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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

NUDT16L1 Gene

protein-coding   GIFtS: 49
GCID: GC16P004743

nudix (nucleoside diphosphate linked moiety X)-type motif...

  Search for NUDT16L1
in our new
 Human Malady Compendium 
Biological research products
for NUDT16L1
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Nudix (Nucleoside Diphosphate Linked Moiety X)-Type Motif 16-Like 11 2
SDOS1 2 3
NUDT16-Like Protein 12 3
Protein Syndesmos2

External Ids:    HGNC: 281541   Entrez Gene: 843092   Ensembl: ENSG000001681017   UniProtKB: Q9BRJ73   

Export aliases for NUDT16L1 gene to outside databases

Previous GC identifer: GC16P004684


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

UniProtKB/Swiss-Prot: SDOS_HUMAN, Q9BRJ7
Function: Probable adapter protein, which may link syndecan-4 (SDC4) and paxilin (TGFB1I1 and PXN) receptors (By
similarity). Does not play a role in U8 snoRNA decapping activity. Binds U8 snoRNA




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000016.9  NC_018927.1  NT_010393.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the NUDT16L1 gene promoter:
         HFH-3   GCNF   NRSF form 1   HNF-3beta   NRSF form 2   GATA-1   FOXI1   GCNF-1   ARP-1   GCNF-2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidNUDT16L1 promoter sequence
   Search SABiosciences Chromatin IP Primers for NUDT16L1

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat NUDT16L1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 16p13.3   Ensembl cytogenetic band:  16p13.3   HGNC cytogenetic band: 16p13.3

NUDT16L1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
NUDT16L1 gene location

GeneLoc information about chromosome 16         GeneLoc Exon Structure

GeneLoc location for GC16P004743:  view genomic region     (about GC identifiers)

Start:
4,743,694 bp from pter      End:
4,745,860 bp from pter
Size:
2,167 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: SDOS_HUMAN, Q9BRJ7 (See protein sequence)
Recommended Name: Protein syndesmos  
Size: 211 amino acids; 23338 Da
Subunit: Interacts with the cytoplasmic part of SDC4. Interacts with TGFB1I1 and PXN (By similarity)
Subcellular location: Cytoplasm (By similarity)
Miscellaneous: Although strongly related to the nudix NUDT16 protein, it lacks the Nudix box and is therefore not
related to the rest of the family. Gene organization and evolutionary distribution suggest that syndesmos NUDT16L1
probably originated as a gene duplication event of the more ancient U8 snoRNA-decapping enzyme NUDT16
Caution: Similar to U8 snoRNA-decapping enzyme NUDT16 but lacks a number of residues which are necessary for activity
1 PDB 3D structure from and Proteopedia for NUDT16L1:
3KVH (3D)    
Secondary accessions: Q8NAI2
Alternative splicing: 2 isoforms:  Q9BRJ7-1   Q9BRJ7-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for NUDT16L1: NX_Q9BRJ7

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9BRJ7

  • NUDT16L1 Protein expression data from MOPED and PaxDb:    About this image 
    NUDT16L1 Protein Expression
    REFSEQ proteins (2 alternative transcripts): 
    NP_001180381.1  NP_115725.1  

    ENSEMBL proteins: 
     ENSP00000306670   ENSP00000466854   ENSP00000468346   ENSP00000458144   ENSP00000464821  

    Human Recombinant Protein Products for NUDT16L1: 
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    Uscn Proteins for NUDT16L1

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737cytoplasm IEA--

    NUDT16L1 for ontologies           About GeneDecksing



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    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    NUDT16L1 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR015797 NUDIX_hydrolase_dom-like

    Graphical View of Domain Structure for InterPro Entry Q9BRJ7

    ProtoNet protein and cluster: Q9BRJ7

    1 Blocks protein family: IPB000086 NUDIX hydrolase


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, Sirion Biotech, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, Sirion Biotech, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SDOS_HUMAN, Q9BRJ7
    Function: Probable adapter protein, which may link syndecan-4 (SDC4) and paxilin (TGFB1I1 and PXN) receptors (By
    similarity). Does not play a role in U8 snoRNA decapping activity. Binds U8 snoRNA

         Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016787hydrolase activity ----
    GO:0030515snoRNA binding IDA--
    GO:0042803NOT protein homodimerization activity IDA18820299
    GO:0050072NOT m7G(5')pppN diphosphatase activity ISS--
         
    NUDT16L1 for ontologies           About GeneDecksing


    Animal Models:
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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section

    Unified GeneCards pathways  About this table 
    See pathways by source

    Super-pathwaycontained gene-specific pathways
    1Syndecan-4-mediated signaling events
    Syndecan-4-mediated signaling events1.00


    1 BioSystems Pathway for NUDT16L1 
        Syndecan-4-mediated signaling events


    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for NUDT16L1

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    5/53 Interacting proteins for NUDT16L1 (Q9BRJ72, 3 ENSP000003066704) via UniProtKB, MINT, STRING, and/or I2D (see all 53)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    GABARAPO951663I2D: score=1 
    BAG2O958162MINT-8415355
    BAG6P463792MINT-8415355
    CCDC8Q9H0W52MINT-8415355
    CCT2P783712MINT-8415355
    About this table

