nse1 (SPCC550.05)


Gene Standard Namense1 Characterisation Statuspublished
Systematic IDSPCC550.05 Feature Typeprotein coding
Synonyms Name Description
ProductSmc5-6 complex non-SMC 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 IDTerm NameEvidenceWith/FromReferenceCount
GO:0046872metal ion bindingIEAUniProtKB-KW:KW-0479GO_REF:0000037747
GO:0005515protein bindingIPIsmc5PMID:12966087887
GO:0004842ubiquitin-protein ligase activityTASPMID:1533176483
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0006281DNA repairIMPPMID:12966087203
GO:0000724double-strand break repair via homologous recombinationIGIrad51PMID:1296608731
GO:0006311meiotic gene conversionIMPPMID:153317648
GO:0016567protein ubiquitinationTASPMID:15331764115
GO:0007131reciprocal meiotic recombinationIMPPMID:1533176445
acts_downstream_ofIGIrec12PMID:15331764
GO:0048478replication fork protectionIGIbrc1PMID:1533176412
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0030915Smc5-Smc6 complexIDAPMID:129660878
GO:0005829cytosolIDAPMID:168233722317
GO:0005634nucleusIDAPMID:168233722730
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationno_namePMID:129660871309
Microscopynse1ΔNullPMID:20473289
Microscopynse1ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000059abnormal mitotic cell cycleMicroscopynse1ΔNullPECO:0000004, PECO:0000137PMID:23697806564
FYPO:0001122elongated vegetative cellno_namePMID:12966087624
FYPO:0001490inviable elongated vegetative cellMicroscopynse1ΔNullPECO:0000005, PECO:0000137PMID:23697806368
penetrance FYPO_EXT:0000003
FYPO:0001511inviable vegetative cell, abnormal cell shape, normal cell sizeMicroscopynse1ΔNullPECO:0000137, PECO:0000005PMID:23697806198
expressivity FYPO_EXT:0000003
penetrance FYPO_EXT:0000001
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
111939821194775
211948241196023

UTRs

Region Start End Reference
intron11947761194823PMID:1296608
three_prime_UTR11949441196023PMID:21511999
five_prime_UTR11939821194196PMID: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: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)DuringConditionScaleEvidenceReference
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)DuringConditionScaleEvidenceReference
0.84during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
2.2during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:12966087426
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3080
conserved in fungi4564
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3394
conserved in eukaryotes only2485
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
rec12endonuclease Rec12 Synthetic RescuePMID:15331764
brc1BRCT domain protein Brc1 Synthetic LethalityPMID:15331764
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
rps00140S ribosomal protein S0A (p40) Two-hybridPMID:15331764
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
Reconstituted ComplexPMID:16478984
Affinity Capture-MS
Affinity Capture-WesternPMID:12966087
Affinity Capture-MS
SPAC6G10.07nuclear cap-binding complex large subunit (predicted) Two-hybridPMID:15331764
nse3Smc5-6 complex non-SMC subunit Nse3 Two-hybridPMID:21364888
Affinity Capture-WesternPMID:15331764
Two-hybrid
Reconstituted ComplexPMID:15601840
nse4Smc5-6 complex non-SMC subunit Nse4 Affinity Capture-MSPMID:16478984
nse5Smc5-6 complex non-SMC subunit Nse5 Affinity Capture-MSPMID:16478984
Affinity Capture-Western
pgk1phosphoglycerate kinase Pgk1 (predicted) Two-hybridPMID:15331764
nse6Smc5-6 complex non-SMC subunit Nse6 Affinity Capture-WesternPMID:16478984
Affinity Capture-MS
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)
WikiGene2539550Smc5-6 complex non-SMC subunit 1
EntrezGene2539550Smc5-6 complex non-SMC subunit 1
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
RefSeq mRNANM_001023089972h- mitochondrial heat shock protein Hsp10 (hsp10), mRNA
RefSeq_mRNA_predictedXM_001713113972h- Smc5-6 complex non-SMC subunit 1 (nse1), mRNA
RefSeq_peptide_predictedXP_001713165Smc5-6 complex non-SMC subunit 1
European Nucleotide ArchiveCAI84978ENA Protein Mapping
UniParcUPI000050A499UniProt Archive

Literature for nse1

Search: Europe PMC or PubMed

Release Version: PomBase:21_41 - 24 Feb 2014