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    syd-2 Liprin-alpha [ Caenorhabditis elegans ]

    Gene ID: 181255, updated on 9-Dec-2024

    Summary

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    Official Symbol
    syd-2
    Official Full Name
    Liprin-alpha
    Primary source
    WormBase:WBGene00006364
    Locus tag
    CELE_F59F5.6
    See related
    AllianceGenome:WB:WBGene00006364
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Caenorhabditis elegans (strain: Bristol N2)
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
    Summary
    Enables several functions, including cytoskeletal motor activator activity; kinesin binding activity; and protein homodimerization activity. Involved in several processes, including anterograde synaptic vesicle transport; egg-laying behavior; and positive regulation of anterograde synaptic vesicle transport. Located in axon; cytoplasm; and presynaptic active zone dense projection. Is expressed in several structures, including excretory gland cell; nervous system; pharyngeal gland cell; rectal gland cell; and uv1. Orthologous to several human genes including PPFIA3 (PTPRF interacting protein alpha 3). [provided by Alliance of Genome Resources, Dec 2024]
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    Genomic context

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    See syd-2 in Genome Data Viewer
    Location:
    chromosome: X
    Exon count:
    21
    Sequence:
    Chromosome: X; NC_003284.9 (10549108..10555239, complement)

    Chromosome X - NC_003284.9Genomic Context describing neighboring genes Neighboring gene Nematode cuticle collagen N-terminal domain-containing protein Neighboring gene Uncharacterized protein Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003284.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Identification of genes involved in synaptogenesis using a fluorescent active zone marker in Caenorhabditis elegans. Yeh E, et al. J Neurosci, 2005 Apr 13. PMID 15829635, Free PMC Article
    2. Sentryn Acts with a Subset of Active Zone Proteins To Optimize the Localization of Synaptic Vesicles in Caenorhabditis elegans. Edwards SL, et al. Genetics, 2018 Nov. PMID 30401765, Free PMC Article
    3. Screening for genetic loci affecting the active zone formation in C. elegans. Wang DY, et al. Neurosci Bull, 2006 Sep. PMID 17690731
    4. SYD-2 Liprin-alpha organizes presynaptic active zone formation through ELKS. Dai Y, et al. Nat Neurosci, 2006 Dec. PMID 17115037
    5. The presynaptic dense projection of the Caenorhabditis elegans cholinergic neuromuscular junction localizes synaptic vesicles at the active zone through SYD-2/liprin and UNC-10/RIM-dependent interactions. Stigloher C, et al. J Neurosci, 2011 Mar 23. PMID 21430140, Free PMC Article

    See all (81) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. PTP-3 phosphatase promotes intramolecular folding of SYD-2 to inactivate kinesin-3 UNC-104 in neurons.
      Title: PTP-3 phosphatase promotes intramolecular folding of SYD-2 to inactivate kinesin-3 UNC-104 in neurons.
    2. Data reveal a new and unprecedented role for 2 synapse assembly proteins, SAD-1 and SYD-2, in mediating UNC-16's organelle transport regulatory function.
      Title: UNC-16 (JIP3) Acts Through Synapse-Assembly Proteins to Inhibit the Active Transport of Cell Soma Organelles to Caenorhabditis elegans Motor Neuron Axons.
    3. N-terminal CC domains are responsible for the synaptogenic activity of SYD-2.
      Title: Intramolecular regulation of presynaptic scaffold protein SYD-2/liprin-α.
    4. A main role of SYD-2/Liprin-alpha in synaptogenesis is to regulate the polymerization of DPs.
      Title: Liprin-α/SYD-2 determines the size of dense projections in presynaptic active zones in C. elegans.
    5. tudy shows that SYD-2 promotes bi-directional mobility of DCVs and identifies SYD-2 as a novel regulator of DCV trafficking and polarized distribution
      Title: The scaffolding protein SYD-2/Liprin-α regulates the mobility and polarized distribution of dense-core vesicles in C. elegans motor neurons.
    6. putative UNC-104 interactors, namely UNC-16(JIP3), DNC-1(DCTN1/Glued) and SYD-2(Liprin-alpha), inherit different functions in steering UNC-104 to specific sub-cellular locations in the neuron
      Title: Sub-cellular distribution of UNC-104(KIF1A) upon binding to adaptors as UNC-16(JIP3), DNC-1(DCTN1/Glued) and SYD-2(Liprin-α) in C. elegans neurons.
    7. we propose that the dense projection ensures proper coupling of primed vesicles with calcium signaling by retaining them at the active zone via UNC-10 and SYD-2 dependent mechanisms
      Title: The presynaptic dense projection of the Caenorhabditis elegans cholinergic neuromuscular junction localizes synaptic vesicles at the active zone through SYD-2/liprin and UNC-10/RIM-dependent interactions.
    8. UNC-104 forms SYD-2-dependent axonal clusters (appearing during the transition from L2 to L3 larval stages), which behave in FRAP experiments as dynamic aggregates.
      Title: Synaptic scaffolding protein SYD-2 clusters and activates kinesin-3 UNC-104 in C. elegans.
    9. SYD-2, SYD-1 and UNC-10 were found essential for presynaptic site active zone assembly at synapses
      Title: The Yin and Yang of synaptic active zone assembly.
    10. Loss of function in C. elegans syd-2 Liprin-alpha alters the size of presynaptic specializations and disrupts synaptic vesicle accumulationA missense mutation in the coiled-coil domain of SYD-2 causes a gain of function.
      Title: SYD-2 Liprin-alpha organizes presynaptic active zone formation through ELKS.
    Submit: New GeneRIF Correction See all GeneRIFs (11)

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by WormBase

    Function Evidence Code Pubs
    enables cytoskeletal motor activator activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables kinesin binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein homodimerization activity IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables signaling receptor complex adaptor activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in anterograde synaptic vesicle transport IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in axo-dendritic transport IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in egg-laying behavior IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in locomotion IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in locomotory behavior IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in neuromuscular synaptic transmission IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in positive regulation of anterograde synaptic vesicle transport IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in positive regulation of anterograde synaptic vesicle transport IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of presynapse assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in protein localization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in receptor clustering ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    involved_in regulation of synapse organization IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in regulation of synapse structure or activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in synapse organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in synapse organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in synaptic vesicle transport IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in axon IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in axon cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in neuron projection IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in presynaptic active zone IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in presynaptic active zone IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in presynaptic active zone dense projection IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in synapse IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    Liprin-alpha
    NP_509768.1
    • Confirmed by transcript evidence

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_003284.9 Reference assembly

      Range
      10549108..10555239 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_077367.10 → NP_509768.1  Liprin-alpha [Caenorhabditis elegans]

      See identical proteins and their annotated locations for NP_509768.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q21049
      Conserved Domains (6) summary
      cd09562
      Location:864 → 934
      SAM_liprin-alpha1,2,3,4_repeat1; SAM domain of liprin-alpha1,2,3,4 proteins repeat 1
      cd09565
      Location:951 → 1016
      SAM_liprin-alpha1,2,3,4_repeat2; SAM domain of liprin-alpha1,2,3,4 proteins repeat 2
      cd09568
      Location:1036 → 1107
      SAM_liprin-alpha1,2,3,4_repeat3; SAM domain of liprin-alpha1,2,3,4 proteins repeat 3
      smart00454
      Location:864 → 930
      SAM; Sterile alpha motif
      cl00264
      Location:667 → 728
      Ferritin_like; Ferritin-like superfamily of diiron-containing four-helix-bundle proteins
      cl12013
      Location:323 → 474
      BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q21049.1

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