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Protein

Sphingosine-1-phosphate lyase 1

Gene

SGPL1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Cleaves phosphorylated sphingoid bases (PSBs), such as sphingosine-1-phosphate, into fatty aldehydes and phosphoethanolamine. Elevates stress-induced ceramide production and apoptosis.3 Publications

Catalytic activityi

Sphinganine 1-phosphate = phosphoethanolamine + palmitaldehyde.2 Publications

Cofactori

pyridoxal 5'-phosphate1 Publication

Kineticsi

  1. KM=5.2 µM for sphingosine 1-phosphate1 Publication

    Pathwayi: sphingolipid metabolism

    This protein is involved in the pathway sphingolipid metabolism, which is part of Lipid metabolism.2 Publications
    View all proteins of this organism that are known to be involved in the pathway sphingolipid metabolism and in Lipid metabolism.

    GO - Molecular functioni

    GO - Biological processi

    Complete GO annotation...

    Keywords - Molecular functioni

    Lyase

    Keywords - Biological processi

    Apoptosis, Lipid metabolism, Sphingolipid metabolism

    Keywords - Ligandi

    Pyridoxal phosphate

    Enzyme and pathway databases

    BioCyciZFISH:HS09357-MONOMER.
    BRENDAi4.1.2.27. 2681.
    ReactomeiR-HSA-1660661. Sphingolipid de novo biosynthesis.
    UniPathwayiUPA00222.

    Chemistry databases

    SwissLipidsiSLP:000000107.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Sphingosine-1-phosphate lyase 1Curated (EC:4.1.2.272 Publications)
    Short name:
    S1PLCurated
    Short name:
    SP-lyase 1Curated
    Short name:
    SPL 1Curated
    Short name:
    hSPL
    Alternative name(s):
    Sphingosine-1-phosphate aldolase
    Gene namesi
    Name:SGPL1Imported
    Synonyms:KIAA12521 Publication
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    Proteomesi
    • UP000005640 Componenti: Chromosome 10

    Organism-specific databases

    HGNCiHGNC:10817. SGPL1.

    Subcellular locationi

    Topology

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Topological domaini1 – 40LumenalSequence analysisAdd BLAST40
    Transmembranei41 – 61Helical; Signal-anchor for type III membrane proteinSequence analysisAdd BLAST21
    Topological domaini62 – 568CytoplasmicSequence analysisAdd BLAST507

    GO - Cellular componenti

    • endoplasmic reticulum Source: UniProtKB
    • endoplasmic reticulum membrane Source: Reactome
    • integral component of endoplasmic reticulum membrane Source: UniProtKB
    Complete GO annotation...

    Keywords - Cellular componenti

    Endoplasmic reticulum, Membrane

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Mutagenesisi218C → G: Loss of activity. 1 Publication1
    Mutagenesisi317C → S: Almost no activity. 1 Publication1
    Mutagenesisi353K → L: Loss of activity. 1 Publication1

    Organism-specific databases

    DisGeNETi8879.
    OpenTargetsiENSG00000166224.
    PharmGKBiPA35725.

    Chemistry databases

    ChEMBLiCHEMBL3286061.
    GuidetoPHARMACOLOGYi2522.

    Polymorphism and mutation databases

    BioMutaiSGPL1.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00001470121 – 568Sphingosine-1-phosphate lyase 1Add BLAST568

    Amino acid modifications

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Modified residuei353N6-(pyridoxal phosphate)lysine; alternate1
    Modified residuei353N6-acetyllysine; alternateCombined sources1
    Modified residuei356Nitrated tyrosineCombined sources1
    Modified residuei366Nitrated tyrosineCombined sources1
    Modified residuei564PhosphoserineCombined sources1

    Keywords - PTMi

    Acetylation, Nitration, Phosphoprotein

    Proteomic databases

    EPDiO95470.
    MaxQBiO95470.
    PaxDbiO95470.
    PeptideAtlasiO95470.
    PRIDEiO95470.

    PTM databases

    iPTMnetiO95470.
    PhosphoSitePlusiO95470.
    SwissPalmiO95470.

    Expressioni

    Tissue specificityi

    Found in liver and kidney.1 Publication

    Gene expression databases

    BgeeiENSG00000166224.
    CleanExiHS_SGPL1.
    ExpressionAtlasiO95470. baseline and differential.
    GenevisibleiO95470. HS.

    Organism-specific databases

    HPAiHPA021125.
    HPA023086.

    Interactioni

    Subunit structurei

    Homodimer.1 Publication

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    TMEM173Q86WV62EBI-1046170,EBI-2800345

    Protein-protein interaction databases

    BioGridi114398. 46 interactors.
    IntActiO95470. 15 interactors.
    STRINGi9606.ENSP00000362298.

    Chemistry databases

    BindingDBiO95470.

