swp1 (SPCC553.06)


Gene Standard Nameswp1 Characterisation Statusbiological role inferred
Systematic IDSPCC553.06 Feature Typeprotein coding
Synonyms Name Description
Productoligosaccharyltransferase delta subunit Swp1 (predicted) Product Size271aa, 29.33 kDa
Genomic Location Chromosome III, 296631-295229 (1403nt); CDS:296487-295482 (1006nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
dolichyl-diphosphooligosaccharide-protein glycotransferase activity7
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
protein N-linked glycosylation32
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
endoplasmic reticulum595
Annotation ExtensionEvidenceWith/FromReference
integral component of membrane962
Annotation ExtensionEvidenceWith/FromReference
oligosaccharyltransferase complex8
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Inviable

Population Phenotype

Term NameGenotypesCount
inviable vegetative cell populationswp1Δ1450

Cell Phenotype

Term NameGenotypesCount
inviable after spore germination, single cell division, abnormal cell shapeswp1Δ49
inviable sporeswp1Δ475
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons296631..296357, 296266..296068, 295967..295229
Intron296356..296267, 296067..295968
5' UTR296631..296488PMID:21511999
3' UTR295481..295229PMID: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
PF05817 Pfam IPR008814 Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit Swp1 27 256 1
TMhelix TMHMM 229 251 960
TMhelix TMHMM 186 208 960
PTHR12640 HMMPANTHER 6 267 1
PTHR12640:SF0 HMMPANTHER IPR008814 Dolichyl-diphosphooligosaccharide--protein glycosyltransferase subunit Swp1 6 267 1
SignalP-noTM signalp 1 18 208

View domain organization at Pfam

Term IDTerm NameReferenceCount
SO:0000418signal_peptide279
SO:0001812transmembrane_helix465

Protein Properties

Ave. residue weight 108.23 Da
Charge -2.50
Codon Adaptation Index 0.43
Isoelectric point 5.59
Molecular weight 29.33 kDa
Number of residues 271
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for swp1 (SPCC553.06)

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
39568during GO:0000080PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
42598during GO:0000085PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
3551.81during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
41269during GO:0072690PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
9363.19during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
10during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
1.5during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3090
conserved in fungi4604
conserved in eukaryotes4514
conserved in metazoa3422
conserved in vertebrates3397
conserved in eukaryotes only2504
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load gene that interact physically with SPCC553.06 into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity captured byred5human ZC3H3 homolog Affinity Capture-MSPMID:24713849
External References
Database Identifier Description
NBRP SPCC553.06 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPCC553.06 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPCC553.06 BioGRID Interaction Datasets
Expression Viewer SPCC553.06 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPCC553.06 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPCC553.06 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPCC553.06 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPCC553.06 Polyadenylation Viewer (Gullerova lab)
pombeTV SPCC553.06 Transcriptome Viewer (Bähler Lab)
GEO SPCC553.06 GEO profiles
PInt SPCC553.06 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPCC553.06 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPCC553.06 Fission yeast phenotypic data & analysis
Cyclebase SPCC553.06.1 Cell Cycle Data
SPD / RIKEN14/14H01Orfeome Localization Data
UniProtKB/SwissProtO74943Uncharacterized protein C553.06
ModBaseO74943Database of comparative protein structure models
STRINGO74943Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_587768oligosaccharyltransferase delta subunit Swp1 (predicted)
RefSeq mRNANM_001022761972h- oligosaccharyltransferase delta subunit Swp1 (predicted) (swp1), mRNA
European Nucleotide ArchiveCU329672ENA EMBL mapping
European Nucleotide ArchiveCAA19258ENA Protein Mapping
KEGG00510+2.4.99.18N-Glycan biosynthesis
KEGG00513+2.4.99.18Various types of N-glycan biosynthesis
UniParcUPI000006B04EUniProt Archive
UniPathwayUPA00378with

Literature for swp1

Search: Europe PMC or PubMed

Release Version: PomBase:30_57 - 27 Jan 2016