syg-2 Nephrin;Synaptogenesis protein syg-2 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: syg-2
Official Full Name: Nephrin;Synaptogenesis protein syg-2
Primary source: WormBase:WBGene00007750
Locus tag: CELE_C26G2.1
See related: AllianceGenome:WB:WBGene00007750
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 cell adhesion molecule binding activity and protein homodimerization activity. Involved in cell-cell signaling; nervous system development; and protein localization to synapse. Predicted to be located in membrane and synapse. Predicted to be active in cell-cell junction and plasma membrane. Is expressed in several structures, including P6.p hermaphrodite; P6.pa; P6.paa; egg-laying apparatus; and neurons. Used to study nephrotic syndrome. Human ortholog(s) of this gene implicated in nephrotic syndrome type 1. Orthologous to human NPHS1 (NPHS1 adhesion molecule, nephrin). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See syg-2 in Genome Data Viewer

Location:: chromosome: X

Exon count:: 23

Sequence:: Chromosome: X; NC_003284.9 (14654968..14662865)

Chromosome X - NC_003284.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003284.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Through a series of biochemical, biophysical, and in vivo functional experiments, study finds that the extracellular affinity, docking geometry, and rigidity of the SYG-1 and SYG-2 ectodomains play crucial roles in specifying a functional synaptic architecture in C. elegans.
Title: Extracellular architecture of the SYG-1/SYG-2 adhesion complex instructs synaptogenesis.
Data show that the nephrin/Neph1 orthologs SYG-2 and SYG-1 form intercellular contacts strictly in trans between epithelial guidepost cells and neurons specifying the localization of synapses.
Title: Functional and spatial analysis of C. elegans SYG-1 and SYG-2, orthologs of the Neph/nephrin cell adhesion module directing selective synaptogenesis.

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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

C26G2.1 (e-PCR)
- UniSTS:306887

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables cell adhesion molecule binding	IBA Inferred from Biological aspect of Ancestor more info
enables cell adhesion molecule 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

Process	Evidence Code	Pubs
involved_in cell adhesion	IEA Inferred from Electronic Annotation more info
involved_in cell-cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell-cell signaling	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in collateral sprouting	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in nervous system development	IEA Inferred from Electronic Annotation more info
involved_in protein localization to synapse	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in synapse assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in synapse organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in synaptic target recognition	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in cell-cell junction	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISS Inferred from Sequence or Structural Similarity more info	PubMed
located_in synapse	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Nephrin;Synaptogenesis protein syg-2

NP_001309467.1

Confirmed by transcript evidence

NP_001309674.1

Confirmed by transcript evidence

NP_001309675.1

Confirmed by transcript evidence

NP_001309676.1

Confirmed by transcript evidence

NP_001309677.1

Confirmed by transcript evidence

NP_001309678.1

Confirmed by transcript evidence

NP_001380194.1

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

NC_003284.9 Reference assembly

Range

14654968..14662865

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001322664.3 → NP_001309467.1 Synaptogenesis protein syg-2 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/Swiss-Prot

Q9U3P2

Conserved Domains (5) summary

smart00408
Location:743 → 804

IGc2; Immunoglobulin C-2 Type

smart00410
Location:735 → 815

IG_like; Immunoglobulin like

cd00063
Location:921 → 1010

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:644 → 725

I-set; Immunoglobulin I-set domain

cl11960
Location:147 → 228

Ig; Immunoglobulin domain
NM_001322663.4 → NP_001309674.1 Synaptogenesis protein syg-2 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/Swiss-Prot

Q9U3P2

UniProtKB/TrEMBL

A0A131MB76

Conserved Domains (5) summary

smart00408
Location:756 → 817

IGc2; Immunoglobulin C-2 Type

smart00410
Location:748 → 828

IG_like; Immunoglobulin like

cd00063
Location:934 → 1023

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:657 → 738

I-set; Immunoglobulin I-set domain

cl11960
Location:147 → 228

Ig; Immunoglobulin domain
NM_001392890.1 → NP_001380194.1 Nephrin [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A131MBZ2

Conserved Domains (4) summary

smart00408
Location:441 → 502

IGc2; Immunoglobulin C-2 Type

cd00063
Location:619 → 708

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

cd00096
Location:132 → 136

Ig; Ig strand A' [structural motif]

cl11960
Location:128 → 222

Ig; Immunoglobulin domain
NM_001322665.4 → NP_001309678.1 Nephrin [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A131MBS5

Conserved Domains (5) summary

smart00408
Location:454 → 515

IGc2; Immunoglobulin C-2 Type

smart00410
Location:446 → 526

IG_like; Immunoglobulin like

cd00063
Location:632 → 721

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:355 → 436

I-set; Immunoglobulin I-set domain

cl11960
Location:543 → 620

Ig; Immunoglobulin domain
NM_001322667.4 → NP_001309677.1 Synaptogenesis protein syg-2 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A131MDF3

Conserved Domains (5) summary

smart00408
Location:275 → 336

IGc2; Immunoglobulin C-2 Type

smart00410
Location:267 → 347

IG_like; Immunoglobulin like

cd00063
Location:453 → 542

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:176 → 257

I-set; Immunoglobulin I-set domain

cl11960
Location:364 → 441

Ig; Immunoglobulin domain
NM_001322668.4 → NP_001309676.1 Synaptogenesis protein syg-2 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A131MCN5

Conserved Domains (5) summary

smart00408
Location:246 → 307

IGc2; Immunoglobulin C-2 Type

smart00410
Location:238 → 318

IG_like; Immunoglobulin like

cd00063
Location:424 → 513

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam07679
Location:147 → 228

I-set; Immunoglobulin I-set domain

cl11960
Location:335 → 412

Ig; Immunoglobulin domain
NM_001322669.4 → NP_001309675.1 Synaptogenesis protein syg-2 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A131MBR9