pdt1 (SPAC27F1.08)


Gene Standard Namepdt1 Characterisation Statuspublished
Systematic IDSPAC27F1.08 Feature Typeprotein coding
Synonyms Name Description
ProductNramp family manganese ion transporter Product Size521aa, 57.64 kDa
Genomic Location Chromosome I, 4330993-4333166 (2174nt); CDS:4331339-4332904 (1566nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005384manganese ion transmembrane transporter activityTASPMID:147237093
GO:0046872metal ion bindingIEAUniProtKB-KW:KW-0479GO_REF:0000037748
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0030026cellular manganese ion homeostasisIGIpmr1PMID:147237095
GO:0071421manganese ion transmembrane transportIMPPMID:147237094
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005783endoplasmic reticulumIDAPMID:16823372594
GO:0030176integral component of endoplasmic reticulum membraneICGO:0005783, GO:0016021GO_REF:000000167
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000096sensitive to cadmium246
expressivity FYPO_EXT:0000003Cell growth assaypdt1ΔNullPECO:0000102, PECO:0000005, PECO:0000137PMID:18684775
FYPO:0000271sensitive to salt stress82
expressivity FYPO_EXT:0000003Cell growth assaypdt1ΔNullPECO:0000207, PECO:0000137, PECO:0000102, PECO:0000005PMID:18684775
FYPO:0002060viable vegetative cell populationMicroscopypdt1ΔNullPMID:204732893751
Microscopypdt1ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001510viable vegetative cell, abnormal cell shape, normal cell size215
penetrance FYPO_EXT:0000001Microscopypdt1ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
143309934333166
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
PF01566 Pfam IPR001046 Natural resistance-associated macrophage like 92 469 1
TMhelix TMHMM 321 343 959
TMhelix TMHMM 149 171 959
TMhelix TMHMM 438 460 959
TMhelix TMHMM 106 128 959
TMhelix TMHMM 175 197 959
TMhelix TMHMM 412 434 959
TMhelix TMHMM 214 236 959
TMhelix TMHMM 369 391 959
TMhelix TMHMM 256 278 959
TMhelix TMHMM 67 86 959
TMhelix TMHMM 495 517 959
PTHR11706 HMMPANTHER IPR001046 Natural resistance-associated macrophage like 13 518 1
PTHR11706:SF11 HMMPANTHER 13 518 1
PR00447 PRINTS IPR001046 Natural resistance-associated macrophage like 260 283 1
PR00447 PRINTS IPR001046 Natural resistance-associated macrophage like 442 461 1
PR00447 PRINTS IPR001046 Natural resistance-associated macrophage like 208 229 1
PR00447 PRINTS IPR001046 Natural resistance-associated macrophage like 382 401 1
PR00447 PRINTS IPR001046 Natural resistance-associated macrophage like 410 427 1
PR00447 PRINTS IPR001046 Natural resistance-associated macrophage like 178 197 1
PR00447 PRINTS IPR001046 Natural resistance-associated macrophage like 150 176 1
TIGR01197 tigrfam IPR001046 Natural resistance-associated macrophage like 69 466 1

