Human Gene NEDD1 (ENST00000266742.9_6) from GENCODE V47lift37
  Description: NEDD1 gamma-tubulin ring complex targeting factor, transcript variant 2 (from RefSeq NM_152905.4)
Gencode Transcript: ENST00000266742.9_6
Gencode Gene: ENSG00000139350.13_8
Transcript (Including UTRs)
   Position: hg19 chr12:97,301,035-97,347,558 Size: 46,524 Total Exon Count: 16 Strand: +
Coding Region
   Position: hg19 chr12:97,303,538-97,345,831 Size: 42,294 Coding Exon Count: 14 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:97,301,035-97,347,558)mRNA (may differ from genome)Protein (660 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: NEDD1_HUMAN
DESCRIPTION: RecName: Full=Protein NEDD1; AltName: Full=Neural precursor cell expressed developmentally down-regulated protein 1; Short=NEDD-1;
FUNCTION: Required for mitosis progression. Promotes the nucleation of microtubules from the spindle.
SUBUNIT: Interacts with FAM29A and gamma-tubulin.
SUBCELLULAR LOCATION: Cytoplasm, cytoskeleton, centrosome.
PTM: During mitosis, prior phosphorylation on Thr-550 by CDK1 promotes subsequent phosphorylation by PLK1 on Thr-382, Ser-397, Ser-426 and Ser-637. Phosphorylated NEDD1 can interact with gamma- tubulin for targeting the gamma-tubulin ring complex (gTuRC) to the centrosome, an important step for spindle formation.
SIMILARITY: Contains 8 WD repeats.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 11.05 RPKM in Testis
Total median expression: 175.79 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -99.10305-0.325 Picture PostScript Text
3' UTR -342.301727-0.198 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR015943 - WD40/YVTN_repeat-like_dom
IPR001680 - WD40_repeat
IPR019775 - WD40_repeat_CS
IPR017986 - WD40_repeat_dom

Pfam Domains:
PF00400 - WD domain, G-beta repeat

SCOP Domains:
50952 - Soluble quinoprotein glucose dehydrogenase
50956 - Thermostable phytase (3-phytase)
50960 - TolB, C-terminal domain
63825 - YWTD domain
63829 - Calcium-dependent phosphotriesterase
69304 - Tricorn protease N-terminal domain
101898 - NHL repeat
50965 - Galactose oxidase, central domain
75011 - 3-carboxy-cis,cis-mucoante lactonizing enzyme
101908 - Putative isomerase YbhE
117289 - Nucleoporin domain
50969 - YVTN repeat-like/Quinoprotein amine dehydrogenase
50974 - Nitrous oxide reductase, N-terminal domain
50978 - WD40 repeat-like
50993 - Peptidase/esterase 'gauge' domain
69322 - Tricorn protease domain 2
50998 - Quinoprotein alcohol dehydrogenase-like
51004 - C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
82171 - DPP6 N-terminal domain-like

ModBase Predicted Comparative 3D Structure on Q8NHV4
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0000086 G2/M transition of mitotic cell cycle
GO:0007049 cell cycle
GO:0010389 regulation of G2/M transition of mitotic cell cycle
GO:0051301 cell division
GO:0071539 protein localization to centrosome
GO:0097711 ciliary basal body docking

Cellular Component:
GO:0000242 pericentriolar material
GO:0000922 spindle pole
GO:0005737 cytoplasm
GO:0005813 centrosome
GO:0005814 centriole
GO:0005815 microtubule organizing center
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0036064 ciliary basal body
GO:0045177 apical part of cell


