pdt1 (SPAC27F1.08)


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

Ensembl Gene Location
GO Molecular Function
Term NameCount
manganese ion transmembrane transporter activity3
Annotation ExtensionEvidenceWith/FromReference
metal ion binding743
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
cellular manganese ion homeostasis4
Annotation ExtensionEvidenceWith/FromReference
manganese ion transmembrane transport4
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
endoplasmic reticulum596
Annotation ExtensionEvidenceWith/FromReference
integral component of endoplasmic reticulum membrane68
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term NameAlleleExpressionCount
sensitive to 5-fluorouracilpdt1ΔNull271
sensitive to cadmiumpdt1ΔNull246
sensitive to salt stresspdt1ΔNull91
viable vegetative cell populationpdt1ΔNull3809

Cell Phenotype

Term NameAlleleExpressionCount
viable vegetative cell, abnormal cell shape, normal cell sizepdt1ΔNull215
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons4330993..4333166
mRNA4330993..4333166
5' UTR4330993..4331338PMID:21511999
CDS4331339..4332904
3' UTR4332905..4333166PMID: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
PF01566 Pfam IPR001046 NRAMP family 92 469 1
TMhelix TMHMM 438 460 959
TMhelix TMHMM 321 343 959
TMhelix TMHMM 149 171 959
TMhelix TMHMM 67 86 959
TMhelix TMHMM 495 517 959
TMhelix TMHMM 412 434 959
TMhelix TMHMM 256 278 959
TMhelix TMHMM 175 197 959
TMhelix TMHMM 214 236 959
TMhelix TMHMM 106 128 959
TMhelix TMHMM 369 391 959
PTHR11706:SF33 HMMPANTHER 20 521 1
PTHR11706 HMMPANTHER IPR001046 NRAMP family 20 521 1
MF_00221 hamap IPR001046 NRAMP family 54 516 1
PR00447 PRINTS IPR001046 NRAMP family 208 229 1
PR00447 PRINTS IPR001046 NRAMP family 382 401 1
PR00447 PRINTS IPR001046 NRAMP family 410 427 1
PR00447 PRINTS IPR001046 NRAMP family 442 461 1
PR00447 PRINTS IPR001046 NRAMP family 178 197 1
PR00447 PRINTS IPR001046 NRAMP family 260 283 1
PR00447 PRINTS IPR001046 NRAMP family 150 176 1
TIGR01197 tigrfam IPR001046 NRAMP family 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 NameResidueCount
O-phospho-L-serine 1672
present during mitotic M phaseS19
present during mitotic M phaseS16
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence S16 PMID:21712547
present during mitotic M phase experimental evidence S19 PMID:21712547
O-phospho-L-threonine 698
present during mitotic M phaseT43
present during mitotic M phaseT39
present during mitotic M phaseT27
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence T27 PMID:21712547
present during mitotic M phase experimental evidence T39 PMID:21712547
present during mitotic M phase experimental evidence T43 PMID:21712547
phosphorylated residue 1927
Annotation ExtensionEvidenceResidueReference
IDA PMID:19547744
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 fungi4603
conserved in eukaryotes4514
conserved in bacteria1001
conserved in metazoa3424
conserved in vertebrates3399
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
negative genetic interaction withash2Ash2-trithorax family protein Negative GeneticPMID:22681890
positive genetic interaction withatp11mitochondrial F1-ATPase chaperone Atp11 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withccr4CCR4-Not complex subunit Ccr4 (predicted) Negative GeneticPMID:22681890
positive genetic interaction witherg5C-22 sterol desaturase Erg5 Positive GeneticPMID:22681890
negative genetic interaction withgma12alpha-1,2-galactosyltransferase Gma12 Negative GeneticPMID:22681890
negative genetic interaction withlsk1P-TEFb-associated cyclin-dependent protein kinase Lsk1 Negative GeneticPMID:22681890
positive genetic interaction withmid1medial ring protein Mid1 Positive GeneticPMID:22681890
negative genetic interaction withmpr1histidine-containing response regulator phosphotransferase Mpr1 Negative GeneticPMID:22681890
negative genetic interaction withpar1protein phosphatase regulatory subunit Par1 Negative GeneticPMID:22681890
enhances phenotype ofpmr1P-type ATPase, calcium transporting Pmr1 Phenotypic EnhancementPMID:14723709
overexpression rescuespmr1P-type ATPase, calcium transporting Pmr1 Dosage RescuePMID:14723709
negative genetic interaction withpom1DYRK family protein kinase Pom1 Negative GeneticPMID:22681890
negative genetic interaction withppa2serine/threonine protein phosphatase Ppa2 Negative GeneticPMID:22681890
positive genetic interaction withppk14serine/threonine protein kinase Ppk14 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withpyp1tyrosine phosphatase Pyp1 Negative GeneticPMID:22681890
positive genetic interaction withres1MBF transcription factor complex subunit Res1 Positive GeneticPMID:22681890
negative genetic interaction withsif1Sad1 interacting factor 1 Negative GeneticPMID:22681890
negative genetic interaction withsnf5SWI/SNF complex subunit Snf5 Negative GeneticPMID:22681890
negative genetic interaction withspa2cell polarity protein Spa2 Negative GeneticPMID:22681890
positive genetic interaction withSPAC1A6.03cphospholipase (predicted) Positive GeneticPMID:22681890
positive genetic interaction withSPAC732.02cfructose-2,6-bisphosphate 2-phosphatase activity (predicted) Positive GeneticPMID:22681890
negative genetic interaction withSPBC16H5.13WD repeat protein, human WDR7 ortholog Negative GeneticPMID:22681890
negative genetic interaction withSPBC56F2.08cRNA-binding protein (predicted) Negative GeneticPMID:22681890
positive genetic interaction withSPCC1223.01ubiquitin-protein ligase E3 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withste20Rictor homolog, Ste20 Negative GeneticPMID:22681890
positive genetic interaction withsts5RNB-like protein Positive GeneticPMID:22681890
positive genetic interaction withtom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withtor1phosphatidylinositol kinase Tor1 Negative GeneticPMID:22681890
positive genetic interaction withtrm10tRNA m(1)G methyltransferase Trm10 Positive GeneticPMID:22681890
negative genetic interaction withubp8SAGA complex ubiquitin C-terminal hydrolase Ubp8 Negative GeneticPMID:22681890
negative genetic interaction withuch2ubiquitin C-terminal hydrolase Uch2 Negative GeneticPMID:22681890
negative genetic interaction withvph2endoplasmic reticulum membrane protein involved in assembly of the V-ATPase (predicted) Negative GeneticPMID:22681890
negative genetic interaction withvps17retromer complex subunit Vps17 Negative GeneticPMID:22681890
negative genetic interaction withvps35retromer complex subunit Vps35 Negative GeneticPMID:22681890
negative genetic interaction withvps5retromer complex subunit Vps5 Negative GeneticPMID:22681890
negative genetic interaction withynd1nucleoside diphosphatase Ynd1 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)
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
SYSGRO SPAC27F1.08 Fission yeast phenotypic data & analysis
Cyclebase SPAC27F1.08.1 Cell Cycle Data
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:26_53 - 27 May 2015