Structural and docking studies of a nucleoside diphosphate kinase 1 (CsNDPK1) from tea [Camellia sinensis (L.) O. Kuntze].
Nucleoside diphosphate kinase (NDPK, EC 2.7.4.6) is a housekeeping gene, which functions in the general homeostasis of cellular nucleoside triphosphate (NTP) pools. Among the various NDPK isoforms, cytosolic NDPK1 has been shown to be the main NDPK isoform in plants, accounting for more than 70 % of total NDPK activity in plants. For the first time, a full-length cDNA (697 bp), designated as CsNDPK1 was cloned from tea leaves and consisted of a 448-bp open reading frame (ORF) encoding a 147-amino-acid polypeptide with calculated molecular mass of 16.1 kDa and a pI of 6.3. Homology modeling of CsNDPK1 shows that the presented tea NDPK1 also contains several motifs, binding and catalytic sites which are highly conserved among other NDPKs. Docking studies of CsNDPK1 with its substrates (NTPs) are discussed in detail. In summary, we describe a reliable model of CsNDPK1 that can be used in structure-based protein-protein interaction studies for identifying its potential role in intracellular communication and its physiological significance in tea.
UPASI-Tea Research Foundation, Nirar Dam B.P.O, Valparai, 642127 Tamil Nadu, India.
Gajjeraman
G
Prabu
Krishnaraj
K
Thirugnanasambantham
Abul Kalam Azad
AK
Mandal
D000595:Amino Acid Sequence; D001483:Base Sequence; D028241:Camellia sinensis / Q000201:enzymology* / Q000235:genetics; D020134:Catalytic Domain; D003001:Cloning, Molecular; D062105:Molecular Docking Simulation; D008969:Molecular Sequence Data; D009701:Nucleoside-Diphosphate Kinase / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism*; D016415:Sequence Alignment; D017386:Sequence Homology, Amino Acid
D009701:Nucleoside-Diphosphate Kinase