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Entry version 140 (13 Feb 2019)
Sequence version 2 (01 Jun 1994)
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Protein

Dihydrosphingosine 1-phosphate phosphatase YSR3

Gene

YSR3

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score:

Annotation score:4 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Protein inferred from homologyi <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Dihydrosphingosine 1-phosphate phosphatase required for efficient ceramide synthesis from exogenous sphingoid bases. Involved in endocytosis and calcium-mediated signaling.5 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Function’ section is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei161Proton donorBy similarity1
Active sitei211NucleophileBy similarity1
<p>This subsection describes interesting single amino acid sites on the sequence that are not defined in any other subsection. This subsection can be displayed in different sections (‘Function’, ‘PTM / Processing’, ‘Pathology and Biotech’) according to its content.<p><a href='/help/site' target='_top'>More...</a></p>Sitei215Stabilizes the active site histidine for nucleophilic attackBy similarity1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

  • sphingosine-1-phosphate phosphatase activity Source: SGD

GO - Biological processi

  • phospholipid dephosphorylation Source: SGD
  • sphingolipid biosynthetic process Source: SGD

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionHydrolase
Biological processLipid metabolism, Sphingolipid metabolism

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
MetaCyc:YKR053C-MONOMER
YEAST:YKR053C-MONOMER

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-SCE-1660661 Sphingolipid de novo biosynthesis

Chemistry databases

SwissLipids knowledge resource for lipid biology

More...
SwissLipidsi
SLP:000000933

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Dihydrosphingosine 1-phosphate phosphatase YSR3 (EC:3.1.3.-)
Alternative name(s):
Long-chain base protein 2
Sphingolipid resistance protein 3
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:YSR3
Synonyms:LBP2
Ordered Locus Names:YKR053C
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri559292 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000002311 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome XI

Organism-specific databases

Eukaryotic Pathogen Database Resources

More...
EuPathDBi
FungiDB:YKR053C

Saccharomyces Genome Database

More...
SGDi
S000001761 YSR3

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular_location_section">'Subcellular location'</a> section describes the subcellular compartment where each non-membrane region of a membrane-spanning protein is found.<p><a href='/help/topo_dom' target='_top'>More...</a></p>Topological domaini1 – 86LumenalBy similarityAdd BLAST86
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular_location_section">'Subcellular location'</a> section describes the extent of a membrane-spanning region of the protein. It denotes the presence of both alpha-helical transmembrane regions and the membrane spanning regions of beta-barrel transmembrane proteins.<p><a href='/help/transmem' target='_top'>More...</a></p>Transmembranei87 – 107Helical; Name=1Sequence analysisAdd BLAST21
Topological domaini108 – 113CytoplasmicBy similarity6
Transmembranei114 – 134Helical; Name=2Sequence analysisAdd BLAST21
Topological domaini135 – 154LumenalBy similarityAdd BLAST20
Transmembranei155 – 176Helical; Name=3Sequence analysisAdd BLAST22
Topological domaini177 – 182CytoplasmicBy similarity6
Transmembranei183 – 203Helical; Name=4Sequence analysisAdd BLAST21
Topological domaini204 – 215LumenalBy similarityAdd BLAST12
Transmembranei216 – 236Helical; Name=5Sequence analysisAdd BLAST21
Topological domaini237 – 241CytoplasmicBy similarity5
Transmembranei242 – 262Helical; Name=6Sequence analysisAdd BLAST21
Topological domaini263 – 319LumenalBy similarityAdd BLAST57
Transmembranei320 – 340Helical; Name=7Sequence analysisAdd BLAST21
Topological domaini341 – 379CytoplasmicBy similarityAdd BLAST39
Transmembranei380 – 400Helical; Name=8Sequence analysisAdd BLAST21
Topological domaini401 – 404LumenalBy similarity4

Keywords - Cellular componenti

Endoplasmic reticulum, Membrane

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘PTM / Processing’ section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002032161 – 404Dihydrosphingosine 1-phosphate phosphatase YSR3Add BLAST404

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/ptm_processing_section">PTM / Processing</a> section specifies the position and type of each covalently attached glycan group (mono-, di-, or polysaccharide).<p><a href='/help/carbohyd' target='_top'>More...</a></p>Glycosylationi62N-linked (GlcNAc...) asparagineSequence analysis1

Keywords - PTMi

Glycoprotein

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
P23501

PRoteomics IDEntifications database

More...
PRIDEi
P23501

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...
BioGridi
34184, 138 interactors

