This gene encodes a member of the vanin family of proteins, which share extensive sequence similarity with each other, and also with biotinidase. The family includes secreted and membrane-associated proteins, a few of which have been reported to participate in hematopoietic cell trafficking. No biotinidase activity has been demonstrated for any of the vanin proteins, however, t... See more...

Aliases for VNN1 Gene

Aliases for VNN1 Gene

  • Vanin 1 2 3 5
  • Vascular Non-Inflammatory Molecule 1 3 4
  • Pantetheine Hydrolase 3 4
  • Pantetheinase 3 4
  • EC 3.5.1.92 4 52
  • Tiff66 3 4
  • Vannin 1 3
  • EC 3.5.1 52
  • Vanin-1 4
  • HDLCQ8 3

External Ids for VNN1 Gene

Previous GeneCards Identifiers for VNN1 Gene

  • GC06M132625
  • GC06M132849
  • GC06M132938
  • GC06M132983
  • GC06M133044
  • GC06M130576
  • GC06M133001

Summaries for VNN1 Gene

Entrez Gene Summary for VNN1 Gene

  • This gene encodes a member of the vanin family of proteins, which share extensive sequence similarity with each other, and also with biotinidase. The family includes secreted and membrane-associated proteins, a few of which have been reported to participate in hematopoietic cell trafficking. No biotinidase activity has been demonstrated for any of the vanin proteins, however, they possess pantetheinase activity, which may play a role in oxidative-stress response. This protein, like its mouse homolog, is likely a GPI-anchored cell surface molecule. The mouse protein is expressed by the perivascular thymic stromal cells and regulates migration of T-cell progenitors to the thymus. This gene lies in close proximity to, and in the same transcriptional orientation as, two other vanin genes on chromosome 6q23-q24. [provided by RefSeq, Feb 2009]

GeneCards Summary for VNN1 Gene

VNN1 (Vanin 1) is a Protein Coding gene. Diseases associated with VNN1 include Obstructive Nephropathy and Malaria. Among its related pathways are Metabolism of proteins and Innate Immune System. Gene Ontology (GO) annotations related to this gene include hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds and GPI anchor binding. An important paralog of this gene is VNN2.

UniProtKB/Swiss-Prot Summary for VNN1 Gene

  • Amidohydrolase that hydrolyzes specifically one of the carboamide linkages in D-pantetheine thus recycling pantothenic acid (vitamin B5) and releasing cysteamine.

Gene Wiki entry for VNN1 Gene

Additional gene information for VNN1 Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for VNN1 Gene

Genomics for VNN1 Gene

GeneHancer (GH) Regulatory Elements for VNN1 Gene

Promoters and enhancers for VNN1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH06J132711 Promoter/Enhancer 1.4 EPDnew Ensembl ENCODE 525.2 +0.6 591 3 FOXA2 USF1 FOS FOSL2 ZBTB33 SPI1 JUND ZGPAT RAD21 RXRA VNN1 lnc-RPS12-5 CCNG1P1
GH06J132715 Enhancer 0.6 ENCODE 500.7 -1.4 -1352 0.2 CTCF RFX1 ZBTB26 SMC3 RAD21 ZGPAT FOXP2 RXRA HNF4A ZNF48 VNN1 lnc-VNN2-2
GH06J132732 Promoter/Enhancer 1.6 EPDnew Ensembl ENCODE 19.8 -20.2 -20154 2.8 EP300 FOXK2 CTCF TCF12 NCOR1 POLR2A KDM6A TCF7 FOXA1 ZBTB25 VNN3 VNN1 ENSG00000234484 lnc-VNN2-2
GH06J132812 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas 7 -100.8 -100821 5.5 FOXK2 ZBTB40 ZNF217 EP300 ZSCAN5C SIN3A TCF12 NRF1 MYC POLR2G SLC18B1 RPS12 SNORD100 SNORD101 piR-33748 lnc-SLC18B1-1 piR-58029-006 SNORA33 LOC100421775 VNN1
GH06J132706 Enhancer 0.5 Ensembl 25.5 +6.0 5955 2.6 CEBPG CEBPB JUND ATF3 FOS RXRA VNN1 ENSG00000234484 VNN3 VNN2 ENSG00000272428 CCNG1P1 lnc-RPS12-5
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around VNN1 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for VNN1

