SPAPB2B4.04c


Gene Standard NameUnassigned Characterisation Statuspublished
Systematic IDSPAPB2B4.04c Feature Typeprotein coding
Synonymspmc1 Name Description
Productvacuolar calcium transporting P-type ATPase P2 type, Pmc1 Product Size1292aa, 142.24 kDa
Genomic Location Chromosome I, 2718444-2712704 (5741nt); CDS:2716931-2713053 (3879nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005524ATP bindingIEAUniProtKB-KW:KW-0067GO_REF:0000037559
GO:0005509calcium ion bindingISMIPR006408GO_REF:000000152
GO:0005388calcium-transporting ATPase activityISOSGD:S000002974GO_REF:00000246
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0070588calcium ion transmembrane transportISOSGD:S000002974GO_REF:000002411
GO:0006816calcium ion transportISOSGD:S000002974GO_REF:000002414
GO:0006874cellular calcium ion homeostasisIMPPMID:1692895914
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0071627integral component of fungal-type vacuolar membraneIDAPMID:154702406
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001020normal cell population growth on calcium ionCell growth assaySPAPB2B4.04cΔNullPECO:0000114PMID:154702402
FYPO:0001420normal vegetative cell population growth rateCell growth assaySPAPB2B4.04cΔNullPECO:0000080, PECO:0000005PMID:1916898829
FYPO:0000098sensitive to calciumCell growth assaySPAPB2B4.04cΔNullPECO:0000126PMID:154702406
expressivity FYPO_EXT:0000003Cell growth assaySPAPB2B4.04cΔNullPECO:0000005PMID:19168988
Cell growth assaySPAPB2B4.04cΔNullPECO:0000137PMID:15470240
FYPO:0002060viable vegetative cell populationMicroscopySPAPB2B4.04cΔNullPECO:0000005, PECO:0000137PMID:236978063755
Cell growth assaySPAPB2B4.04cΔNullPECO:0000137PMID:15470240
MicroscopySPAPB2B4.04cΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002177viable vegetative cell with normal cell morphologyMicroscopySPAPB2B4.04cΔNullPECO:0000005, PECO:0000137PMID:236978063078
penetrance FYPO_EXT:0000001
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
127184442712704

UTRs

Region Start End Reference
three_prime_UTR27130522712704PMID:21511999
five_prime_UTR27184442716932PMID: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
PF00689 Pfam IPR006068 Cation-transporting P-type ATPase, C-terminal 966 1137 3
PF00690 Pfam IPR004014 Cation-transporting P-type ATPase, N-terminal 207 248 6
PF00702 Pfam IPR023214 HAD-like domain 541 893 15
PF00122 Pfam IPR008250 P-type ATPase, A domain 282 535 14
SM00831 SMART IPR004014 Cation-transporting P-type ATPase, N-terminal 140 253 5
TMhelix TMHMM 490 512 959
TMhelix TMHMM 939 961 959
TMhelix TMHMM 274 296 959
TMhelix TMHMM 448 470 959
TMhelix TMHMM 1118 1136 959
TMhelix TMHMM 1018 1040 959
TMhelix TMHMM 1086 1108 959
TMhelix TMHMM 237 259 959
PS00154 Prosite Patterns IPR018303 Cation-transporting P-type ATPase 545 551 14
PTHR24093 HMMPANTHER 26 1178 9
PTHR24093:SF10 HMMPANTHER 26 1178 1
G3DSA:3.40.1110.10 Gene3D IPR023299 533 784 13
G3DSA:1.20.1110.10 Gene3D IPR023298 858 1143 5
G3DSA:1.20.1110.10 Gene3D IPR023298 354 431 5
SSF81653 SuperFamily 315 424 14
SSF81665 SuperFamily 144 170 14
SSF81665 SuperFamily 929 1144 14
SSF81665 SuperFamily 212 313 14
SSF81665 SuperFamily 429 537 14
SSF81660 SuperFamily IPR023299 552 784 11
SSF56784 SuperFamily IPR023214 542 561 41
SSF56784 SuperFamily IPR023214 720 986 41
Low complexity (SEG) seg 43 60
Low complexity (SEG) seg 237 251
Low complexity (SEG) seg 277 295
Low complexity (SEG) seg 329 340
Low complexity (SEG) seg 459 472
Low complexity (SEG) seg 981 995
PR00119 PRINTS IPR001757 Cation-transporting P-type ATPase 543 557 14
PR00119 PRINTS IPR001757 Cation-transporting P-type ATPase 777 788 14
PR00119 PRINTS IPR001757 Cation-transporting P-type ATPase 799 809 14
PR00119 PRINTS IPR001757 Cation-transporting P-type ATPase 903 915 14
PR00119 PRINTS IPR001757 Cation-transporting P-type ATPase 361 375 14
PR00119 PRINTS IPR001757 Cation-transporting P-type ATPase 879 898 14
TIGR01494 tigrfam IPR001757 Cation-transporting P-type ATPase 479 559 14
TIGR01494 tigrfam IPR001757 Cation-transporting P-type ATPase 846 961 14
TIGR01517 tigrfam IPR006408 Calcium-transporting P-type ATPase, subfamily IIB 605 1141 1

