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 binding743
Annotation ExtensionEvidenceWith/FromReference
protein binding859
Annotation ExtensionEvidenceWith/FromReference
ubiquitin protein ligase activity67
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
double-strand break repair via homologous recombination36
Annotation ExtensionEvidenceWith/FromReference
meiosis I83
Annotation ExtensionEvidenceWith/FromReference
protein ubiquitination123
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2314
Annotation ExtensionEvidenceWith/FromReference
nucleus2696
Annotation ExtensionEvidenceWith/FromReference
Smc5-Smc6 complex8
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term NameAlleleExpressionCount
decreased cell population growth at high temperaturense1-1Not specified136
decreased vegetative cell population growthunnamed (Y264A, L265A)Not specified571
inviable vegetative cell populationnse1ΔNull1438
unnamed (Y264A, L265A)Not specified
normal growth on hydroxyureaunnamed (F147A)Not specified42
unnamed (F235A)Not specified
unnamed (Y264A)Not specified
normal growth on methyl methanesulfonateunnamed (F147A)Not specified30
unnamed (F235A)Not specified
unnamed (Y264A)Not specified
normal vegetative cell population growthunnamed (F147A)Not specified738
unnamed (F235A)Not specified
unnamed (Y264A)Not specified
sensitive to camptothecinnse1-1Not specified225
sensitive to hydroxyureanse1-1Not specified534
unnamed (Y264A, L265A)Not specified
sensitive to ionizing radiationnse1-1Not specified60
sensitive to methyl methanesulfonateunnamed (Y264A, L265A)Not specified239
sensitive to UV during vegetative growthnse1-1Not specified142
unnamed (Y264A, L265A)Not specified

Cell Phenotype

Term NameAlleleExpressionCount
abnormal mitotic cell cyclense1ΔNull834
abnormal sporulation resulting in formation of ascus containing non-uniform sporesnse1-1Not specified10
abnormal sporulation resulting in formation of ascus with single large sporense1-1Not specified4
cutnse1-1Not specified96
decreased gene conversionnse1-1Not specified13
decreased protein binding66
affecting nse4 and nse1nse1(110-180) (1-109, 181-232)Not specified
affecting nse4 and nse3unnamed (Y264A, L265A)Not specified
decreased resolution of meiotic recombination intermediates with crossover formationnse1-1Not specified6
decreased sporulationnse1-1Not specified73
inviable after spore germination, multiple cell divisions, elongated cellnse1ΔNull114
inviable elongated vegetative cellnse1ΔNull401
inviable elongated vegetative cell with fragmented nucleus and mitotic cell cycle arrest in interphasense1-1Not specified2
inviable vegetative cell, abnormal cell shape, normal cell sizense1ΔNull199
normal protein binding56
affecting nse4 and nse1nse1(110-232) (1-109)Not specified
affecting nse4 and nse1nse1(170-232) (1-169)Not specified
affecting nse4 and nse3unnamed (F147A)Not specified
affecting nse4 and nse3unnamed (F235A)Not specified
affecting nse4 and nse3unnamed (Y264A)Not specified
Target Of
OntologyRelationshipGeneProduct
FYPO affected by mutation in nse1 Smc5-6 complex ubiquitin-protein ligase E3 subunit 1
FYPO affected by mutation in nse3 Smc5-6 complex non-SMC subunit Nse3
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons1193982..1194775, 1194824..1196023
Introns1194776..1194823PMID:1296608
mRNA1193982..1196023
5' UTR1193982..1194196PMID:21511999
CDS1194197..1194775, 1194824..1194943
3' UTR1194944..1196023PMID: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
PF07574 Pfam IPR011513 Non-structural maintenance of chromosomes element 1 11 169 1
PTHR20973 HMMPANTHER IPR011513 Non-structural maintenance of chromosomes element 1 4 232 1
PTHR20973:SF0 HMMPANTHER 4 232 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

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:12966087433
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4603
conserved in eukaryotes4514
conserved in metazoa3424
conserved in vertebrates3399
conserved in eukaryotes only2501
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
binds activation domain construct withcbc1nuclear cap-binding complex large subunit (predicted) Two-hybridPMID:15331764
binds DNA-binding domain construct withnse3Smc5-6 complex non-SMC subunit Nse3 Two-hybridPMID:21364888
binds activation domain construct withnse3Smc5-6 complex non-SMC subunit Nse3 Two-hybridPMID:15331764
affinity capturesnse3Smc5-6 complex non-SMC subunit Nse3 Affinity Capture-WesternPMID:15331764
forms complex withnse3Smc5-6 complex non-SMC subunit Nse3 Reconstituted ComplexPMID:15601840
affinity captured bynse4Smc5-6 complex non-SMC subunit Nse4 Affinity Capture-MSPMID:16478984
affinity captured bynse5Smc5-6 complex non-SMC subunit Nse5 Affinity Capture-MSPMID:16478984
affinity captured bynse5Smc5-6 complex non-SMC subunit Nse5 Affinity Capture-WesternPMID:16478984
affinity captured bynse6Smc5-6 complex non-SMC subunit Nse6 Affinity Capture-WesternPMID:16478984
affinity captured bynse6Smc5-6 complex non-SMC subunit Nse6 Affinity Capture-MSPMID:16478984
binds activation domain construct withpgk1phosphoglycerate kinase Pgk1 (predicted) Two-hybridPMID:15331764
binds activation domain construct withrps00140S ribosomal protein S0A (p40) Two-hybridPMID:15331764
affinity captured bysmc5Smc5-6 complex SMC subunit Smc5 Affinity Capture-MSPMID:15331764
affinity captured bysmc5Smc5-6 complex SMC subunit Smc5 Affinity Capture-MSPMID:16478984
forms complex withsmc5Smc5-6 complex SMC subunit Smc5 Reconstituted ComplexPMID:16478984
affinity captured bysmc5Smc5-6 complex SMC subunit Smc5 Affinity Capture-MSPMID:12966087
affinity captured bysmc5Smc5-6 complex SMC subunit Smc5 Affinity Capture-WesternPMID:12966087
affinity capturessmc6Smc5-6 complex SMC subunit Smc6 Affinity Capture-WesternPMID:14701739
affinity captured bysmc6Smc5-6 complex SMC subunit Smc6 Affinity Capture-MSPMID:15601840
binds activation domain construct withSPCC1827.05cnucleolar RNA-binding protein NIFK (predicted) Two-hybridPMID:15331764
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
synthetic lethal withbrc1BRCT domain protein Brc1 Synthetic LethalityPMID:15331764
rescued by overexpression ofcut1separase/separin Dosage RescuePMID:24687850
rescued bycut1separase/separin Phenotypic SuppressionPMID:24687850
synthetically rescued bypht1histone H2A variant H2A.Z, Pht1 Synthetic RescuePMID:24687850
synthetically rescuesrec12meiotic recombination endonuclease Rec12 Synthetic RescuePMID:15331764
synthetic lethal withtop2DNA topoisomerase II Synthetic LethalityPMID:24687850
phenotype enhanced bytop2DNA topoisomerase II Phenotypic EnhancementPMID:24687850
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)
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
Cyclebase SPCC550.05.1 Cell Cycle Data
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:26_52 - 11 May 2015