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for NUDT16L1
    Search CenterWatch for drugs/clinical trials and news about NUDT16L1 / SDOS 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, Sirion Biotech, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for NUDT16L1 gene (2 alternative transcripts): 
    NM_001193452.1  NM_032349.3  

    Unigene Cluster for NUDT16L1:

    Nudix (nucleoside diphosphate linked moiety X)-type motif 16-like 1
    Hs.513315  [show with all ESTs]
    Unigene Representative Sequence: NM_001193452
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000304301 ENST00000586252 ENST00000586536 ENST00000405142(uc002cxf.2 uc021tci.1 uc002cxe.3)
    ENST00000590460

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    Inhib. RNA
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    Additional cDNA sequence: 

    AK315456.1 BC006223.2 

    6 DOTS entries:

    DT.444812  DT.100785063  DT.97844798  DT.100785060  DT.97823814  DT.100696681 

    24/221 AceView cDNA sequences (see all 221):

    BQ896480 BI914842 CD742779 BQ061114 BQ876940 BQ923183 AW615702 BQ772856 
    AA916287 BU528667 AX747647 BE048047 BC006223 AI220749 CA312905 AI199350 
    BX283674 AW192032 AI202396 BM665408 BM697818 AK092642 CF529180 BI060781 

    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for NUDT16L1    About this scheme

    ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b
    SP1:                                          
    SP2:                          -               
    SP3:                                          


    ECgene alternative splicing isoforms for NUDT16L1

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    NUDT16L1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: ATGCCCGAGG
    NUDT16L1 Expression
    About this image
    See NUDT16L1 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for NUDT16L1

    SOURCE GeneReport for Unigene cluster: Hs.513315
        SABiosciences Custom PCR Arrays for NUDT16L1

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    In Situ
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of chordates.

    Orthologs for NUDT16L1 gene from 3/12 species (see all 12)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    chicken
    (Gallus gallus)
    Aves NUDT16L11 nudix (nucleoside diphosphate linked moiety X)-type more 78.36(n)
    77.73(a)
      395557  NM_204780.1  NP_990111.1 
    lizard
    (Anolis carolinensis)
    Reptilia NUDT166
    --
    47(a)
    1 → many
    2(88312928-88318594)
    zebrafish
    (Danio rerio)
    Actinopterygii zgc:1037596
    FP015790.46
    --
    40(a)
    31(a)
    many ↔ many
    many ↔ many
    23(18873234-18878286)
    23(19097926-19098733)


    ENSEMBL Gene Tree for NUDT16L1 (if available)
    TreeFam Gene Tree for NUDT16L1 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for NUDT16L1 gene
    NUDT162  
    1 SIMAP similar gene for NUDT16L1 using alignment to 4 protein entries:     SDOS_HUMAN (see all proteins):
    NUDT16

    NUDT16L1 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/92 NCBI SNPs in NUDT16L1 are shown (see all 92    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 16 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs735214391,2
    C--4741740(+) GCACCC/TTGCGG 2 -- us2k12Minor allele frequency- T:0.03WA 120
    rs1144927671,2
    F--4741750(+) GCTGGC/TGTGTG 2 -- us2k11Minor allele frequency- T:0.03WA 118
    rs1916063251,2
    --4741768(+) GACGGC/TGGGAG 2 -- us2k10--------
    rs1165264851,2
    F--4741777(+) AGCAGG/TTCTAG 2 -- us2k11Minor allele frequency- T:0.04WA 118
    rs1440447941,2
    --4741831(+) CCTCTC/GCACAG 2 -- us2k10--------
    rs1120471811,2
    C--4741836(+) GCACAG/ACCCCC 2 -- us2k12Minor allele frequency- A:0.04WA 120
    rs1464147691,2
    --4741841(+) GCCCCC/TGCTCC 2 -- us2k10--------
    rs767012391,2
    C,F--4741923(+) TTTGCG/ATGCAG 2 -- us2k11Minor allele frequency- A:0.05EA 120
    rs1408187131,2
    --4741943(+) CCACCA/GTGGCC 2 -- us2k10--------
    rs1438865981,2
    --4741962(+) AAGACC/TGTGAG 2 -- us2k10--------

    HapMap Linkage Disequilibrium report for NUDT16L1 (4743694 - 4745860 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for NUDT16L1: --

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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
      --

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for NUDT16L1 gene, integrated from 9 sources (see all 18):
    (articles sorted by number of sources associating them with NUDT16L1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Evolutionary conservation supports ancient origin for Nudt16, a nuclear-localized, RNA-binding, RNA-decapping enzyme. (PubMed id 18820299)1, 2 Taylor M.J. and Peculis B.A. (2008)
    2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. Syndesmos, a syndecan-4 cytoplasmic domain interactor, binds to the focal adhesion adaptor proteins paxillin and Hic-5. (PubMed id 11805099)1, 3 Denhez F....Goetinck P.F. (2002)
    5. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    6. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    7. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    8. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
    9. Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
    10. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 84309 HGNC: 28154 AceView: SDOS Ensembl:ENSG00000168101 euGenes: HUgn84309
    ECgene: NUDT16L1 H-InvDB: NUDT16L1

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for NUDT16L1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for NUDT16L1 gene:
    Search GeneIP for patents involving NUDT16L1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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