View domain organization at Pfam

Sequence Ontology

Term IDTerm NameReferenceCount
SO:0001812transmembrane_helix465

Protein Properties

Ave. residue weight 110.09 Da
Charge -1.00
Isoelectric point 6.46
Molecular weight 142.24 kDa
Number of residues 1292
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00696phosphorylated residuePMID:195477441192
Sequence
Gene Expression

Qualitative Gene Expression

DescriptionLevelEvidenceReference
RNA levelincreased,
in presence of purvalanol A
expression microarray evidencePMID:22840777

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
1597.92during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
1686.07during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
2.2during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
1.5during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Disease Association
DescriptionQualifierReferenceCount
deafness3
Warning
DescriptionQualifierReferenceCount
gene name conflict19
Species Distribution
DescriptionQualifierReferenceCount
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
elp3elongator complex, histone acetyltransferase subunit Elp3 (predicted) Positive GeneticPMID:22681890
vps35retromer complex subunit Vps35 Positive GeneticPMID:22681890
plb1phospholipase B homolog Plb1 Negative GeneticPMID:22681890
set1histone lysine methyltransferase Set1 Positive GeneticPMID:22681890
ccr4CCR4-Not complex subunit Ccr4 (predicted) Positive GeneticPMID:22681890
prw1Clr6 histone deacetylase complex subunit Prw1 Positive GeneticPMID:22681890
pmr1P-type ATPase, calcium transporting Pmr1 Synthetic LethalityPMID:15470240
Dosage Rescue
prz1calcineurin responsive transcription factor Prz1 Negative GeneticPMID:22681890
vph2endoplasmic reticulum membrane protein involved in assembly of the V-ATPase (predicted) Negative GeneticPMID:22681890
hus1checkpoint clamp complex protein Hus1 Positive GeneticPMID:22681890
ask1DASH complex subunit Ask1 Negative GeneticPMID:22681890
par1protein phosphatase regulatory subunit Par1 Positive GeneticPMID:22681890
spc34DASH complex subunit Spc34 Negative GeneticPMID:22681890
ngg1SAGA complex subunit Ngg1 Positive GeneticPMID:22681890
ypa2protein phosphatase type 2A regulator, PTPA family Ypa2 Positive GeneticPMID:22681890
jmj2histone demethylase Jmj2 Positive GeneticPMID:22681890
res1MBF transcription factor complex subunit Res1 Positive GeneticPMID:22681890
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
hhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
crp79poly(A) binding protein Crp79 Affinity Capture-RNAPMID:20531409
External References
Database Identifier Description
NBRP SPAPB2B4.04c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAPB2B4.04c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAPB2B4.04c BioGRID Interaction Datasets
Expression Viewer SPAPB2B4.04c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAPB2B4.04c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAPB2B4.04c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAPB2B4.04c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAPB2B4.04c Polyadenylation Viewer (Gullerova lab)
pombeTV SPAPB2B4.04c Transcriptome Viewer (Bähler Lab)
Cyclebase SPAPB2B4.04c Cell Cycle Data
GEO SPAPB2B4.04c GEO profiles
PInt SPAPB2B4.04c Protein-Protein Interaction Predictor (Bähler Lab)
IntEnz3.6.3.8Integrated relational Enzyme database
Rhea3.6.3.8Annotated reactions database
WikiGene2543477vacuolar calcium transporting P-type ATPase, Pmc1
EntrezGene2543477vacuolar calcium transporting P-type ATPase, Pmc1
UniProtKB/SwissProtQ9HDW7Calcium-transporting ATPase 2
ModBaseQ9HDW7Database of comparative protein structure models
StringQ9HDW7Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_593890vacuolar calcium transporting P-type ATPase, Pmc1
RefSeq mRNANM_001019320972h- vacuolar calcium transporting P-type ATPase, Pmc1 (SPAPB2B4.04c), mRNA
European Nucleotide ArchiveBAA87254ENA Protein Mapping
European Nucleotide ArchiveCAC21470ENA Protein Mapping
UniParcUPI000006AEE7UniProt Archive

Literature for SPAPB2B4.04c

Search: Europe PMC or PubMed

Release Version: PomBase:21_41 - 24 Feb 2014