Human Gene NME3 (ENST00000219302.8_6) from GENCODE V47lift37
  Description: NME/NM23 nucleoside diphosphate kinase 3 (from RefSeq NM_002513.3)
Gencode Transcript: ENST00000219302.8_6
Gencode Gene: ENSG00000103024.8_10
Transcript (Including UTRs)
   Position: hg19 chr16:1,820,321-1,821,544 Size: 1,224 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr16:1,820,650-1,821,535 Size: 886 Coding Exon Count: 5 

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 (chr16:1,820,321-1,821,544)mRNA (may differ from genome)Protein (169 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: NDK3_HUMAN
DESCRIPTION: RecName: Full=Nucleoside diphosphate kinase 3; Short=NDK 3; Short=NDP kinase 3; EC=2.7.4.6; AltName: Full=DR-nm23; AltName: Full=Nucleoside diphosphate kinase C; Short=NDPKC; AltName: Full=nm23-H3;
FUNCTION: Major role in the synthesis of nucleoside triphosphates other than ATP. The ATP gamma phosphate is transferred to the NDP beta phosphate via a ping-pong mechanism, using a phosphorylated active-site intermediate. Probably has a role in normal hematopoiesis by inhibition of granulocyte differentiation and induction of apoptosis.
CATALYTIC ACTIVITY: ATP + nucleoside diphosphate = ADP + nucleoside triphosphate.
COFACTOR: Magnesium (By similarity).
DEVELOPMENTAL STAGE: Preferentially expressed at early stages of myeloid differentiation of highly purified CD34+ cells.
SIMILARITY: Belongs to the NDK family.

-  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: 73.14 RPKM in Pituitary
Total median expression: 1724.48 RPKM



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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
3' UTR -135.80329-0.413 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
IPR001564 - Nucleoside_diP_kinase
IPR023005 - Nucleoside_diP_kinase_AS

Pfam Domains:
PF00334 - Nucleoside diphosphate kinase

SCOP Domains:
54919 - Nucleoside diphosphate kinase, NDK

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1ZS6 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q13232
FrontTopSide
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:0000166 nucleotide binding
GO:0004550 nucleoside diphosphate kinase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016301 kinase activity
GO:0016740 transferase activity
GO:0046872 metal ion binding

Biological Process:
GO:0006165 nucleoside diphosphate phosphorylation
GO:0006183 GTP biosynthetic process
GO:0006228 UTP biosynthetic process
GO:0006241 CTP biosynthetic process
GO:0006915 apoptotic process
GO:0009117 nucleotide metabolic process
GO:0015949 nucleobase-containing small molecule interconversion
GO:0016310 phosphorylation
GO:0042981 regulation of apoptotic process

Cellular Component:
GO:0005622 intracellular
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  BC000250 - Homo sapiens non-metastatic cells 3, protein expressed in, mRNA (cDNA clone MGC:1695 IMAGE:3357930), complete cds.
AK308663 - Homo sapiens cDNA, FLJ98704.
U29656 - Human DR-nm23 mRNA, complete cds.
LF210734 - JP 2014500723-A/18237: Polycomb-Associated Non-Coding RNAs.
JD269900 - Sequence 250924 from Patent EP1572962.
JD355251 - Sequence 336275 from Patent EP1572962.
JD154789 - Sequence 135813 from Patent EP1572962.
JD216540 - Sequence 197564 from Patent EP1572962.
JD105136 - Sequence 86160 from Patent EP1572962.
JD479126 - Sequence 460150 from Patent EP1572962.
JD479124 - Sequence 460148 from Patent EP1572962.
DQ892515 - Synthetic construct clone IMAGE:100005145; FLH187057.01X; RZPDo839D0472D non-metastatic cells 3, protein expressed in (NME3) gene, encodes complete protein.
KJ897250 - Synthetic construct Homo sapiens clone ccsbBroadEn_06644 NME3 gene, encodes complete protein.
KJ905241 - Synthetic construct Homo sapiens clone ccsbBroadEn_14716 NME3 gene, encodes complete protein.
EU176697 - Synthetic construct Homo sapiens clone IMAGE:100011496; FLH187056.01L; RZPDo839C05255D non-metastatic cells 3, protein expressed in (NME3) gene, encodes complete protein.
AB528303 - Synthetic construct DNA, clone: pF1KB6833, Homo sapiens NME3 gene for non-metastatic cells 3, protein expressed in, without stop codon, in Flexi system.
JD140447 - Sequence 121471 from Patent EP1572962.
MA446311 - JP 2018138019-A/18237: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
PWY-7176 - UTP and CTP de novo biosynthesis
PWY-7184 - pyrimidine deoxyribonucleotides de novo biosynthesis
PWY-7197 - pyrimidine deoxyribonucleotide phosphorylation
PWY-7200 - superpathway of pyrimidine deoxyribonucleoside salvage
PWY-7205 - CMP phosphorylation
PWY-7210 - pyrimidine deoxyribonucleotides biosynthesis from CTP
PWY-7211 - superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis
PWY-7221 - guanosine ribonucleotides de novo biosynthesis
PWY-7224 - purine deoxyribonucleosides salvage
PWY-7226 - guanosine deoxyribonucleotides de novo biosynthesis
PWY-7227 - adenosine deoxyribonucleotides de novo biosynthesis
PWY-7228 - guanosine nucleotides de novo biosynthesis
PWY-841 - purine nucleotides de novo biosynthesis
PWY0-162 - superpathway of pyrimidine ribonucleotides de novo biosynthesis
PWY66-409 - superpathway of purine nucleotide salvage

Reactome (by CSHL, EBI, and GO)

Protein Q13232 (Reactome details) participates in the following event(s):

R-HSA-6806877 NMEs phosphorylate NDPs to NTPs
R-HSA-499943 Interconversion of nucleotide di- and triphosphates
R-HSA-15869 Metabolism of nucleotides
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000219302.1, ENST00000219302.2, ENST00000219302.3, ENST00000219302.4, ENST00000219302.5, ENST00000219302.6, ENST00000219302.7, NDK3_HUMAN, NM_002513, Q13232, Q9BWH4, uc317cxa.1, uc317cxa.2
UCSC ID: ENST00000219302.8_6
RefSeq Accession: NM_002513.3
Protein: Q13232 (aka NDK3_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.