SpermatogenesisOnline 1.0

Tag Content
SG ID
SG00005028 
UniProt Accession
Theoretical PI
7.17  
Molecular Weight
17363 Da  
Genbank Nucleotide ID
Genbank Protein ID
Gene Name
Nme2 
Gene Synonyms/Alias
 
Protein Name
Nucleoside diphosphate kinase B 
Protein Synonyms/Alias
NDK BNDP kinase BEC=2.7.4.6 Histidine protein kinase NDKB;EC=2.7.13.3 P18; nm23-M2; 
Organism
Mus musculus (Mouse) 
NCBI Taxonomy ID
10090 
Chromosome Location
chr:11;93811128-93817573;-1
View in Ensembl genome browser  
Function in Stage
Uncertain 
Function in Cell Type
Uncertain 
Probability (GAS) of Function in Spermatogenesis
0.084920153 
The probability was calculated by GAS algorithm, ranging from 0 to 1. The closer it is to 1, the more possibly it functions in spermatogenesis.
Description
Temporarily unavailable 
Abstract of related literatures
1. A new murine cDNA of nm23/NDP kinase was isolated. A RT-PCR product was obtained from the normal mouse liver mRNA with primers designed for the human nm23-H2 gene. The product was used as a probe to screen a cDNA library from the murine melanoma cell line, B16, and two clones containing the entire open reading frame were obtained. It was predicted that the DNA sequence encoded 152 amino acids which was 98% identical to the nm23-H2 protein. The entire nm23-M1 and -M2 gene-coding regions were translated as fusion proteins with a glutathione S-transferase. These fusion proteins displayed NDP kinase activities. PMID: [1325378] 

2. This study describes comprehensive polling of transcription start and termination sites and analysis of previously unidentified full-length complementary DNAs derived from the mouse genome. We identify the 5' and 3' boundaries of 181,047 transcripts with extensive variation in transcripts arising from alternative promoter usage, splicing, and polyadenylation. There are 16,247 new mouse protein-coding transcripts, including 5154 encoding previously unidentified proteins. Genomic mapping of the transcriptome reveals transcriptional forests, with overlapping transcription on both strands, separated by deserts in which few transcripts are observed. The data provide a comprehensive platform for the comparative analysis of mammalian transcriptional regulation in differentiation and development. PMID: [16141072] 

3. The National Institutes of Health's Mammalian Gene Collection (MGC) project was designed to generate and sequence a publicly accessible cDNA resource containing a complete open reading frame (ORF) for every human and mouse gene. The project initially used a random strategy to select clones from a large number of cDNA libraries from diverse tissues. Candidate clones were chosen based on 5'-EST sequences, and then fully sequenced to high accuracy and analyzed by algorithms developed for this project. Currently, more than 11,000 human and 10,000 mouse genes are represented in MGC by at least one clone with a full ORF. The random selection approach is now reaching a saturation point, and a transition to protocols targeted at the missing transcripts is now required to complete the mouse and human collections. Comparison of the sequence of the MGC clones to reference genome sequences reveals that most cDNA clones are of very high sequence quality, although it is likely that some cDNAs may carry missense variants as a consequence of experimental artifact, such as PCR, cloning, or reverse transcriptase errors. Recently, a rat cDNA component was added to the project, and ongoing frog (Xenopus) and zebrafish (Danio) cDNA projects were expanded to take advantage of the high-throughput MGC pipeline. PMID: [15489334] 

4. Calpain is a Ca2+-regulated cytosolic protease. Mammals have 14 calpain genes, half of which are predominantly expressed in specific organ(s); the rest are expressed ubiquitously. A defect in calpains causes lethality/pathogenicity, indicating their physiological indispensability. nCL-2/calpain-8a was identified as a stomach-specific calpain, whose physiological functions are unclear. To elucidate these, we characterized nCL-2 in detail. Unexpectedly, nCL-2 was localized strictly to the surface mucus cells in the gastric epithelium and the mucus-secreting goblet cells in the duodenum. Yeast two-hybrid screening identified several nCL-2-interacting molecules. Of these, the beta-subunit of coatomer complex (beta-COP) occurs in the stomach pit cells and is proteolyzed by nCL-2 in vitro. Furthermore, beta-COP and nCL-2 co-expressed in COS7 cells co-localized in the Golgi, and Ca2+-ionophore stimulation caused the proteolysis of beta-COP near the linker region, resulting in the dissociation of beta-COP from the Golgi. These results strongly suggest novel functions for nCL-2 that involve the membrane trafficking of mucus cells via interactions with coat protein. PMID: [16476741] 

5. Kinases play a prominent role in tumor development, pointing to the presence of specific phosphorylation patterns in tumor tissues. Here, we investigate whether recently developed high resolution mass spectrometric (MS) methods for proteome and phosphoproteome analysis can also be applied to solid tumors. As tumor model, we used TG3 mutant mice carrying skin melanomas. At total of 100 microg of solid tumor lysate yielded a melanoma proteome of 4443 identified proteins, including at least 88 putative melanoma markers previously found by cDNA microarray technology. Analysis of 2 mg of lysate from dissected melanoma with titansphere chromatography and 8 mg with strong cation exchange together resulted in the identification of more than 5600 phosphorylation sites on 2250 proteins. The phosphoproteome included many hits from pathways important in melanoma. One-month storage at -80 degrees C did not significantly decrease the number of identified phosphorylation sites. Thus, solid tumor can be analyzed by MS-based proteomics with similar efficiency as cell culture models and in amounts compatible with biopsies. PMID: [19367708] 

