vps11 VPS11 core subunit of CORVET and HOPS complexes [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: vps11provided by ZNC
Official Full Name: VPS11 core subunit of CORVET and HOPS complexesprovided by ZNC
Primary source: ZFIN:ZDB-GENE-050731-5
See related: Ensembl:ENSDARG00000036338 AllianceGenome:ZFIN:ZDB-GENE-050731-5
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: zgc:112329
Summary: Predicted to enable protein-macromolecule adaptor activity. Acts upstream of or within several processes, including animal organ development; melanocyte apoptotic process; and melanocyte differentiation. Predicted to be located in cytoplasmic vesicle and vacuole. Predicted to be part of HOPS complex. Predicted to be active in endosome. Is expressed in brain; heart; immature eye; and retina. Human ortholog(s) of this gene implicated in hypomyelinating leukodystrophy 12. Orthologous to human VPS11 (VPS11 core subunit of CORVET and HOPS complexes). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 10

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	10	NC_007121.7 (29750952..29768526, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	10	NC_007121.6 (29864689..29882178, complement)

Chromosome 10 - NC_007121.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

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?

Vision and sensorimotor defects associated with loss of Vps11 function in a zebrafish model of genetic leukoencephalopathy.
Title: Vision and sensorimotor defects associated with loss of Vps11 function in a zebrafish model of genetic leukoencephalopathy.
Melanosome maturation proteins Oca2, Mitfa and Vps11 are differentially required for cisplatin resistance in zebrafish melanocytes.
Title: Melanosome maturation proteins Oca2, Mitfa and Vps11 are differentially required for cisplatin resistance in zebrafish melanocytes.
these data suggest that vps11 promotes normal melanophore morphology and survival by inhibiting cathepsin release and/or activity.
Title: Maintenance of melanophore morphology and survival is cathepsin and vps11 dependent in zebrafish.
Data show that Vps11 is not necessary for normal retinal development or initiation of melanin biosynthesis, but is essential for melanosome maturation and healthy maintenance of the RPE and photoreceptors.
Title: The loss of vacuolar protein sorting 11 (vps11) causes retinal pathogenesis in a vertebrate model of syndromic albinism.

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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-macromolecule adaptor activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within autophagy	IEA Inferred from Electronic Annotation more info
involved_in autophagy	IEA Inferred from Electronic Annotation more info
involved_in endosome organization	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within habituation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within intracellular protein transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within liver development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within melanocyte apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within melanocyte differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of autophagy	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neural retina development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within notochord cell vacuolation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within optokinetic behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in organelle fusion	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within protein transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within response to auditory stimulus	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within retinal pigment epithelium development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within swim bladder development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within swimming behavior	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vacuole organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in vesicle docking involved in exocytosis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within vesicle-mediated transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of CORVET complex	IEA Inferred from Electronic Annotation more info
part_of HOPS complex	IBA Inferred from Biological aspect of Ancestor more info
located_in autophagosome	IEA Inferred from Electronic Annotation more info
located_in clathrin-coated vesicle	IEA Inferred from Electronic Annotation more info
located_in cytoplasmic vesicle	IEA Inferred from Electronic Annotation more info
located_in early endosome	IEA Inferred from Electronic Annotation more info
is_active_in endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in endosome	IEA Inferred from Electronic Annotation more info
located_in late endosome membrane	IEA Inferred from Electronic Annotation more info
located_in lysosomal membrane	IEA Inferred from Electronic Annotation more info
located_in lysosome	IEA Inferred from Electronic Annotation more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: vacuolar protein sorting-associated protein 11 homolog

Names: unm_w66; vacuolar protein sorting 11

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_001037708.2 → NP_001032797.1 vacuolar protein sorting-associated protein 11 homolog

See identical proteins and their annotated locations for NP_001032797.1

Status: PROVISIONAL

Source sequence(s)

BC098618

UniProtKB/TrEMBL

Q4G0A0

Related

ENSDARP00000052786.6, ENSDART00000052787.7

Conserved Domains (5) summary

smart00299
Location:396 → 519

CLH; Clathrin heavy chain repeat homology

cd00162
Location:806 → 845

RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...

pfam00637
Location:402 → 520

Clathrin; Region in Clathrin and VPS

pfam12451
Location:847 → 892

VPS11_C; Vacuolar protein sorting protein 11 C terminal

cl02567
Location:33 → 179

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...