lnx2b ligand of numb-protein X 2b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: lnx2bprovided by ZNC
Official Full Name: ligand of numb-protein X 2bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-040426-2500
See related: Ensembl:ENSDARG00000071478 AllianceGenome:ZFIN:ZDB-GENE-040426-2500
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: lnxL; zgc:85925; id:ibd3184
Summary: Enables ubiquitin-protein transferase activity. Acts upstream of or within exocrine pancreas development and protein K48-linked ubiquitination. Is expressed in several structures, including blastodisc; mesoderm; nervous system; pronephros; and tail bud. Orthologous to human LNX2 (ligand of numb-protein X 2). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 14

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (32918484..32945929)
105	previous assembly	GRCz10 (GCF_000002035.5)	14	NC_007125.6 (32578168..32605826)

Chromosome 14 - NC_007125.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Data show that the phenotype characterized by inhibition of exocrine cell differentiation requires inactivation of both ubiquitin ligases Lnx2a and Lnx2b.
Title: Lnx2 ubiquitin ligase is essential for exocrine cell differentiation in the early zebrafish pancreas.
these data suggest that Lnx-2b maintains the integrity of the ectodermal tissues via suppressing gsc expression which can be driven by the coordinated action of nodal-related factors and Boz.
Title: Lnx-2b restricts gsc expression to the dorsal mesoderm by limiting Nodal and Bozozok activity.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by ZFIN

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 ubiquitin-protein transferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables ubiquitin-protein transferase activity	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within exocrine pancreas development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within protein K48-linked ubiquitination	IDA Inferred from Direct Assay more info	PubMed
NOT acts_upstream_of_or_within protein K63-linked ubiquitination	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within protein ubiquitination	IPI Inferred from Physical Interaction more info	PubMed

Component	Evidence Code	Pubs
is_active_in cellular_component	ND No biological Data available more info

General protein information

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Preferred Names: ligand of Numb protein X 2b

Names: lnx-l

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_212940.2 → NP_998105.2 ligand of Numb protein X 2b

See identical proteins and their annotated locations for NP_998105.2

Status: PROVISIONAL

Source sequence(s)

BC139538

UniProtKB/TrEMBL

A4VCF7, B6DRF4

Related

ENSDARP00000096499.3, ENSDART00000105721.6

Conserved Domains (2) summary

smart00184
Location:46 → 82

RING; Ring finger

cd00992
Location:210 → 291

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) ...

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007125.7 Reference GRCz11 Primary Assembly

Range

32918484..32945929

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005173252.4 → XP_005173309.1 ligand of Numb protein X 2b isoform X1

See identical proteins and their annotated locations for XP_005173309.1

UniProtKB/TrEMBL

A4VCF7, B6DRF4

Conserved Domains (2) summary

smart00184
Location:46 → 82

RING; Ring finger

cd00992
Location:210 → 291

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) ...
XM_005173253.5 → XP_005173310.1 ligand of Numb protein X 2b isoform X1

See identical proteins and their annotated locations for XP_005173310.1

UniProtKB/TrEMBL

A4VCF7, B6DRF4

Conserved Domains (2) summary

smart00184
Location:46 → 82

RING; Ring finger

cd00992
Location:210 → 291

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) ...