syd-1 Rho GTPase-activating protein syd-1 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: syd-1
Official Full Name: Rho GTPase-activating protein syd-1
Primary source: WormBase:WBGene00006363
Locus tag: CELE_F35D2.5
See related: AllianceGenome:WB:WBGene00006363
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 GTPase activator activity; Roundabout binding activity; and small GTPase binding activity. Involved in several processes, including activation of GTPase activity; axo-dendritic transport; and cell projection organization. Located in presynaptic membrane. Is expressed in nerve ring and neurons. Orthologous to several human genes including SYDE2 (synapse defective Rho GTPase homolog 2). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See syd-1 in Genome Data Viewer

Location:: chromosome: II

Exon count:: 17

Sequence:: Chromosome: II; NC_003280.10 (7585695..7594912, complement)

Chromosome II - NC_003280.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003280.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

A single glycine residue in a conserved domain of the C. elegans CED-10 is crucial for controlling neurite outgrowth in a partially non-redundant manner. When CED-10 function is diminished, the adaptor protein NAB-1 and its interacting partner SYD-1 can act as inhibitors of axon outgrowth.
Title: Distinct CED-10/Rac1 domains confer context-specific functions in development.
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.
SYD-1 and SYD-2 function cell-autonomously at presynaptic terminals, downstream of synaptic specificity molecule SYG-1. SYD-1 is likely to act upstream of SYD-2 to positively regulate its synaptic assembly activity.
Title: Hierarchical assembly of presynaptic components in defined C. elegans synapses.

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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

R07G3.4 (e-PCR)
- UniSTS:316956

F35D2.5 (e-PCR)
- UniSTS:310124

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables GTPase activator activity	IBA Inferred from Biological aspect of Ancestor more info
enables GTPase activator activity	IEA Inferred from Electronic Annotation more info
enables GTPase activator activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables Roundabout binding	IPI Inferred from Physical Interaction more info	PubMed
enables signaling receptor binding	IPI Inferred from Physical Interaction more info	PubMed
enables small GTPase binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in activation of GTPase activity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in axo-dendritic transport	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell projection organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell projection organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in locomotion	IGI Inferred from Genetic Interaction more info	PubMed
involved_in nervous system development	IEA Inferred from Electronic Annotation more info
involved_in protein localization	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of Ras protein signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in signal transduction	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in neuron projection	IEA Inferred from Electronic Annotation more info
located_in presynaptic membrane	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
is_active_in synaptic membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: Rho GTPase-activating protein syd-1

NP_001022146.1

Confirmed by transcript evidence

NP_001370701.1

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_003280.10 Reference assembly

Range

7585695..7594912 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001383891.2 → NP_001370701.1 Rho GTPase-activating protein syd-1 [Caenorhabditis elegans]

Status: REVIEWED

Conserved Domains (2) summary

smart00239
Location:351 → 439

C2; Protein kinase C conserved region 2 (CalB)

cd04379
Location:487 → 691

RhoGAP_SYD1; RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in SYD-1_like proteins. Syd-1, first identified and best studied in C.elegans, has been shown to play an important role in neuronal development by specifying axonal ...
NM_001026975.4 → NP_001022146.1 Rho GTPase-activating protein syd-1 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001022146.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q86NH0, Q86NH1, Q8ISS1

Conserved Domains (3) summary

smart00239
Location:617 → 705

C2; Protein kinase C conserved region 2 (CalB)

cd00992
Location:123 → 205

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

cd04379
Location:753 → 957

RhoGAP_SYD1; RhoGAP_SYD1: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in SYD-1_like proteins. Syd-1, first identified and best studied in C.elegans, has been shown to play an important role in neuronal development by specifying ...