    Structurei

    Secondary structure

    1568
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Helixi123 – 134Combined sources12
    Helixi135 – 137Combined sources3
    Helixi139 – 142Combined sources4
    Beta strandi145 – 148Combined sources4
    Helixi154 – 165Combined sources12
    Turni166 – 169Combined sources4
    Turni175 – 177Combined sources3
    Helixi179 – 195Combined sources17
    Beta strandi203 – 209Combined sources7
    Helixi210 – 227Combined sources18
    Beta strandi234 – 238Combined sources5
    Helixi244 – 252Combined sources9
    Beta strandi255 – 259Combined sources5
    Beta strandi265 – 267Combined sources3
    Helixi269 – 273Combined sources5
    Beta strandi280 – 286Combined sources7
    Turni290 – 292Combined sources3
    Helixi298 – 308Combined sources11
    Beta strandi312 – 316Combined sources5
    Turni317 – 319Combined sources3
    Helixi320 – 323Combined sources4
    Turni324 – 330Combined sources7
    Beta strandi344 – 349Combined sources6
    Turni351 – 355Combined sources5
    Beta strandi362 – 368Combined sources7
    Helixi369 – 372Combined sources4
    Turni373 – 375Combined sources3
    Beta strandi377 – 381Combined sources5
    Beta strandi387 – 392Combined sources6
    Helixi398 – 434Combined sources37
    Beta strandi448 – 454Combined sources7
    Beta strandi456 – 458Combined sources3
    Helixi461 – 469Combined sources9
    Beta strandi475 – 477Combined sources3
    Turni478 – 481Combined sources4
    Beta strandi482 – 486Combined sources5
    Helixi489 – 494Combined sources6
    Helixi497 – 513Combined sources17
    Helixi521 – 531Combined sources11
    Helixi535 – 549Combined sources15

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    4Q6RX-ray2.40A/B62-568[»]
    ProteinModelPortaliO95470.
    SMRiO95470.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Keywords - Domaini

    Signal-anchor, Transmembrane, Transmembrane helix

    Phylogenomic databases

    eggNOGiKOG1383. Eukaryota.
    COG0076. LUCA.
    GeneTreeiENSGT00390000000046.
    HOGENOMiHOG000190693.
    HOVERGENiHBG056982.
    InParanoidiO95470.
    KOiK01634.
    OMAiACTLFHG.
    OrthoDBiEOG091G040L.
    PhylomeDBiO95470.
    TreeFamiTF300777.

    Family and domain databases

    Gene3Di3.40.640.10. 1 hit.
    InterProiIPR002129. PyrdxlP-dep_de-COase.
    IPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    [Graphical view]
    PfamiPF00282. Pyridoxal_deC. 1 hit.
    [Graphical view]
    SUPFAMiSSF53383. SSF53383. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    O95470-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MPSTDLLMLK AFEPYLEILE VYSTKAKNYV NGHCTKYEPW QLIAWSVVWT
    60 70 80 90 100
    LLIVWGYEFV FQPESLWSRF KKKCFKLTRK MPIIGRKIQD KLNKTKDDIS
    110 120 130 140 150
    KNMSFLKVDK EYVKALPSQG LSSSAVLEKL KEYSSMDAFW QEGRASGTVY
    160 170 180 190 200
    SGEEKLTELL VKAYGDFAWS NPLHPDIFPG LRKIEAEIVR IACSLFNGGP
    210 220 230 240 250
    DSCGCVTSGG TESILMACKA YRDLAFEKGI KTPEIVAPQS AHAAFNKAAS
    260 270 280 290 300
    YFGMKIVRVP LTKMMEVDVR AMRRAISRNT AMLVCSTPQF PHGVIDPVPE
    310 320 330 340 350
    VAKLAVKYKI PLHVDACLGG FLIVFMEKAG YPLEHPFDFR VKGVTSISAD
    360 370 380 390 400
    THKYGYAPKG SSLVLYSDKK YRNYQFFVDT DWQGGIYASP TIAGSRPGGI
    410 420 430 440 450
    SAACWAALMH FGENGYVEAT KQIIKTARFL KSELENIKGI FVFGNPQLSV
    460 470 480 490 500
    IALGSRDFDI YRLSNLMTAK GWNLNQLQFP PSIHFCITLL HARKRVAIQF
    510 520 530 540 550
    LKDIRESVTQ IMKNPKAKTT GMGAIYGMAQ TTVDRNMVAE LSSVFLDSLY
    560
    STDTVTQGSQ MNGSPKPH
    Length:568
    Mass (Da):63,524
    Last modified:October 24, 2003 - v3
    Checksum:i3B16FDEFC4B2FDB6
    GO

    Sequence cautioni

    The sequence BAA86566 differs from that shown. Reason: Erroneous initiation.Curated

    Experimental Info

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Sequence conflicti404C → A in CAA09590 (PubMed:11018465).Curated1

    Natural variant

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Natural variantiVAR_04887521V → L.Corresponds to variant rs12770335dbSNPEnsembl.1

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AJ011304 mRNA. Translation: CAA09590.2.
    AF144638 mRNA. Translation: AAD44755.1.
    AB033078 mRNA. Translation: BAA86566.1. Different initiation.
    AK314615 mRNA. Translation: BAG37181.1.
    CH471083 Genomic DNA. Translation: EAW54414.1.
    BC052991 mRNA. Translation: AAH52991.1.
    CCDSiCCDS31216.1.
    RefSeqiNP_003892.2. NM_003901.3.
    XP_005270320.1. XM_005270263.1.
    XP_011538618.1. XM_011540316.2.
    XP_011538619.1. XM_011540317.1.
    UniGeneiHs.499984.

