lnx1 ligand of numb-protein X 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: lnx1provided by ZNC
Official Full Name: ligand of numb-protein X 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-9439
See related: Ensembl:ENSDARG00000043323 AllianceGenome:ZFIN:ZDB-GENE-030131-9439
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: lnx; fj78f06; wu:fj78f06; zgc:152906; si:dkey-12h2.1
Summary: Predicted to enable ubiquitin-protein transferase activity. Predicted to be involved in ubiquitin-dependent protein catabolic process. Predicted to be active in cytoplasm. Is expressed in central nervous system. Orthologous to human LNX1 (ligand of numb-protein X 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 20

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	20	NC_007131.7 (22666561..22741207)
105	previous assembly	GRCz10 (GCF_000002035.5)	20	NC_007131.6 (22766899..22841535)

Chromosome 20 - NC_007131.7 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?

Bozozok (Boz, also known as Dharma or Nieuwkoid) as a binding partner and substrate of Lnx-l.
Title: Organizer restriction through modulation of Bozozok stability by the E3 ubiquitin ligase Lnx-like.

Submit: New GeneRIF Correction

General gene information

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Markers

G46909 (e-PCR)
- UniSTS:107704

G47220 (e-PCR)
- UniSTS:108004

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables ubiquitin-protein transferase activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase LNX

NP_001068581.2

EC 6.3.2.19

XP_005160562.1

EC 6.3.2.19

XP_005160563.1

EC 6.3.2.19

XP_005160564.1

EC 6.3.2.19

XP_005160565.1

EC 6.3.2.19

XP_009292919.1

EC 6.3.2.19

XP_009292920.1

EC 6.3.2.19

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_001075113.2 → NP_001068581.2 E3 ubiquitin-protein ligase LNX

Status: VALIDATED

Source sequence(s)

BX649298

UniProtKB/TrEMBL

Q08CM8

Related

ENSDARP00000118247.2, ENSDART00000147520.3

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_007131.7 Reference GRCz11 Primary Assembly

Range

22666561..22741207

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005160505.5 → XP_005160562.1 E3 ubiquitin-protein ligase LNX isoform X1

UniProtKB/TrEMBL

A0A8M2B7L4, Q08CM8

Conserved Domains (3) summary

smart00184
Location:57 → 93

RING; Ring finger

COG0265
Location:548 → 621

DegQ; Periplasmic serine protease, S1-C subfamily, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]

cd00992
Location:678 → 762

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_005160506.5 → XP_005160563.1 E3 ubiquitin-protein ligase LNX isoform X2

UniProtKB/TrEMBL

A0A8M2B7C4, Q08CM8

Conserved Domains (3) summary

smart00184
Location:57 → 93

RING; Ring finger

COG0265
Location:546 → 619

DegQ; Periplasmic serine protease, S1-C subfamily, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]

cd00992
Location:676 → 760

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_005160507.5 → XP_005160564.1 E3 ubiquitin-protein ligase LNX isoform X3

UniProtKB/TrEMBL

A0A8M2B7C0, Q08CM8

Conserved Domains (3) summary

smart00184
Location:57 → 93

RING; Ring finger

COG0265
Location:546 → 619

DegQ; Periplasmic serine protease, S1-C subfamily, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]

cd00992
Location:676 → 760

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_005160508.5 → XP_005160565.1 E3 ubiquitin-protein ligase LNX isoform X4

UniProtKB/TrEMBL

A0A8M2B7D3, Q08CM8

Conserved Domains (1) summary

cd00992
Location:566 → 650

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_009294644.4 → XP_009292919.1 E3 ubiquitin-protein ligase LNX isoform X5

UniProtKB/TrEMBL

A0A8M3AW57, Q08CM8

Conserved Domains (1) summary

cd00992
Location:564 → 648

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_009294645.4 → XP_009292920.1 E3 ubiquitin-protein ligase LNX isoform X6

UniProtKB/TrEMBL

A0A8M3AT53, Q08CM8

Conserved Domains (1) summary

cd00992
Location:562 → 646

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) ...