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Indian Journal of Biotechnology (IJBT) >
IJBT Vol.11 [2012] >
IJBT Vol.11(2) [April 2012] >
| Title: | In silico 3-D structure prediction of cytochrome b protein of sisorid catfish Glyptothorax ngapang |
| Authors: | Singh, Mahender
Gupta, Ashish
Lakra, W S |
| Keywords: | Chicken
Cytochrome bc1 complex
Glyptothorax ngapang
Modeling
Ramchandran plot
Target |
| Issue Date: | Apr-2012 |
| Publisher: | NISCAIR-CSIR, India |
| Abstract: | Samples of cold water catfish Glyptothorax
ngapang were collected from Iril River at Serou, Manipur. Full length
cytochrome b (cyt b) was amplified with primer pair L14724 and H15915 in 14
samples. PCR products were sequenced using automated ABI 3730 sequencer and
submitted to NCBI. The nucleotide sequences were converted to amino acid
sequences by defining the reading frame. Before prediction, it was confirmed
that no 3-D structure was available for this protein in fish. A comparative
modeling method was used for the prediction of the structure of cyt b protein.
For the modeling, template protein 1BCC chain C, having identity 88%, E value
6e-175 and alignment score 1571, was obtained by Geno3D server. By comparing
the template protein, a rough model was constructed for the target protein
using MODELLER, a program for comparative modeling. The structure of cyt b
protein of G. ngapang was found to
resemble to a high resolution structure of 1BCC
chain C of cytochrome bc1 complex from chicken. From Ramachandran plot
analysis, it was observed that the percentage of residues falling into the most
favoured regions was 93.1%. |
| Page(s): | 156-162 |
| CC License: |  CC Attribution-Noncommercial-No Derivative Works 2.5 India |
| ISSN: | 0975-0967 (Online); 0972-5849 (Print) |
| Source: | IJBT Vol.11(2) [April 2012]
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