    Genome annotation databases

    EnsembliENST00000373202; ENSP00000362298; ENSG00000166224.
    GeneIDi8879.
    KEGGihsa:8879.
    UCSCiuc001jrm.4. human.

    Keywords - Coding sequence diversityi

    Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AJ011304 mRNA. Translation: CAA09590.2.
    AF144638 mRNA. Translation: AAD44755.1.
    AB033078 mRNA. Translation: BAA86566.1. Different initiation.
    AK314615 mRNA. Translation: BAG37181.1.
    CH471083 Genomic DNA. Translation: EAW54414.1.
    BC052991 mRNA. Translation: AAH52991.1.
    CCDSiCCDS31216.1.
    RefSeqiNP_003892.2. NM_003901.3.
    XP_005270320.1. XM_005270263.1.
    XP_011538618.1. XM_011540316.2.
    XP_011538619.1. XM_011540317.1.
    UniGeneiHs.499984.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    4Q6RX-ray2.40A/B62-568[»]
    ProteinModelPortaliO95470.
    SMRiO95470.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    BioGridi114398. 46 interactors.
    IntActiO95470. 15 interactors.
    STRINGi9606.ENSP00000362298.

    Chemistry databases

    BindingDBiO95470.
    ChEMBLiCHEMBL3286061.
    GuidetoPHARMACOLOGYi2522.
    SwissLipidsiSLP:000000107.

    PTM databases

    iPTMnetiO95470.
    PhosphoSitePlusiO95470.
    SwissPalmiO95470.

    Polymorphism and mutation databases

    BioMutaiSGPL1.

    Proteomic databases

    EPDiO95470.
    MaxQBiO95470.
    PaxDbiO95470.
    PeptideAtlasiO95470.
    PRIDEiO95470.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsembliENST00000373202; ENSP00000362298; ENSG00000166224.
    GeneIDi8879.
    KEGGihsa:8879.
    UCSCiuc001jrm.4. human.

    Organism-specific databases

    CTDi8879.
    DisGeNETi8879.
    GeneCardsiSGPL1.
    HGNCiHGNC:10817. SGPL1.
    HPAiHPA021125.
    HPA023086.
    MIMi603729. gene.
    neXtProtiNX_O95470.
    OpenTargetsiENSG00000166224.
    PharmGKBiPA35725.
    HUGEiSearch...
    GenAtlasiSearch...

    Phylogenomic databases

    eggNOGiKOG1383. Eukaryota.
    COG0076. LUCA.
    GeneTreeiENSGT00390000000046.
    HOGENOMiHOG000190693.
    HOVERGENiHBG056982.
    InParanoidiO95470.
    KOiK01634.
    OMAiACTLFHG.
    OrthoDBiEOG091G040L.
    PhylomeDBiO95470.
    TreeFamiTF300777.

    Enzyme and pathway databases

    UniPathwayiUPA00222.
    BioCyciZFISH:HS09357-MONOMER.
    BRENDAi4.1.2.27. 2681.
    ReactomeiR-HSA-1660661. Sphingolipid de novo biosynthesis.

    Miscellaneous databases

    ChiTaRSiSGPL1. human.
    GeneWikiiSGPL1.
    GenomeRNAii8879.
    PROiO95470.
    SOURCEiSearch...

    Gene expression databases

    BgeeiENSG00000166224.
    CleanExiHS_SGPL1.
    ExpressionAtlasiO95470. baseline and differential.
    GenevisibleiO95470. HS.

    Family and domain databases

    Gene3Di3.40.640.10. 1 hit.
    InterProiIPR002129. PyrdxlP-dep_de-COase.
    IPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    [Graphical view]
    PfamiPF00282. Pyridoxal_deC. 1 hit.
    [Graphical view]
    SUPFAMiSSF53383. SSF53383. 1 hit.
    ProtoNetiSearch...

    Entry informationi

    Entry nameiSGPL1_HUMAN
    AccessioniPrimary (citable) accession number: O95470
    Secondary accession number(s): B2RBD4
    , Q7Z732, Q9ULG8, Q9UN89
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 24, 2003
    Last sequence update: October 24, 2003
    Last modified: November 2, 2016
    This is version 143 of the entry and version 3 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Human chromosome 10
      Human chromosome 10: entries, gene names and cross-references to MIM
    2. Human entries with polymorphisms or disease mutations
      List of human entries with polymorphisms or disease mutations
    3. Human polymorphisms and disease mutations
      Index of human polymorphisms and disease mutations
    4. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    5. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    6. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    7. SIMILARITY comments
      Index of protein domains and families

    Similar proteinsi

    Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
    100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
    90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
    50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.