User: Hari

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Hari250
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6 years, 6 months ago
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Posts by Hari

<prev • 46 results • page 1 of 5 • next >
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Dataset Of Sequences To Be Mapped On Structure
... Hi all, I would like to map the conservation of amino acids onto a structure,so we have a set of protein domains belonging to a family extracted from HMMer search.We would like to map it on a structure to see how many residues are conserved and how many are variable,now the question is should i c ...
sequence prediction mapping structure written 7.4 years ago by Hari250 • updated 4.0 years ago by Biostar ♦♦ 20
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Answer: A: Conservation Score Of Amino Acid Positions In Human Proteins
... You can try Clustal x which i used for calculation of conservation score,you can download the tool and do the alignment for your sequences,once you have the MSA , select the sequence from the MSA you want and click on quality -> save column scores to file,this will give the score of all the resid ...
written 7.4 years ago by Hari250
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Comment: C: How To Calculate The Contribution Of Interacting Amino Acids In Binding
... +1 for the suggestions ...
written 7.7 years ago by Hari250
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Comment: C: How To Calculate The Contribution Of Interacting Amino Acids In Binding
... Thanks for the suggestions ...
written 7.7 years ago by Hari250
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Comment: C: How To Calculate The Contribution Of Interacting Amino Acids In Binding
... Both Robetta server and Anchor are quite useful for predicting hot-spots,one is accepted answer but +1 for both the answers,thanks a lot ...
written 7.7 years ago by Hari250
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Answer: A: How Can I Determine Whether Two Proteins Have The Same Multi Domain Architecture
... You can use SMART or even PFAM,here is an example query http://pfam.sanger.ac.uk//family/PF00621#tabview=tab1 if you click on domain organisation it will give you the domain combinations for a particular protein. ...
written 7.7 years ago by Hari250 • updated 28 days ago by RamRS24k
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Comment: C: How To Calculate The Contribution Of Interacting Amino Acids In Binding
... 3d structure is available,i have edited the question accordingly ...
written 7.7 years ago by Hari250
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Comment: C: How To Calculate The Contribution Of Interacting Amino Acids In Binding
... yes it is for known structures. ...
written 7.7 years ago by Hari250
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How To Calculate The Contribution Of Interacting Amino Acids In Binding
... Hi all, I would like to know how to calculate the contribution of residues towards binding especially the interacting residues in a known (pdb) protein complex.I did look at the servers suggested for this question http://biostar.stackexchange.com/questions/8354/important-residues-for-protein-prot ...
amino-acids interaction prediction written 7.7 years ago by Hari250 • updated 7.7 years ago by Dkoes10
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Answer: A: Identifying Multiple Domains Using Hmmer 3.0
... Hi all, I was able to detect mutiple domains with hmmscan,all i downloaded the whole Pfam-A.hmm (profile hmm) from pfam and gave my query hmmscan does it automagically. ...
written 7.7 years ago by Hari250

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