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 Nse1 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 binding750
Annotation ExtensionEvidenceWith/FromReference
protein binding887
Annotation ExtensionEvidenceWith/FromReference
ubiquitin protein ligase activity65
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
double-strand break repair via homologous recombination38
Annotation ExtensionEvidenceWith/FromReference
meiosis I98
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2302
Annotation ExtensionEvidenceWith/FromReference
nucleus2700
Annotation ExtensionEvidenceWith/FromReference
Smc5-Smc6 complex8
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Inviable

Population Phenotype

Term NameGenotypesCount
decreased cell population growth at high temperaturense1-1178
decreased sporulation frequencynse1-1103
inviable vegetative cell populationnse1Δ1455
sensitive to camptothecinnse1-1257
sensitive to hydroxyureanse1-1594
sensitive to ionizing radiation during vegetative growthnse1-174
sensitive to UV during vegetative growthnse1-1161

Cell Phenotype

Term NameGenotypesCount
abnormal mitotic cell cyclense1Δ894
abnormal sporulation resulting in formation of ascus containing non-uniform sporesnse1-111
abnormal sporulation resulting in formation of ascus with single large sporense1-15
cutnse1-1128
decreased gene conversion during vegetative growthnse1-123
decreased protein binding99
affecting nse4 and nse1nse1(110-180) (1-109, 181-232)
decreased resolution of meiotic recombination intermediates with crossover formationnse1-16
inviable after spore germination, multiple cell divisions, elongated cellnse1Δ121
inviable elongated vegetative cellnse1Δ420
inviable elongated vegetative cell with fragmented nucleus and mitotic cell cycle arrest in interphasense1-13
inviable vegetative cell, abnormal cell shape, normal cell sizense1Δ199
normal protein binding91
affecting nse4 and nse1nse1(170-232) (1-169)
affecting nse4 and nse1nse1(110-232) (1-109)
Target Of
OntologyRelationshipGeneProduct
FYPO affected by mutation in nse1 Smc5-6 complex ubiquitin-protein ligase E3 subunit Nse1
FYPO affected by mutation in nse3 Smc5-6 complex non-SMC MAGE family subunit Nse3
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons1193982..1194775, 1194824..1196023
Intron1194776..1194823
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 13 169 1
PTHR20973 HMMPANTHER 4 232 1
PTHR20973:SF0 HMMPANTHER IPR011513 Non-structural maintenance of chromosomes element 1 4 232 1

View domain organization at Pfam

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
Codon Adaptation Index 0.42
Isoelectric point 5.53
Molecular weight 27.05 kDa
Number of residues 232
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for nse1 (SPCC550.05)

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1900during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2.2during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
0.84during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:12966087435
Taxonomic Conservation
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3093
conserved in fungi4607
conserved in eukaryotes4517
conserved in metazoa3427
conserved in vertebrates3402
conserved in eukaryotes only2502
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPCC550.05 into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity captured bynse6Smc5-6 complex non-SMC subunit Nse6 Affinity Capture-WesternPMID:16478984
affinity captured bynse4Smc5-6 complex non-SMC delta-kleisin subunit Nse4 Affinity Capture-MSPMID:16478984
affinity captured bysmc5Smc5-6 complex SMC P-loop ATPase subunit Smc5 Affinity Capture-MSPMID:16478984
affinity captured bysmc6Smc5-6 complex SMC P-loop ATPase subunit Smc6 Affinity Capture-MSPMID:15601840
affinity captured bynse5Smc5-6 complex non-SMC subunit Nse5 Affinity Capture-MSPMID:16478984
affinity capturessmc6Smc5-6 complex SMC P-loop ATPase subunit Smc6 Affinity Capture-WesternPMID:14701739
affinity capturesnse3Smc5-6 complex non-SMC MAGE family subunit Nse3 Affinity Capture-WesternPMID:15331764
forms complex withnse3Smc5-6 complex non-SMC MAGE family subunit Nse3 Reconstituted ComplexPMID:15601840
forms complex withsmc5Smc5-6 complex SMC P-loop ATPase subunit Smc5 Reconstituted ComplexPMID:16478984
binds activation domain construct withpgk1phosphoglycerate kinase Pgk1 (predicted) Two-hybridPMID:15331764
binds activation domain construct withSPCC1827.05cnucleolar RNA-binding protein NIFK (predicted) Two-hybridPMID:15331764
binds activation domain construct withcbc1nuclear cap-binding complex large subunit (predicted) Two-hybridPMID:15331764
binds activation domain construct withrps00140S ribosomal protein S0A (p40) Two-hybridPMID:15331764
binds activation domain construct withnse3Smc5-6 complex non-SMC MAGE family subunit Nse3 Two-hybridPMID:15331764
binds DNA-binding domain construct withnse3Smc5-6 complex non-SMC MAGE family subunit Nse3 Two-hybridPMID:21364888
Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPCC550.05 into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
synthetically rescued bypht1histone H2A variant H2A.Z, Pht1 Synthetic RescuePMID:24687850
synthetically rescuesrec12meiotic recombination endonuclease Rec12 Synthetic RescuePMID:15331764
synthetic lethal withbrc1BRCT domain protein Brc1 Synthetic LethalityPMID:15331764
synthetic lethal withtop2DNA topoisomerase II Synthetic LethalityPMID:24687850
rescued by overexpression ofcut1separase/separin Dosage RescuePMID:24687850
phenotype enhanced bytop2DNA topoisomerase II Phenotypic EnhancementPMID:24687850
rescued bycut1separase/separin Phenotypic SuppressionPMID: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 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:30_61 - 12 Sep 2016