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1900during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
NDduring cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2.2during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.84during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:12966087432
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4600
conserved in eukaryotes4514
conserved in metazoa3425
conserved in vertebrates3400
conserved in eukaryotes only2497
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
smc6Smc5-6 complex SMC subunit Smc6 Affinity Capture-WesternPMID:14701739
Affinity Capture-MSPMID:15601840
SPCC1827.05cnucleolar RNA-binding protein NIFK (predicted) Two-hybridPMID:15331764
smc5Smc5-6 complex SMC subunit Smc5 Affinity Capture-MSPMID:15331764
Affinity Capture-MSPMID:16478984
Reconstituted Complex
Affinity Capture-WesternPMID:12966087
Affinity Capture-MS
nse4Smc5-6 complex non-SMC subunit Nse4 Affinity Capture-MSPMID:16478984
nse3Smc5-6 complex non-SMC subunit Nse3 Two-hybridPMID:21364888
Affinity Capture-WesternPMID:15331764
Two-hybrid
Reconstituted ComplexPMID:15601840
rps00140S ribosomal protein S0A (p40) Two-hybridPMID:15331764
nse5Smc5-6 complex non-SMC subunit Nse5 Affinity Capture-MSPMID:16478984
Affinity Capture-Western
cbc1nuclear cap-binding complex large subunit (predicted) Two-hybridPMID:15331764
pgk1phosphoglycerate kinase Pgk1 (predicted) Two-hybridPMID:15331764
nse6Smc5-6 complex non-SMC subunit Nse6 Affinity Capture-MSPMID:16478984
Affinity Capture-Western
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
rec12endonuclease Rec12 Synthetic RescuePMID:15331764
brc1BRCT domain protein Brc1 Synthetic LethalityPMID:15331764
External References
Database Identifier Description
NBRP SPCC550.05 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPCC550.05 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPCC550.05 BioGRID Interaction Datasets
Expression Viewer SPCC550.05 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPCC550.05 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPCC550.05 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPCC550.05 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPCC550.05 Polyadenylation Viewer (Gullerova lab)
pombeTV SPCC550.05 Transcriptome Viewer (Bähler Lab)
Cyclebase SPCC550.05 Cell Cycle Data
GEO SPCC550.05 GEO profiles
PInt SPCC550.05 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPCC550.05 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPCC550.05 Fission yeast phenotypic data & analysis
SPD / RIKEN06/06H04Orfeome Localization Data
UniProtKB/SwissProtQ53EK2Non-structural maintenance of chromosomes element 1
ModBaseQ53EK2Database of comparative protein structure models
STRINGQ53EK2Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_588098mitochondrial heat shock protein Hsp10 (predicted)
RefSeq mRNANM_001023089972h- mitochondrial heat shock protein Hsp10 (predicted) (hsp10), mRNA
RefSeq mRNAXM_001713113972h- Smc5-6 complex non-SMC subunit 1 (nse1), mRNA
RefSeq PeptideXP_001713165Smc5-6 complex non-SMC subunit 1
European Nucleotide ArchiveCAI84978.1ENA Protein Mapping
UniParcUPI000050A499UniProt Archive

Literature for nse1

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014