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    NID1 nidogen 1 [ Homo sapiens (human) ]

    Gene ID: 4811, updated on 4-Feb-2018
    Official Symbol
    NID1provided by HGNC
    Official Full Name
    nidogen 1provided by HGNC
    Primary source
    HGNC:HGNC:7821
    See related
    Ensembl:ENSG00000116962 MIM:131390; Vega:OTTHUMG00000040071
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    NID
    Summary
    This gene encodes a member of the nidogen family of basement membrane glycoproteins. The protein interacts with several other components of basement membranes, and may play a role in cell interactions with the extracellular matrix. [provided by RefSeq, Jul 2008]
    Expression
    Broad expression in placenta (RPKM 93.1), gall bladder (RPKM 48.2) and 20 other tissues See more
    Orthologs
    Location:
    1q42.3
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    108 current GRCh38.p7 (GCF_000001405.33) 1 NC_000001.11 (235975830..236065181, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (236139130..236228481, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene lysosomal trafficking regulator Neighboring gene uncharacterized LOC105373215 Neighboring gene RNA, U5E small nuclear 2, pseudogene Neighboring gene uncharacterized LOC105373212 Neighboring gene RNA, U6 small nuclear 968, pseudogene Neighboring gene aconitase 2, mitochondrial pseudogene Neighboring gene G protein-coupled receptor 137B

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Jun 15 11:32:44 2016

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    NHGRI GWAS Catalog

    Description
    Genome-wide association study identifies nidogen 1 (NID1) as a susceptibility locus to cutaneous nevi and melanoma risk.
    NHGRI GWA Catalog
    • Degradation of the extracellular matrix, organism-specific biosystem (from REACTOME)
      Degradation of the extracellular matrix, organism-specific biosystemMatrix metalloproteinases (MMPs), previously referred to as matrixins because of their role in degradation of the extracellular matrix (ECM), are zinc and calcium dependent proteases belonging to the...
    • Extracellular matrix organization, organism-specific biosystem (from REACTOME)
      Extracellular matrix organization, organism-specific biosystemThe extracellular matrix is a component of all mammalian tissues, a network consisting largely of the fibrous proteins collagen, elastin and associated-microfibrils, fibronectin and laminins embedded...
    • Laminin interactions, organism-specific biosystem (from REACTOME)
      Laminin interactions, organism-specific biosystemLaminins are a large family of conserved, multidomain trimeric basement membrane proteins. There are many theoretical trimer combinations but only 18 have been described (Domogatskaya et al. 2012, Mi...
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    collagen binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    laminin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    laminin-1 binding IEA
    Inferred from Electronic Annotation
    more info
     
    proteoglycan binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    basement membrane organization TAS
    Traceable Author Statement
    more info
    PubMed 
    cell-matrix adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular matrix disassembly TAS
    Traceable Author Statement
    more info
     
    extracellular matrix organization TAS
    Traceable Author Statement
    more info
     
    glomerular basement membrane development IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of cell-substrate adhesion IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    basal lamina IEA
    Inferred from Electronic Annotation
    more info
     
    basement membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cell periphery IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular exosome HDA PubMed 
    extracellular matrix HDA PubMed 
    extracellular matrix IDA
    Inferred from Direct Assay
    more info
    PubMed 
    colocalizes_with extracellular matrix IDA
    Inferred from Direct Assay
    more info
    PubMed 
    colocalizes_with extracellular matrix ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    extracellular region TAS
    Traceable Author Statement
    more info
     
    Preferred Names
    nidogen-1
    Names
    NID-1
    enactin
    entactin

    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.

    Genomic

    1. NG_033228.1 RefSeqGene

      Range
      5001..94352
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_002508.2NP_002499.2  nidogen-1 precursor

      See identical proteins and their annotated locations for NP_002499.2

      Status: REVIEWED

      Source sequence(s)
      AL122018, AL139161, BQ549657, CN267119, DA269707, DN999415, M30269
      Consensus CDS
      CCDS1608.1
      UniProtKB/Swiss-Prot
      P14543
      Related
      ENSP00000264187.6, OTTHUMP00000037970, ENST00000264187.6, OTTHUMT00000096647
      Conserved Domains (8) summary
      smart00135
      Location:10141055
      LY; Low-density lipoprotein-receptor YWTD domain
      smart00179
      Location:710751
      EGF_CA; Calcium-binding EGF-like domain
      smart00539
      Location:106269
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      cd00255
      Location:429660
      nidG2; Nidogen, G2 domain; Nidogen is an important component of the basement membrane, an extracellular sheet-like matrix. Nidogen is a multifunctional protein that interacts with many other basement membrane proteins, like collagen, perlecan, lamin, and has a ...
      pfam00058
      Location:9921029
      Ldl_recept_b; Low-density lipoprotein receptor repeat class B
      pfam00086
      Location:849919
      Thyroglobulin_1; Thyroglobulin type-1 repeat
      pfam12947
      Location:811839
      EGF_3; EGF domain
      pfam14670
      Location:12121236
      FXa_inhibition; Coagulation Factor Xa inhibitory site

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 108

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

    Reference GRCh38.p7 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p7 Primary Assembly

      Range
      235975830..236065181 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011544195.2XP_011542497.1  nidogen-1 isoform X1

      Related
      ENSP00000355554.3, OTTHUMP00000038291, ENST00000366595.7, OTTHUMT00000097390
      Conserved Domains (7) summary
      smart00135
      Location:9721013
      LY; Low-density lipoprotein-receptor YWTD domain
      smart00539
      Location:106269
      NIDO; Extracellular domain of unknown function in nidogen (entactin) and hypothetical proteins
      cd00255
      Location:429660
      nidG2; Nidogen, G2 domain; Nidogen is an important component of the basement membrane, an extracellular sheet-like matrix. Nidogen is a multifunctional protein that interacts with many other basement membrane proteins, like collagen, perlecan, lamin, and has a ...
      pfam00058
      Location:950987
      Ldl_recept_b; Low-density lipoprotein receptor repeat class B
      pfam00086
      Location:807877
      Thyroglobulin_1; Thyroglobulin type-1 repeat
      pfam12947
      Location:769797
      EGF_3; EGF domain
      pfam14670
      Location:11701200
      FXa_inhibition; Coagulation Factor Xa inhibitory site

    Alternate CHM1_1.1

    Genomic

    1. NC_018912.2 Alternate CHM1_1.1

      Range
      237411406..237500740 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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