Regarding protein 3D structure modeling
23 Mar
2012
23 Mar
'12
10:57 p.m.
Hello Sir or all group members,
i have an amino acid sequence and the length is (1106 amino acid). so plz tell me how can i model the complete 3D structure of this much lengthy sequence.
thanking you,
Your Sincerely
--
Vishal
Research Scholar,
University of Delhi,
North Campus
Delhi-110007
M: 91+9650736653
24 Mar
24 Mar
9:57 a.m.
On 3/23/12 10:57 PM, vishal Nemaysh wrote: > i have an amino acid sequence and the length is (1106 amino acid). so > plz tell me how can i model the complete 3D structure of this much > lengthy sequence.
Modeller has no maximum length; modeling a large protein is exactly the same as modeling a small protein. You might have to tweak automodel.max_ca_ca_distance if the protein is especially large though: http://salilab.org/archives/modeller_usage/2011/msg00268.html
Ben Webb, Modeller Caretaker
--
modeller-care@salilab.org http://www.salilab.org/modeller/
Modeller mail list: http://salilab.org/mailman/listinfo/modeller_usage
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vishal Nemaysh