Database of interacting proteins

More...
DIPi
DIP-5258N

Protein interaction database and analysis system

More...
IntActi
P23501, 1 interactor

STRING: functional protein association networks

More...
STRINGi
4932.YKR053C

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

Protein Model Portal of the PSI-Nature Structural Biology Knowledgebase

More...
ProteinModelPortali
P23501

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and Domains’ section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni129 – 137Phosphatase sequence motif ICurated9
Regioni158 – 161Phosphatase sequence motif IICurated4
Regioni204 – 215Phosphatase sequence motif IIICuratedAdd BLAST12

<p>This subsection of the ‘Family and domains’ section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

Ensembl GeneTree

More...
GeneTreei
ENSGT00660000096503

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000066080

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P23501

KEGG Orthology (KO)

More...
KOi
K04717

Identification of Orthologs from Complete Genome Data

More...
OMAi
WVLVMYV

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR036938 P_Acid_Pase_2/haloperoxi_sf
IPR000326 P_Acid_Pase_2/haloperoxidase

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01569 PAP2, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00014 acidPPc, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF48317 SSF48317, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>.<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

P23501-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MTIIQTVTEL GVTEDTIKVQ MAPSGGKHLL ADPGNHPAEH FESQMSWLRF
60 70 80 90 100
QTRQYLTRFT DNQSDFVHSL QKKHRTPFRD VYFKYTSLMG SHMFYVIVLP
110 120 130 140 150
MPVWLGYRDL TRDMIYVLGY SIYLSGYLKD YWCLPRPKSP PVDRITLSEY
160 170 180 190 200
TTKEYGAPSS HSANATAVSL LFFWRICLSD TLVWPTKLLL LSLVIFYYLT
210 220 230 240 250
LVFGRVYCGM HGMLDLFSGA AVGAICFFIR IWVVHALRNF QIGEHLWFPL
260 270 280 290 300
LSVAWGLFIL FNHVRPIDEC PCFEDSVAFI GVVSGLDCSD WLTERYGWNL
310 320 330 340 350
VCSRYASCGS KVFLRPLVGV ASVIVWKDVI SKTAVYTLLI KLLRFHDDRS
360 370 380 390 400
EKVHFHNETS EEEECLLYSG VSKVEIVGRF LIYAGIPTTV FLLCPVFFTW

TNLR
Length:404
Mass (Da):46,488
Last modified:June 1, 1994 - v2
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i0CDB272FBF868BF8
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
Z28278 Genomic DNA Translation: CAA82131.1
X56444 Genomic DNA Translation: CAA39827.1
BK006944 Genomic DNA Translation: DAA09204.1

Protein sequence database of the Protein Information Resource

More...
PIRi
S38127

NCBI Reference Sequences

More...
RefSeqi
NP_012979.3, NM_001179843.3

Genome annotation databases

Ensembl fungal genome annotation project

More...
EnsemblFungii
YKR053C_mRNA; YKR053C_mRNA; YKR053C

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
853927

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
sce:YKR053C

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z28278 Genomic DNA Translation: CAA82131.1
X56444 Genomic DNA Translation: CAA39827.1
BK006944 Genomic DNA Translation: DAA09204.1
PIRiS38127
RefSeqiNP_012979.3, NM_001179843.3

3D structure databases

ProteinModelPortaliP23501
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi34184, 138 interactors
DIPiDIP-5258N
IntActiP23501, 1 interactor
STRINGi4932.YKR053C

Chemistry databases

SwissLipidsiSLP:000000933

Proteomic databases

PaxDbiP23501
PRIDEiP23501

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYKR053C_mRNA; YKR053C_mRNA; YKR053C
GeneIDi853927
KEGGisce:YKR053C

Organism-specific databases

EuPathDBiFungiDB:YKR053C
SGDiS000001761 YSR3

Phylogenomic databases

GeneTreeiENSGT00660000096503
HOGENOMiHOG000066080
InParanoidiP23501
KOiK04717
OMAiWVLVMYV

Enzyme and pathway databases

BioCyciMetaCyc:YKR053C-MONOMER
YEAST:YKR053C-MONOMER
ReactomeiR-SCE-1660661 Sphingolipid de novo biosynthesis

Miscellaneous databases

Protein Ontology

More...
PROi
PR:P23501

Family and domain databases

InterProiView protein in InterPro
IPR036938 P_Acid_Pase_2/haloperoxi_sf
IPR000326 P_Acid_Pase_2/haloperoxidase
PfamiView protein in Pfam
PF01569 PAP2, 1 hit
SMARTiView protein in SMART
SM00014 acidPPc, 1 hit
SUPFAMiSSF48317 SSF48317, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiDS1P2_YEAST
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P23501
Secondary accession number(s): D6VXB4
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1991
Last sequence update: June 1, 1994
Last modified: February 13, 2019
This is version 140 of the entry and version 2 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  2. Yeast chromosome XI
    Yeast (Saccharomyces cerevisiae) chromosome XI: entries and gene names
  3. SIMILARITY comments
    Index of protein domains and families
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