Top Transcription factor binding sites by QIAGEN in the VNN1 gene promoter:
  • GATA-1
  • PPAR-gamma1
  • PPAR-gamma2
  • RREB-1
  • USF-1
  • USF1

Genomic Locations for VNN1 Gene

Genomic Locations for VNN1 Gene
chr6:132,680,849-132,714,055
(GRCh38/hg38)
Size:
33,207 bases
Orientation:
Minus strand
chr6:133,001,997-133,035,194
(GRCh37/hg19)
Size:
33,198 bases
Orientation:
Minus strand

Genomic View for VNN1 Gene

Genes around VNN1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VNN1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VNN1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VNN1 Gene

Proteins for VNN1 Gene

  • Protein details for VNN1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95497-VNN1_HUMAN
    Recommended name:
    Pantetheinase
    Protein Accession:
    O95497
    Secondary Accessions:
    • A8K310
    • Q4JFW6
    • Q4VAS7
    • Q4VAS8
    • Q4VAS9
    • Q9UF16
    • Q9UJF4

    Protein attributes for VNN1 Gene

    Size:
    513 amino acids
    Molecular mass:
    57012 Da
    Quaternary structure:
    • Monomer.

    Three dimensional structures from OCA and Proteopedia for VNN1 Gene

neXtProt entry for VNN1 Gene

Selected DME Specific Peptides for VNN1 Gene

O95497:
  • TRFEMFSLSGTFGT
  • QGAHIIVTPED
  • YLEDIPDP
  • LVARYHK
  • VNWTSYAS
  • YALGAFDG
  • FHSAWAMGM
  • GNYTVCQ
  • FTCFDILF

Post-translational modifications for VNN1 Gene

  • Glycosylation at Asn38, Asn130, Asn200, Asn283, Asn315, Asn353, and Asn487
  • Modification sites at PhosphoSitePlus
  • Glycosylation from GlyConnect

Other Protein References for VNN1 Gene

ENSEMBL proteins:
REFSEQ proteins:

Protein Products

  • Novus Biologicals lysates for VNN1
  • Abcam proteins for VNN1

Domains & Families for VNN1 Gene

Gene Families for VNN1 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Plasma proteins
  • Predicted intracellular proteins

Protein Domains for VNN1 Gene

Blocks:
  • Nitrilase/cyanide hydratase and apolipoprotein N-acyltransferase
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for VNN1 Gene

GenScript: Design optimal peptide antigens:
  • Vascular non-inflammatory molecule 1 (VNN1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

O95497

UniProtKB/Swiss-Prot:

VNN1_HUMAN :
  • Belongs to the carbon-nitrogen hydrolase superfamily. BTD/VNN family.
Family:
  • Belongs to the carbon-nitrogen hydrolase superfamily. BTD/VNN family.
genes like me logo Genes that share domains with VNN1: view

Function for VNN1 Gene

Molecular function for VNN1 Gene

UniProtKB/Swiss-Prot Function:
Amidohydrolase that hydrolyzes specifically one of the carboamide linkages in D-pantetheine thus recycling pantothenic acid (vitamin B5) and releasing cysteamine.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=(R)-pantetheine + H2O = (R)-pantothenate + cysteamine; Xref=Rhea:RHEA:13445, ChEBI:CHEBI:15377, ChEBI:CHEBI:16753, ChEBI:CHEBI:29032, ChEBI:CHEBI:58029; EC=3.5.1.92; Evidence=. ;.
UniProtKB/Swiss-Prot Induction:
By Th17/Th1 type cytokines, but not by Th2-type.
GENATLAS Biochemistry:
vanin 1,55kDa,expressed in spleen,thymus,peripheral blood lymphocytes,small intestine with homology to biotinidase,homolog to mouse VNN1,involved in lymphocyte migration in cell adhesion and in the colonization of the thymus by hematopoietic precursor cells

