atg16 (SPBC405.05)


Gene Standard Nameatg16 Characterisation Statuspublished
Systematic IDSPBC405.05 Feature Typeprotein coding
Synonyms Name Description
Productautophagy protein Atg16 Product Size143aa, 16.89 kDa
Genomic Location Chromosome II, 3148510-3149656 (1147nt); CDS:3148752-3149183 (432nt)

Ensembl Gene Location
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0006501C-terminal protein lipidationISOSGD:S000004769GO_REF:00000243
GO:0032258CVT pathwayISOSGD:S000004769GO_REF:000002418
GO:0016236macroautophagyIMPPMID:2395073524
ISOSGD:S000004769GO_REF:0000024
GO:0007126meiosisIMPPMID:16169489175
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005737cytoplasmIDAPMID:168233724198
GO:0005829cytosolIDAPMID:168233722317
GO:0000407pre-autophagosomal structureIDAPMID:2395073521
ISOSGD:S000004769GO_REF:0000024
GO:0034045pre-autophagosomal structure membraneIEASL-0221GO_REF:000003919
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002060viable vegetative cell populationMicroscopyatg16ΔNullPECO:0000005, PECO:0000137PMID:236978063755
Microscopyatg16ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000380abolished autophagygel electrophoresis evidenceatg16ΔNullPECO:0000127PMID:2395073522
FYPO:0000708decreased mating efficiencyhigh throughput nucleotide sequencing assay evidenceatg16ΔNullPECO:0000015PMID:23950735222
FYPO:0002615decreased protein localization to pre-autophagosomal structureMicroscopyatg16ΔNullPECO:0000230PMID:2395073512
affecting atg8
FYPO:0002177viable vegetative cell with normal cell morphologyMicroscopyatg16ΔNullPECO:0000005, PECO:0000137PMID:236978063078
penetrance FYPO_EXT:0000001
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
131485103149656
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
Coil ncoils Rabaptin coiled-coil domain 70 105 975
Coil ncoils Rabaptin coiled-coil domain 112 140 975
Low complexity (SEG) seg 84 97

View domain organization at Pfam

Protein Properties

Ave. residue weight 118.13 Da
Charge -4.50
Isoelectric point 4.79
Molecular weight 16.89 kDa
Number of residues 143
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
NDduring 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
0.49during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
1.1during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
conserved in fungi PMID:239507354564
conserved in eukaryotes4482
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
rem1meiosis-specific cyclin Rem1 Positive GeneticPMID:22681890
vps17retromer complex subunit Vps17 Negative GeneticPMID:22681890
ckb2CK2 family regulatory subunit (predicted) Negative GeneticPMID:22681890
swd3WD repeat protein Swd3 Positive GeneticPMID:22681890
nup40nucleoporin Nup40 Negative GeneticPMID:22681890
png2ING family homolog Png2 Negative GeneticPMID:22681890
ypa2protein phosphatase type 2A regulator, PTPA family Ypa2 Positive GeneticPMID:22681890
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
atg5autophagy associated protein Atg5 Affinity Capture-WesternPMID:23950735
External References
Database Identifier Description
NBRP SPBC405.05 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC405.05 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC405.05 BioGRID Interaction Datasets
Expression Viewer SPBC405.05 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC405.05 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC405.05 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC405.05 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC405.05 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC405.05 Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC405.05 Cell Cycle Data
GEO SPBC405.05 GEO profiles
PInt SPBC405.05 Protein-Protein Interaction Predictor (Bähler Lab)
WikiGene2540530sequence orphan
EntrezGene2540530sequence orphan
SPD / RIKEN03/03F02Orfeome Localization Data
UniProtKB/SwissProtO94656Meiotic chromosome segregation protein C405.05
ModBaseO94656Database of comparative protein structure models
StringO94656Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596308sequence orphan
RefSeq mRNANM_001022230972h- sequence orphan (SPBC405.05), mRNA
European Nucleotide ArchiveBAA13916ENA Protein Mapping
European Nucleotide ArchiveCAB38604ENA Protein Mapping
UniParcUPI000006C86AUniProt Archive

Literature for atg16

Search: Europe PMC or PubMed

Release Version: PomBase:21_41 - 24 Feb 2014