-  Descriptions from all associated GenBank mRNAs
  AK290058 - Homo sapiens cDNA FLJ75002 complete cds, highly similar to Homo sapiens, neural precursor cell expressed,developmentally down-regulated gene 1.
BC026168 - Homo sapiens neural precursor cell expressed, developmentally down-regulated 1, mRNA (cDNA clone IMAGE:4825704), with apparent retained intron.
AK303656 - Homo sapiens cDNA FLJ58662 complete cds, highly similar to Protein NEDD1.
AK315821 - Homo sapiens cDNA, FLJ79470 complete cds, highly similar to Protein NEDD1.
AL832466 - Homo sapiens mRNA; cDNA DKFZp313N211 (from clone DKFZp313N211).
BC020799 - Homo sapiens neural precursor cell expressed, developmentally down-regulated 1, mRNA (cDNA clone IMAGE:4248253), partial cds.
AK093221 - Homo sapiens cDNA FLJ35902 fis, clone TESTI2009577, highly similar to NEDD1 PROTEIN.
AX747997 - Sequence 1522 from Patent EP1308459.
BC027605 - Homo sapiens neural precursor cell expressed, developmentally down-regulated 1, mRNA (cDNA clone MGC:26881 IMAGE:4827191), complete cds.
FW420958 - A use of PSMA7, NEDD1, and RAE1 as the gene expression suppressant.
JD461170 - Sequence 442194 from Patent EP1572962.
DQ891606 - Synthetic construct clone IMAGE:100004236; FLH178577.01X; RZPDo839E09128D neural precursor cell expressed, developmentally down-regulated 1 (NEDD1) gene, encodes complete protein.
DQ894799 - Synthetic construct Homo sapiens clone IMAGE:100009259; FLH178573.01L; RZPDo839E09127D neural precursor cell expressed, developmentally down-regulated 1 (NEDD1) gene, encodes complete protein.
KJ895357 - Synthetic construct Homo sapiens clone ccsbBroadEn_04751 NEDD1 gene, encodes complete protein.
AL832468 - Homo sapiens mRNA; cDNA DKFZp313A0321 (from clone DKFZp313A0321).
LF360266 - JP 2014500723-A/167769: Polycomb-Associated Non-Coding RNAs.
LF207023 - JP 2014500723-A/14526: Polycomb-Associated Non-Coding RNAs.
LF360265 - JP 2014500723-A/167768: Polycomb-Associated Non-Coding RNAs.
LF360264 - JP 2014500723-A/167767: Polycomb-Associated Non-Coding RNAs.
JD066364 - Sequence 47388 from Patent EP1572962.
JD552679 - Sequence 533703 from Patent EP1572962.
JD566049 - Sequence 547073 from Patent EP1572962.
MA595843 - JP 2018138019-A/167769: Polycomb-Associated Non-Coding RNAs.
MA442600 - JP 2018138019-A/14526: Polycomb-Associated Non-Coding RNAs.
MA595842 - JP 2018138019-A/167768: Polycomb-Associated Non-Coding RNAs.
MA595841 - JP 2018138019-A/167767: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q8NHV4 (Reactome details) participates in the following event(s):

R-HSA-380283 Recruitment of additional gamma tubulin/ gamma TuRC to the centrosome
R-HSA-380272 Plk1-mediated phosphorylation of Nlp
R-HSA-380294 Loss of C-Nap-1 from centrosomes
R-HSA-380311 Recruitment of Plk1 to centrosomes
R-HSA-380455 Recruitment of CDK11p58 to the centrosomes
R-HSA-380303 Dissociation of Phospho-Nlp from the centrosome
R-HSA-5626220 C2CD3 binds the mother centriole
R-HSA-380508 Translocation of NuMA to the centrosomes
R-HSA-2574845 AJUBA binds centrosome-associated AURKA
R-HSA-8853405 TPX2 binds AURKA at centrosomes
R-HSA-3000319 BORA binds PLK1 and AURKA
R-HSA-2574840 AJUBA facilitates AURKA autophosphorylation
R-HSA-3000310 AURKA phosphorylates PLK1
R-HSA-5626223 C2CD3 and OFD1 recruit 5 distal appendage proteins to the centriole
R-HSA-5626681 Recruitment of transition zone proteins
R-HSA-5626227 CP110 and CEP97 dissociate from the centriole
R-HSA-380316 Association of NuMA with microtubules
R-HSA-8853419 TPX2 promotes AURKA autophosphorylation
R-HSA-5626228 The distal appendage proteins recruit TTBK2
R-HSA-5638009 CEP164 recruits RAB3IP-carrying Golgi-derived vesicles to the basal body
R-HSA-5626699 MARK4 binds ODF2 in the centriole
R-HSA-5617816 RAB3IP stimulates nucleotide exchange on RAB8A
R-HSA-380270 Recruitment of mitotic centrosome proteins and complexes
R-HSA-380259 Loss of Nlp from mitotic centrosomes
R-HSA-380284 Loss of proteins required for interphase microtubule organization from the centrosome
R-HSA-5620912 Anchoring of the basal body to the plasma membrane
R-HSA-380320 Recruitment of NuMA to mitotic centrosomes
R-HSA-380287 Centrosome maturation
R-HSA-2565942 Regulation of PLK1 Activity at G2/M Transition
R-HSA-8854518 AURKA Activation by TPX2
R-HSA-5617833 Cilium Assembly
R-HSA-68877 Mitotic Prometaphase
R-HSA-69275 G2/M Transition
R-HSA-1852241 Organelle biogenesis and maintenance
R-HSA-68886 M Phase
R-HSA-453274 Mitotic G2-G2/M phases
R-HSA-69278 Cell Cycle (Mitotic)
R-HSA-1640170 Cell Cycle

-  Other Names for This Gene
  Alternate Gene Symbols: B0AZN0, B4E145, ENST00000266742.1, ENST00000266742.2, ENST00000266742.3, ENST00000266742.4, ENST00000266742.5, ENST00000266742.6, ENST00000266742.7, ENST00000266742.8, G3V3F1, NEDD1_HUMAN, NM_152905, Q8NA30, Q8NHV4, uc317iin.1, uc317iin.2
UCSC ID: ENST00000266742.9_6
RefSeq Accession: NM_152905.4
Protein: Q8NHV4 (aka NEDD1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.