6. Nucleoside diphosphate kinases (NDPKs) are encoded by the Nme (non-metastatic cell) gene family. Although they comprise a family of 10 genes, NDPK-A and -B are ubiquitously expressed and account for most of the NDPK activity. We previously showed that NDPK-B activates the K(+) channel KCa3.1 via histidine phosphorylation of the C terminus of KCa3.1, which is required for T cell receptor-stimulated Ca(2+) flux and proliferation of activated naive human CD4 T cells. We now report the phenotype of NDPK-B(-/-) mice. NDPK-B(-/-) mice are phenotypically normal at birth with a normal life span. Although T and B cell development is normal in NDPK-B(-/-) mice, KCa3.1 channel activity and cytokine production are markedly defective in T helper 1 (Th1) and Th2 cells, whereas Th17 function is normal. These findings phenocopy studies in the same cells isolated from KCa3.1(-/-) mice and thereby support genetically that NDPK-B functions upstream of KCa3.1. NDPK-A and -B have been linked to an astonishing array of disparate cellular and biochemical functions, few of which have been confirmed in vivo in physiological relevant systems. NDPK-B(-/-) mice will be an essential tool with which to definitively address the biological functions of NDPK-B. Our finding that NDPK-B is required for activation of Th1 and Th2 CD4 T cells, together with the normal overall phenotype of NDPK-B(-/-) mice, suggests that specific pharmacological inhibitors of NDPK-B may provide new opportunities to treat Th1- and Th2-mediated autoimmune diseases. PMID: [20884616] 

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Function
Major role in the synthesis of nucleoside triphosphatesother than ATP. The ATP gamma phosphate is transferred to the NDPbeta phosphate via a ping-pong mechanism, using a phosphorylatedactive-site intermediate. Negatively regulates Rho activity byinteracting with AKAP13/LBC. Exhibits histidine protein kinaseactivity (By similarity). 
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Subcellular Location
Cytoplasm. Cell membrane. 
Tissue Specificity
Expressed in the base region of the oxynticand pyloric mucosae. 
Gene Ontology
GO IDGO termEvidence
GO:0005739 C:mitochondrion IDA:MGI.
GO:0005886 C:plasma membrane IEA:UniProtKB-SubCell.
GO:0005524 F:ATP binding IEA:UniProtKB-KW.
GO:0046872 F:metal ion binding IEA:UniProtKB-KW.
GO:0004550 F:nucleoside diphosphate kinase activity IEA:EC.
GO:0004673 F:protein histidine kinase activity IEA:EC.
GO:0006241 P:CTP biosynthetic process IEA:InterPro.
GO:0006183 P:GTP biosynthetic process IEA:InterPro.
GO:0006228 P:UTP biosynthetic process IEA:InterPro.
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Interpro
IPR001564;    Nucleoside_diP_kinase.
IPR023005;    Nucleoside_diP_kinase_AS.
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Pfam
PF00334;    NDK;    1.
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SMART
SM00562;    NDK;    1.
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PROSITE
PS00469;    NDP_KINASES;    1.
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PRINTS
PR01243;    NUCDPKINASE.;   
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Created Date
18-Oct-2012 
Record Type
GAS predicted 
Sequence Annotation
INIT_MET      1      1       Removed (By similarity).
CHAIN         2    152       Nucleoside diphosphate kinase B.
                             /FTId=PRO_0000137118.
REGION        2     66       Interaction with AKAP13 (By similarity).
ACT_SITE    118    118       Pros-phosphohistidine intermediate (By
                             similarity).
BINDING      12     12       ATP (By similarity).
BINDING      60     60       ATP (By similarity).
BINDING      88     88       ATP (By similarity).
BINDING      94     94       ATP (By similarity).
BINDING     105    105       ATP (By similarity).
BINDING     115    115       ATP (By similarity).
MOD_RES       2      2       N-acetylalanine (By similarity).
MOD_RES      12     12       N6-acetyllysine (By similarity).
MOD_RES      49     49       N6-acetyllysine (By similarity).
MOD_RES      52     52       Phosphotyrosine (By similarity).
MOD_RES      56     56       N6-acetyllysine (By similarity).
MOD_RES      85     85       N6-acetyllysine (By similarity).
MOD_RES      94     94       Phosphothreonine.
MOD_RES     100    100       N6-acetyllysine (By similarity).
MOD_RES     128    128       N6-acetyllysine (By similarity).
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Nucleotide Sequence
Length: 612 bp   Go to nucleotide: FASTA
Protein Sequence
Length: 152 bp   Go to amino acid: FASTA
The verified Protein-Protein interaction information
Other Protein-Protein interaction resources
String database  
View Microarray data
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