View domain organization at Pfam

Sequence Ontology

Term IDTerm NameReferenceCount
SO:0001812transmembrane_helix465

Protein Properties

Ave. residue weight 110.64 Da
Charge 2.50
Isoelectric point 7.09
Molecular weight 57.64 kDa
Number of residues 521
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineexperimental evidenceS19PMID:217125471670
present during mitotic M phase
present during mitotic M phaseexperimental evidenceS16PMID:21712547
MOD:00047O-phospho-L-threonineexperimental evidenceT43PMID:21712547690
present during mitotic M phase
present during mitotic M phaseexperimental evidenceT39PMID:21712547
present during mitotic M phaseexperimental evidenceT27PMID:21712547
MOD:00696phosphorylated residueNASPMID:195477441922
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2164.83during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
2043.13during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2.4during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.7during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
conserved in fungi4599
conserved in eukaryotes4514
conserved in bacteria1002
conserved in metazoa3428
conserved in vertebrates3402
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
trm10tRNA m(1)G methyltransferase Trm10 Positive GeneticPMID:22681890
vps35retromer complex subunit Vps35 Negative GeneticPMID:22681890
vps17retromer complex subunit Vps17 Negative GeneticPMID:22681890
SPCC1223.01ubiquitin-protein ligase E3 (predicted) Positive GeneticPMID:22681890
pyp1tyrosine phosphatase Pyp1 Negative GeneticPMID:22681890
mpr1histidine-containing response regulator phosphotransferase Mpr1 Negative GeneticPMID:22681890
lsk1P-TEFb-associated cyclin-dependent protein kinase Lsk1 Negative GeneticPMID:22681890
SPAC732.02cfructose-2,6-bisphosphate 2-phosphatase activity (predicted) Positive GeneticPMID:22681890
tor1phosphatidylinositol kinase Tor1 Negative GeneticPMID:22681890
mid1medial ring protein Mid1 Positive GeneticPMID:22681890
pmr1P-type ATPase, calcium transporting Pmr1 Phenotypic EnhancementPMID:14723709
Dosage Rescue
SPBC56F2.08cRNA-binding protein (predicted) Negative GeneticPMID:22681890
vph2endoplasmic reticulum membrane protein involved in assembly of the V-ATPase (predicted) Negative GeneticPMID:22681890
tom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
ste20Rictor homolog, Ste20 Negative GeneticPMID:22681890
snf5SWI/SNF complex subunit Snf5 Negative GeneticPMID:22681890
SPBC16H5.13WD repeat protein, human WDR7 ortholog Negative GeneticPMID:22681890
erg5C-22 sterol desaturase Erg5 Positive GeneticPMID:22681890
ash2Ash2-trithorax family protein Negative GeneticPMID:22681890
uch2ubiquitin C-terminal hydrolase Uch2 Negative GeneticPMID:22681890
ppk14serine/threonine protein kinase Ppk14 (predicted) Positive GeneticPMID:22681890
atp11F1-ATPase chaperone Atp11 (predicted) Positive GeneticPMID:22681890
ubp8SAGA complex ubiquitin C-terminal hydrolase Ubp8 Negative GeneticPMID:22681890
ccr4CCR4-Not complex subunit Ccr4 (predicted) Negative GeneticPMID:22681890
gma12alpha-1,2-galactosyltransferase Gma12 Negative GeneticPMID:22681890
sts5RNB-like protein Positive GeneticPMID:22681890
par1protein phosphatase regulatory subunit Par1 Negative GeneticPMID:22681890
sif1Sad1 interacting factor 1 Negative GeneticPMID:22681890
res1MBF transcription factor complex subunit Res1 Positive GeneticPMID:22681890
spa2GTPase activating protein Spa2 (predicted) Negative GeneticPMID:22681890
SPAC1A6.03cphospholipase (predicted) Positive GeneticPMID:22681890
vps5retromer complex subunit Vps5 Negative GeneticPMID:22681890
pom1DYRK family protein kinase Pom1 Negative GeneticPMID:22681890
ynd1nucleoside diphosphatase Ynd1 Negative GeneticPMID:22681890
ppa2serine/threonine protein phosphatase Ppa2 Negative GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPAC27F1.08 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC27F1.08 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC27F1.08 BioGRID Interaction Datasets
Expression Viewer SPAC27F1.08 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC27F1.08 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC27F1.08 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC27F1.08 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC27F1.08 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC27F1.08 Transcriptome Viewer (Bähler Lab)
Cyclebase SPAC27F1.08 Cell Cycle Data
GEO SPAC27F1.08 GEO profiles
PInt SPAC27F1.08 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC27F1.08 Peptides identified in tandem mass spectrometry proteomics experiments
SPD / RIKEN25/25C05Orfeome Localization Data
UniProtKB/SwissProtQ10177Manganese transporter pdt1
ModBaseQ10177Database of comparative protein structure models
STRINGQ10177Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_594537Nramp family manganese ion transporter
RefSeq mRNANM_001019966972h- Nramp family manganese ion transporter (pdt1), mRNA
European Nucleotide ArchiveCAA93297.1ENA Protein Mapping
UniParcUPI000013A183UniProt Archive

Literature for pdt1

Search: Europe PMC or PubMed

Release Version: PomBase:23_46 - 30 Aug 2014