NID1

Protein identityUniProt · HPA

UniProt accession

P14543

Gene

NID1

Ensembl

ENSG00000116962

Chromosome

1

Canonical length

1247 aa

Protein class

Plasma proteins, Predicted secreted proteins

Subcellular location

Vesicles,Mitotic spindle

Secretome location

Secreted to extracellular matrix

OverviewNCBI Gene

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]

Canonical amino-acid sequenceUniProt

1247 residues, UniProt reviewed canonical sequence.

>P14543|NID1
     1  MLASSSRIRA AWTRALLLPL LLAGPVGCLS RQELFPFGPG QGDLELEDGD DFVSPALELS
    61  GALRFYDRSD IDAVYVTTNG IIATSEPPAK ESHPGLFPPT FGAVAPFLAD LDTTDGLGKV
   121  YYREDLSPSI TQRAAECVHR GFPEISFQPS SAVVVTWESV APYQGPSRDP DQKGKRNTFQ
   181  AVLASSDSSS YAIFLYPEDG LQFHTTFSKK ENNQVPAVVA FSQGSVGFLW KSNGAYNIFA
   241  NDRESVENLA KSSNSGQQGV WVFEIGSPAT TNGVVPADVI LGTEDGAEYD DEDEDYDLAT
   301  TRLGLEDVGT TPFSYKALRR GGADTYSVPS VLSPRRAATE RPLGPPTERT RSFQLAVETF
   361  HQQHPQVIDV DEVEETGVVF SYNTDSRQTC ANNRHQCSVH AECRDYATGF CCSCVAGYTG
   421  NGRQCVAEGS PQRVNGKVKG RIFVGSSQVP IVFENTDLHS YVVMNHGRSY TAISTIPETV
   481  GYSLLPLAPV GGIIGWMFAV EQDGFKNGFS ITGGEFTRQA EVTFVGHPGN LVIKQRFSGI
   541  DEHGHLTIDT ELEGRVPQIP FGSSVHIEPY TELYHYSTSV ITSSSTREYT VTEPERDGAS
   601  PSRIYTYQWR QTITFQECVH DDSRPALPST QQLSVDSVFV LYNQEEKILR YALSNSIGPV
   661  REGSPDALQN PCYIGTHGCD TNAACRPGPR TQFTCECSIG FRGDGRTCYD IDECSEQPSV
   721  CGSHTICNNH PGTFRCECVE GYQFSDEGTC VAVVDQRPIN YCETGLHNCD IPQRAQCIYT
   781  GGSSYTCSCL PGFSGDGQAC QDVDECQPSR CHPDAFCYNT PGSFTCQCKP GYQGDGFRCV
   841  PGEVEKTRCQ HEREHILGAA GATDPQRPIP PGLFVPECDA HGHYAPTQCH GSTGYCWCVD
   901  RDGREVEGTR TRPGMTPPCL STVAPPIHQG PAVPTAVIPL PPGTHLLFAQ TGKIERLPLE
   961  GNTMRKTEAK AFLHVPAKVI IGLAFDCVDK MVYWTDITEP SIGRASLHGG EPTTIIRQDL
  1021  GSPEGIAVDH LGRNIFWTDS NLDRIEVAKL DGTQRRVLFE TDLVNPRGIV TDSVRGNLYW
  1081  TDWNRDNPKI ETSYMDGTNR RILVQDDLGL PNGLTFDAFS SQLCWVDAGT NRAECLNPSQ
  1141  PSRRKALEGL QYPFAVTSYG KNLYFTDWKM NSVVALDLAI SKETDAFQPH KQTRLYGITT
  1201  ALSQCPQGHN YCSVNNGGCT HLCLATPGSR TCRCPDNTLG VDCIEQK

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against NID1 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability

Secreted

Secreted

Yes

Transmembrane segments

0

Mean surface accessibility (rSASA)

0.32

Highest tissue expression

217 nTPM

Expression across tissuesHPA

DiseaseUniProt · ClinVar · IEDB · PubMed

Four sources answering four different questions about NID1.

Disease | GeneticClinVar

2 pathogenic / likely-pathogenic of 316 ClinVar records.

Conditions with pathogenic or likely-pathogenic variants.

• Focal epilepsy
• Hemiparesis
• Hydrocephalus

Disease | AutoantibodyPubMed

Conditions in which antibodies against NID1 are reported. Each links to that disease's full target list.

• Anti-Glomerular Basement Membrane Disease 3
• Glomerulonephritis 3

ReferencesPubMed · IEDB

Publications for NID1 from three distinct lines of evidence, kept separate because they answer different questions: whether antibodies are directed at the protein, whether a B-cell epitope has been mapped on it, and whether a T-cell epitope has. Each is labelled with its source.

Sources: PubMed — antigen-level antibody evidence from a custom retrieval. Records matching a controlled set of autoantibody terms (the MeSH descriptors Autoantibodies and Autoantigens, with title and abstract term variants) were obtained through NCBI E-utilities, and their titles and abstracts parsed for constructions that direct an antibody at a named protein rather than for co-occurrence. Captured names were resolved against UniProt nomenclature and each antigen adjudicated individually against the source text. Bibliographic records from PubMed and MeSH, U.S. National Library of Medicine; citation metrics from NIH iCite (Hutchins et al., PLoS Biology 2016). Titles link to PubMed; abstracts are not reproduced here. The NLM does not endorse this analysis.

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)

0.65

gnomAD pLI

0

gnomAD missense Z

0.48

DepMap mean gene effect

-0.04

DepMap dependency class

none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 5% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

• basement membrane organization
• cell-matrix adhesion
• glomerular basement membrane development
• positive regulation of cell adhesion
• positive regulation of cell-substrate adhesion
• positive regulation of integrin-mediated signaling pathway
• positive regulation of muscle cell differentiation
• regulation of basement membrane organization

Molecular functions

• calcium ion binding
• collagen binding
• extracellular matrix structural constituent
• laminin binding
• laminin-1 binding
• proteoglycan binding

Cellular components

• basement membrane
• extracellular exosome
• extracellular matrix
• extracellular region
• protein complex involved in cell-matrix adhesion

Protein domainsUniProt · Pfam · InterPro

• LDLR class B repeat
• EGF-type aspartate/asparagine hydroxylation site
• Thyroglobulin type-1
• EGF-like domain
• EGF-like calcium-binding domain
• NIDO domain
• G2 nidogen/fibulin G2F
• Green fluorescent protein
• Growth factor receptor cysteine-rich domain superfamily
• Six-bladed beta-propeller, TolB-like
• EGF-like calcium-binding, conserved site
• NELL2-like, EGF domain
• Complement Clr-like EGF domain
• Thyroglobulin type-1 superfamily
• NOTCH1, EGF-like calcium-binding domain
• Low-density lipoprotein receptor repeat class B
• Thyroglobulin type-1 repeat
• Nidogen-like
• G2F domain
• Calcium-binding EGF domain
• Complement Clr-like EGF-like
• EGF domain
• Coagulation Factor Xa inhibitory site

KeywordsUniProt

• Basement membrane
• Calcium
• Cell adhesion
• Disulfide bond
• EGF-like domain
• Extracellular matrix
• Glycoprotein
• Repeat
• Secreted
• Signal
• Sulfation

InteractionsUniProt · HPA

Protein binding partners of NID1 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

• FBLN1
• LGALS3BP
• PLXDC1
• SVEP1
• COL18A1