madd-2 E3 ubiquitin-protein ligase TRIM9 [Caenorhabditis elegans] - Gene

Summary

Go to the top of the page Help

Official Symbol: madd-2
Official Full Name: E3 ubiquitin-protein ligase TRIM9
Primary source: WormBase:WBGene00016539
Locus tag: CELE_C39F7.2
See related: AllianceGenome:WB:WBGene00016539
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 protein homodimerization activity; signaling receptor binding activity; and ubiquitin-protein transferase activity. Involved in several processes, including axon guidance; cell projection assembly; and protein ubiquitination. Located in several cellular components, including cell leading edge; neuronal cell body; and striated muscle dense body. Is expressed in several structures, including head mesodermal cell; neurons; ray precursor cell; reproductive system; and ventral uterine precursor. Used to study Opitz GBBB syndrome. Human ortholog(s) of this gene implicated in Opitz GBBB syndrome; anencephaly; and non-syndromic X-linked intellectual disability 101. Orthologous to several human genes including TRIM67 (tripartite motif containing 67) and TRIM9 (tripartite motif containing 9). [provided by Alliance of Genome Resources, Dec 2024]
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help

See madd-2 in Genome Data Viewer

Location:: chromosome: V

Exon count:: 13

Sequence:: Chromosome: V; NC_003283.11 (1223897..1235455, complement)

Chromosome V - NC_003283.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:: NC_003283.11

Go to nucleotide: Graphics FASTA GenBank

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Caenorhabditis elegans homolog of the Opitz syndrome gene, madd-2/Mid1, regulates anchor cell invasion during vulval development
Title: The Caenorhabditis elegans homolog of the Opitz syndrome gene, madd-2/Mid1, regulates anchor cell invasion during vulval development.
LIN-12/Notch signaling mediates type-2 vulval muscle cell development of muscle arms by regulating UNC-40 and MADD-2 activity.
Title: LIN-12/Notch signaling instructs postsynaptic muscle arm development by regulating UNC-40/DCC and MADD-2 in Caenorhabditis elegans.
an evolutionarily conserved function of TRIM-9 in the UNC-40/Frazzled-mediated UNC-6/Netrin attraction pathway
Title: TRIM-9 functions in the UNC-6/UNC-40 pathway to regulate ventral guidance.

Submit: New GeneRIF Correction

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

C39F7.3 (e-PCR)
- UniSTS:317987

C39F7.2 (e-PCR)
- UniSTS:319116

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info
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 binding	IPI Inferred from Physical Interaction more info	PubMed
enables ubiquitin-protein transferase activity	IDA Inferred from Direct Assay more info	PubMed
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in axon guidance	IBA Inferred from Biological aspect of Ancestor more info
involved_in axon midline choice point recognition	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cell projection assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell projection morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in dorsal/ventral axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron projection development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein ubiquitination	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of protein localization	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cell leading edge	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
is_active_in neuron projection	IBA Inferred from Biological aspect of Ancestor more info
located_in neuron projection	IDA Inferred from Direct Assay more info	PubMed
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in striated muscle dense body	IDA Inferred from Direct Assay more info	PubMed

General protein information

Go to the top of the page Help

Preferred Names: E3 ubiquitin-protein ligase TRIM9

NP_001122877.1

Confirmed by transcript evidence

NP_001300061.1

Confirmed by transcript evidence

NP_503395.1

Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

Genome Annotation

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

Reference assembly

Genomic

NC_003283.11 Reference assembly

Range

1223897..1235455 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001129405.4 → NP_001122877.1 E3 ubiquitin-protein ligase TRIM9 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

B1GRL4

Conserved Domains (6) summary

smart00502
Location:320 → 445

BBC; B-Box C-terminal domain

cd00063
Location:485 → 576

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 ...

cd12889
Location:573 → 749

SPRY_PRY_TRIM67_9; PRY/SPRY domain in tripartite motif-containing proteins, TRIM9 and TRIM67

cd19764
Location:275 → 313

Bbox2_TRIM9-like; B-box-type 2 zinc finger found in tripartite motif-containing proteins, TRIM9, TRIM67 and similar proteins

cd19803
Location:207 → 253

Bbox1_TRIM9-like_C-I; B-box-type 1 zinc finger found in tripartite motif-containing proteins, TRIM9, TRIM67 and similar proteins

cl17238
Location:2 → 31

RING_Ubox; RING finger (Really Interesting New Gene) domain and U-box domain superfamily
NM_070994.8 → NP_503395.1 E3 ubiquitin-protein ligase TRIM9 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

Q9UAQ3

Conserved Domains (5) summary

smart00502
Location:320 → 445

BBC; B-Box C-terminal domain

smart00184
Location:7 → 33

RING; Ring finger

cd00063
Location:499 → 590

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 ...

pfam00643
Location:271 → 313

zf-B_box; B-box zinc finger

cd12889
Location:587 → 763

SPRY_PRY_TRIM67_9; PRY/SPRY domain in tripartite motif-containing proteins, TRIM9 and TRIM67
NM_001313132.3 → NP_001300061.1 E3 ubiquitin-protein ligase TRIM9 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A0K3AUR3

Conserved Domains (1) summary

cl02614
Location:1 → 48

SPRY; SPRY domain