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 binding848
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 I82
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2316
Annotation ExtensionEvidenceWith/FromReference
nucleus2690
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 specified151
decreased vegetative cell population growthnot recorded (Y264A, L265A)400
inviable vegetative cell populationnot recorded (Y264A, L265A)1427
nse1ΔNull
normal growth on hydroxyureanot recorded (F147A)31
not recorded (F235A)
not recorded (Y264A)
normal growth on methyl methanesulfonatenot recorded (F147A)25
not recorded (F235A)
not recorded (Y264A)
normal vegetative cell population growthnot recorded (F147A)685
not recorded (F235A)
not recorded (Y264A)
sensitive to hydroxyureanot recorded (Y264A, L265A)518
sensitive to ionizing radiationnse1-1Not specified58
sensitive to methyl methanesulfonatenot recorded (Y264A, L265A)227
sensitive to UV during vegetative growthnot recorded (Y264A, L265A)133
expressivity FYPO_EXT:0000001nse1-1Not specified

Cell Phenotype

Term NameAlleleExpressionCount
abnormal mitotic cell cyclense1ΔNull794
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 specified1
cutnse1-1Not specified92
decreased gene conversionnse1-1Not specified11
decreased protein binding51
affecting nse4 and nse3not recorded (Y264A, L265A)
affecting nse4 and nse1nse1(110-180) (1-109, 181-232)
decreased resolution of meiotic recombination intermediates with crossover formationnse1-1Not specified5
decreased sporulation65
penetrance FYPO_EXT:0000001nse1-1Not specified
inviable after spore germination, multiple cell divisions, elongated cellnse1ΔNull110
inviable elongated vegetative cell405
penetrance FYPO_EXT:0000003nse1ΔNull
inviable elongated vegetative cell with fragmented nucleus and mitotic cell cycle arrest in interphasense1-1Not specified2
inviable vegetative cell, abnormal cell shape, normal cell size199
penetrance FYPO_EXT:0000001, expressivity FYPO_EXT:0000003nse1ΔNull
normal protein binding49
affecting nse4 and nse3not recorded (F147A)
affecting nse4 and nse3not recorded (F235A)
affecting nse4 and nse3not recorded (Y264A)
affecting nse4 and nse1nse1(110-232) (1-109)
affecting nse4 and nse1nse1(170-232) (1-169)
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
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
SPCC1827.05cnucleolar RNA-binding protein NIFK (predicted) Two-hybridPMID:15331764
smc6Smc5-6 complex SMC subunit Smc6 Affinity Capture-WesternPMID:14701739
Affinity Capture-MSPMID:15601840
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-WesternPMID:16478984
Affinity Capture-MS
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-WesternPMID:16478984
Affinity Capture-MS
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
top2DNA topoisomerase II Synthetic LethalityPMID:24687850
Phenotypic Enhancement
rec12meiotic recombination endonuclease Rec12 Synthetic RescuePMID:15331764
brc1BRCT domain protein Brc1 Synthetic LethalityPMID:15331764
pht1histone H2A variant H2A.Z, Pht1 Synthetic RescuePMID:24687850
cut1separase/separin Phenotypic SuppressionPMID:24687850
Dosage Rescue
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_48 - 10 Jan 2015