Enzyme Numbers (IUBMB) for VNN1 Gene

Phenotypes From GWAS Catalog for VNN1 Gene

Gene Ontology (GO) - Molecular Function for VNN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016787 hydrolase activity IEA --
GO:0016811 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides IEA --
GO:0017159 pantetheine hydrolase activity IBA,IDA 11491533
genes like me logo Genes that share ontologies with VNN1: view
genes like me logo Genes that share phenotypes with VNN1: view

Animal Models for VNN1 Gene

MGI Knock Outs for VNN1:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for VNN1

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for VNN1 Gene

Localization for VNN1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for VNN1 Gene

Cell membrane; Lipid-anchor, GPI-anchor.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for VNN1 gene
Compartment Confidence
extracellular 5
plasma membrane 4
lysosome 4
peroxisome 2
nucleus 2
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1
endosome 1
cytosol 1

Gene Ontology (GO) - Cellular Components for VNN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005886 plasma membrane TAS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane TAS 17145956
GO:0031225 anchored component of membrane IEA --
genes like me logo Genes that share ontologies with VNN1: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for VNN1 Gene

Pathways & Interactions for VNN1 Gene

genes like me logo Genes that share pathways with VNN1: view

Pathways by source for VNN1 Gene

Gene Ontology (GO) - Biological Process for VNN1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0002526 acute inflammatory response ISS 14966568
GO:0002544 chronic inflammatory response ISS,IEA 14966568
GO:0006807 nitrogen compound metabolic process IEA --
GO:0006954 inflammatory response ISS,IEA 15282320
GO:0006979 response to oxidative stress TAS 17145956
genes like me logo Genes that share ontologies with VNN1: view

No data available for SIGNOR curated interactions for VNN1 Gene

Drugs & Compounds for VNN1 Gene

(3) Drugs for VNN1 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Cysteamine Approved, Investigational Pharma 30
Water Approved Pharma 0
Pantothenic acid Approved, Vet_approved Nutra 35

(2) Additional Compounds for VNN1 Gene - From: Novoseek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
pantetheine
  • (R)-Pantetheine
  • D-Pantetheine
  • Lactobacillus bulgaricus factor
  • LBF
  • Pantotheine
496-65-1
genes like me logo Genes that share compounds with VNN1: view

Transcripts for VNN1 Gene

mRNA/cDNA for VNN1 Gene

1 REFSEQ mRNAs :
10 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for VNN1

Alternative Splicing Database (ASD) splice patterns (SP) for VNN1 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8 ^ 9a · 9b · 9c
SP1: - - -
SP2:
SP3: -

Relevant External Links for VNN1 Gene

GeneLoc Exon Structure for
VNN1

Expression for VNN1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for VNN1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for VNN1 Gene

This gene is overexpressed in Whole Blood (x32.7) and Liver (x12.0).

Protein differential expression in normal tissues from HIPED for VNN1 Gene

This gene is overexpressed in Pancreatic juice (29.5), Neutrophil (17.5), and Serum (6.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for VNN1 Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for VNN1

SOURCE GeneReport for Unigene cluster for VNN1 Gene:

Hs.12114

mRNA Expression by UniProt/SwissProt for VNN1 Gene:

O95497-VNN1_HUMAN
Tissue specificity: Widely expressed with higher expression in spleen, kidney and blood. Overexpressed in lesional psoriatic skin.

Evidence on tissue expression from TISSUES for VNN1 Gene

  • Liver(4.5)
  • Blood(4.4)
  • Bone marrow(4.1)
  • Kidney(2)
genes like me logo Genes that share expression patterns with VNN1: view

No data available for Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for VNN1 Gene

Orthologs for VNN1 Gene

This gene was present in the common ancestor of animals.

