Qualitative and Quantitative analysis of 3D predicted arachidonate 15-lipoxygenase-B (15-LOX-2) from Homo sapiens



Neha Arora1, Vinay Kumar Singh2, Kavita Shah3 & Shashi Pandey-Rai1*



1Laboratory of Morphogenesis, CAS in Botany, Faculty of Science, Banaras Hindu University, Varanasi-221005; 2Bioinformatics Center, School of Biotechnology, Banaras Hindu University, Varanasi; 3IESD, BHU, Varanasi


Email; *Corresponding author


Article Type




Received June 05, 2012; Accepted June 09, 2012; Published June 28, 2012



15-Lipoxygenase-2 protein has been reported to play an important role in normal development of prostate, lung, skin, and cornea tissues. It behaves as a suppressor of prostate cancer development by restricting cell cycle progression and implicating a possible protective role against tumor formation. On the basis of the above report, we selected 15-LOX-2 protein to study the structural classification and functional relationship with associated protein network at computational level. Sequence alignment and protein functional study shows that it contains a highly conserved LOX motif. PLAT domain with PF01477 and LH2 domain with PF00305 were successfully observed. Arachidonate 5-lipoxygenase (PDB ID: 3O8Y) was selected as a template with 42% identity. 3D structure was successfully predicted and verified. Qualitative analysis suggests that the predicted model was reliable and stable with best quality. Quantitative study shows that the model contained expected volume and area with best resolution. Predicted and best evaluated model has been successfully deposited to PMDB database with PMDB ID PM0078035. Active site identification revealed GLU369, ALA370, LEU371, THR372, HIS373, LEU374, HIS376, SER377, HIS378, THR385, LEU389, HIS394, PHE399, LYS400, LEU401, ILE403 and PRO404 residues may play a major role during protein-protein, protein-drug and protein-cofactor interactions. STRING database result indicated that IL (4), GPX (2 and 4), PPARG, PTGS (1 and 2), CYP (2J2, 2C8, 4A11 and 2B6), PLA (2G2A, 2G4A, 2G1B and 2G6) and A LOX (5, 15, 12 and 12B) members from their respective gene families have network based functional association with 15-LOX-2.



Qualitative, Quantitative, 3D structure, Ramachandran plot, LOX motif


Arora et al. Bioinformation 8(12): 555-561 (2012)

Edited by

P Kangueane






Biomedical Informatics



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