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 binding746
Annotation ExtensionEvidenceWith/FromReference
protein binding851
Annotation ExtensionEvidenceWith/FromReference
ubiquitin protein ligase activity67
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
double-strand break repair via homologous recombination32
Annotation ExtensionEvidenceWith/FromReference
meiosis I79
Annotation ExtensionEvidenceWith/FromReference
protein ubiquitination117
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2316
Annotation ExtensionEvidenceWith/FromReference
nucleus2697
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 specified152
decreased vegetative cell population growthunnamed (Y264A, L265A)403
inviable vegetative cell populationnse1ΔNull1428
unnamed (Y264A, L265A)
normal growth on hydroxyureaunnamed (F147A)34
unnamed (F235A)
unnamed (Y264A)
normal growth on methyl methanesulfonateunnamed (F147A)27
unnamed (F235A)
unnamed (Y264A)
normal vegetative cell population growthunnamed (F147A)697
unnamed (F235A)
unnamed (Y264A)
sensitive to camptothecinnse1-1Not specified219
sensitive to hydroxyureanse1-1Not specified525
unnamed (Y264A, L265A)
sensitive to ionizing radiationnse1-1Not specified58
sensitive to methyl methanesulfonateunnamed (Y264A, L265A)227
sensitive to UV during vegetative growthnse1-1Not specified136
nse1-1Not specified
unnamed (Y264A, L265A)

Cell Phenotype

Term NameAlleleExpressionCount
abnormal mitotic cell cyclense1ΔNull808
abnormal sporulation resulting in formation of ascus containing non-uniform sporesnse1-1Not specified8
abnormal sporulation resulting in formation of ascus with single large sporense1-1Not specified4
cutnse1-1Not specified94
decreased gene conversionnse1-1Not specified11
decreased protein binding52
affecting nse4 and nse1nse1(110-180) (1-109, 181-232)
affecting nse4 and nse3unnamed (Y264A, L265A)
decreased resolution of meiotic recombination intermediates with crossover formationnse1-1Not specified5
decreased sporulationnse1-1Not specified65
inviable after spore germination, multiple cell divisions, elongated cellnse1ΔNull110
inviable elongated vegetative cellnse1ΔNull407
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 binding52
affecting nse4 and nse1nse1(110-232) (1-109)
affecting nse4 and nse1nse1(170-232) (1-169)
affecting nse4 and nse3unnamed (F147A)
affecting nse4 and nse3unnamed (F235A)
affecting nse4 and nse3unnamed (Y264A)
Target Of
OntologyRelationshipGeneProductReference
FYPO affected by mutation in nse1 Smc5-6 complex ubiquitin-protein ligase E3 subunit 1 PMID:21364888
FYPO affected by mutation in nse3 Smc5-6 complex non-SMC subunit Nse3 PMID:21364888
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
mRNA1193982..1196023
exon1194197..1194775,1194824..1194943
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:12966087432
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4604
conserved in eukaryotes4516
conserved in metazoa3432
conserved in vertebrates3407
conserved in eukaryotes only2503
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
affinity capturesnse3Smc5-6 complex non-SMC subunit Nse3 Affinity Capture-WesternPMID:15331764
binds activation domain construct withnse3Smc5-6 complex non-SMC subunit Nse3 Two-hybridPMID: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 bycut1separase/separin Phenotypic SuppressionPMID:24687850
rescued by overexpression ofcut1separase/separin Dosage RescuePMID:24687850
synthetically rescued bypht1histone H2A variant H2A.Z, Pht1 Synthetic RescuePMID:24687850
synthetically rescuesrec12meiotic recombination endonuclease Rec12 Synthetic RescuePMID:15331764
phenotype enhanced bytop2DNA topoisomerase II Phenotypic EnhancementPMID:24687850
synthetic lethal withtop2DNA topoisomerase II Synthetic LethalityPMID: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)
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:25_49 - 02 Feb 2015