Orthologs for VNN1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia VNN1 31 30
  • 99.68 (n)
OneToOne
dog
(Canis familiaris)
Mammalia VNN1 31 30
  • 85.22 (n)
OneToMany
-- 31
  • 76 (a)
OneToMany
cow
(Bos Taurus)
Mammalia VNN1 31 30
  • 85.08 (n)
OneToOne
rat
(Rattus norvegicus)
Mammalia Vnn1 30
  • 80.48 (n)
mouse
(Mus musculus)
Mammalia Vnn1 17 31 30
  • 78.72 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia VNN1 31
  • 66 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia VNN1 31
  • 59 (a)
OneToOne
chicken
(Gallus gallus)
Aves VNN1 31 30
  • 66.74 (n)
ManyToMany
-- 31
  • 63 (a)
ManyToMany
lizard
(Anolis carolinensis)
Reptilia -- 31
  • 66 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia vnn2 30
  • 63.94 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP012357 30
  • 41.02 (n)
fruit fly
(Drosophila melanogaster)
Insecta CG3599 32
  • 31 (a)
Btd 31
  • 24 (a)
ManyToMany
vanin-like 31
  • 24 (a)
ManyToMany
CG32751 31
  • 24 (a)
ManyToMany
CG32750 31
  • 23 (a)
ManyToMany
Species where no ortholog for VNN1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for VNN1 Gene

ENSEMBL:
Gene Tree for VNN1 (if available)
TreeFam:
Gene Tree for VNN1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for VNN1: view image

Paralogs for VNN1 Gene

Paralogs for VNN1 Gene

(3) SIMAP similar genes for VNN1 Gene using alignment to 1 proteins:

  • VNN1_HUMAN
genes like me logo Genes that share paralogs with VNN1: view

Variants for VNN1 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for VNN1 Gene

SNP ID Clinical significance and condition Chr 06 pos Variation AA Info Type
712374 Benign: not provided 132,694,088(-) C/T MISSENSE_VARIANT
716030 Likely Benign: not provided 132,711,715(-) C/T MISSENSE_VARIANT
749805 Likely Benign: not provided 132,684,359(-) A/G SYNONYMOUS_VARIANT
776156 Benign: not provided 132,683,142(-) A/G STOP_LOST
776157 Benign: not provided 132,692,293(-) A/G MISSENSE_VARIANT

Additional dbSNP identifiers (rs#s) for VNN1 Gene

Structural Variations from Database of Genomic Variants (DGV) for VNN1 Gene

Variant ID Type Subtype PubMed ID
nsv480463 CNV novel sequence insertion 20440878

Variation tolerance for VNN1 Gene

Residual Variation Intolerance Score: 87.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 9.23; 88.05% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for VNN1 Gene

Human Gene Mutation Database (HGMD)
VNN1
SNPedia medical, phenotypic, and genealogical associations of SNPs for
VNN1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for VNN1 Gene

Disorders for VNN1 Gene

MalaCards: The human disease database

(2) MalaCards diseases for VNN1 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
obstructive nephropathy
  • con
malaria
  • malaria, susceptibility to
- elite association - COSMIC cancer census association via MalaCards
Search VNN1 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for VNN1

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
genes like me logo Genes that share disorders with VNN1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for VNN1 Gene

Publications for VNN1 Gene

  1. Two human genes related to murine vanin-1 are located on the long arm of human chromosome 6. (PMID: 9790769) Galland F … Naquet P (Genomics 1998) 2 3 4 23 54
  2. Expression of the vanin gene family in normal and inflamed human skin: induction by proinflammatory cytokines. (PMID: 19322213) Jansen PA … Schalkwijk J (The Journal of investigative dermatology 2009) 3 4 23 54
  3. Vanin genes are clustered (human 6q22-24 and mouse 10A2B1) and encode isoforms of pantetheinase ectoenzymes. (PMID: 11491533) Martin F … Galland F (Immunogenetics 2001) 3 4 23 54
  4. Is pantetheinase the actual identity of mouse and human vanin-1 proteins? (PMID: 10567687) Maras B … Pitari G (FEBS letters 1999) 3 4 23 54
  5. The structure of vanin 1: a key enzyme linking metabolic disease and inflammation. (PMID: 25478849) Boersma YL … Peat TS (Acta crystallographica. Section D, Biological crystallography 2014) 3 4 54

Products for VNN1 Gene

Sources for VNN1 Gene