text: user1671: I am trying to find out that which DNA sequences(in the below) have a similar domain to a specific toxin which is Clostridium botulinum
  You can find the fragment of the DNA sequence that belong to that toxin gene below:
  
  gi|27867582 (fragment of the known Clostridium botuninum toxin gene)
    GTGAATCAGCACCTGGACTTTCAGATGAAAAATTAAATTTAACTATCCAAAATGATGCTT
    ATATACCAAAATATGATTCTAATGGAACAAGTGATATAGAACAACATGATGTTAATGAAC
    TTAATGTATTTTTCTATTTAGATGCACAGAAAGTGCCCGAAGGTGAAAATAATGTCAATC
    TCACCTCTTCAATTGATACAGCATTATTAGAACAACCTAAAATATATACATTTTTTTCAT
    CAGAATTTATTAATAATGTCAATAAACCTGTGCAAGCAGC
  
  I ran a blastx job over the above sequence which translates nucleotide into protein. Here's the result.
  The result tells me that. The particular DNA sequence listed above, belongs to botulinum neurotoxin type E [Clostridium botulinum]
  Besides, I am given two DNA sequences:
  >Sequence A
  TCTATCAAGTAGATTATTAAATACTACTGCACAAAATGATTCTTACGTTCCAAAATATGA
  TTCTAATGGTACAAGTGAAATAAAGGAATATACTGTTGATAAACTAAATGTATTTTTCTA
  TTTATATGCACAAAAAGCTCCTGAAGGTGAAAGTGCTATAAGTTTAACTTCTTCAGTTAA
  TACAGCATTATTAGATGCATCTAAAGTTTATACGTTTTTTTCTTCAGATTTTATTAATAC
  
  > Sequence B
  TCCTGGCTCAGGACGAACGCTGGCGGCGTGTGCTTAACACATGCAAGTCGAGCGATGAAG
  CTTCCTTCGGGAAGTGGATTAGCGGCGGACGGGTGAGTAACACGTGGGTAACCTGCCTCA
  AAGTGGGGGATAGCCTTCCGAAAGGAAGATTAATACCGCATAACATAAGAGAATCGCATG
  ATTTTCTTATCAAAGATTTATTGCTTTGAGATGGACCCGCGGCGCATTAGCTAGTTGGTA
  
  Again, I translated them into proteins. The result are listed respectively(A and B):
  https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&RID=Z423E71C015
  https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&RID=Z42AKVWC015
  The first job tells that, Sequence A belongs to botulinum neurotoxin type F [Clostridium baratii] which means that similar domain with the above botulinum neurotoxin>
  Second job tells me that SequenceB belongs to unknown protein [Clostridium botulinum NCTC 2916]. So that means it is not in the same domain with the above botulinum neurotoxin right?
  
  user581: A protein domain is a conserved part of a given protein sequence and (tertiary) structure that can evolve, function, and exist independently of the rest of the protein chain.
  This is different from global protein similarity, so similarity to neurotoxin type F doesn't necessarily mean that sequence A has similar domain to your known toxin gene. Your blast results do include conserved domain information though.
  
original_text: 1671: <p>I am trying to find out that which DNA sequences(in the below) have a similar domain to a specific toxin which is <em>Clostridium botulinum</em></p>
  
  <p>You can find the fragment of the DNA sequence that belong to that toxin gene below:</p>
  
  <blockquote>
    <p>gi|27867582 (fragment of the known Clostridium botuninum toxin gene)
    GTGAATCAGCACCTGGACTTTCAGATGAAAAATTAAATTTAACTATCCAAAATGATGCTT
    ATATACCAAAATATGATTCTAATGGAACAAGTGATATAGAACAACATGATGTTAATGAAC
    TTAATGTATTTTTCTATTTAGATGCACAGAAAGTGCCCGAAGGTGAAAATAATGTCAATC
    TCACCTCTTCAATTGATACAGCATTATTAGAACAACCTAAAATATATACATTTTTTTCAT
    CAGAATTTATTAATAATGTCAATAAACCTGTGCAAGCAGC</p>
  </blockquote>
  
  <p>I ran a blastx job over the above sequence which translates nucleotide into protein. Here's the <a href="https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&amp;RID=Z422R3SJ014" rel="nofollow noreferrer">result</a>.</p>
  
  <p>The result tells me that. The particular DNA sequence listed above, belongs to <em>botulinum neurotoxin type E [Clostridium botulinum]</em></p>
  
  <p>Besides, I am given two DNA sequences:</p>
  
  <pre><code>&gt;Sequence A
  TCTATCAAGTAGATTATTAAATACTACTGCACAAAATGATTCTTACGTTCCAAAATATGA
  TTCTAATGGTACAAGTGAAATAAAGGAATATACTGTTGATAAACTAAATGTATTTTTCTA
  TTTATATGCACAAAAAGCTCCTGAAGGTGAAAGTGCTATAAGTTTAACTTCTTCAGTTAA
  TACAGCATTATTAGATGCATCTAAAGTTTATACGTTTTTTTCTTCAGATTTTATTAATAC
  
  &gt; Sequence B
  TCCTGGCTCAGGACGAACGCTGGCGGCGTGTGCTTAACACATGCAAGTCGAGCGATGAAG
  CTTCCTTCGGGAAGTGGATTAGCGGCGGACGGGTGAGTAACACGTGGGTAACCTGCCTCA
  AAGTGGGGGATAGCCTTCCGAAAGGAAGATTAATACCGCATAACATAAGAGAATCGCATG
  ATTTTCTTATCAAAGATTTATTGCTTTGAGATGGACCCGCGGCGCATTAGCTAGTTGGTA
  </code></pre>
  
  <p>Again, I translated them into proteins. The result are listed respectively(A and B):</p>
  
  <p><a href="https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&amp;RID=Z423E71C015" rel="nofollow noreferrer">https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&amp;RID=Z423E71C015</a></p>
  
  <p><a href="https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&amp;RID=Z42AKVWC015" rel="nofollow noreferrer">https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Get&amp;RID=Z42AKVWC015</a></p>
  
  <p>The first job tells that, Sequence A belongs to <em>botulinum neurotoxin type F [Clostridium baratii]</em> which means that similar domain with the above <em>botulinum neurotoxin</em>></p>
  
  <p>Second job tells me that SequenceB belongs to <em>unknown protein [Clostridium botulinum NCTC 2916]</em>. So that means it is not in the same domain with the above botulinum neurotoxin right?</p>
   581: <p>A <a href="https://en.wikipedia.org/wiki/Protein_domain" rel="nofollow noreferrer">protein domain</a> is a conserved part of a given protein sequence and (tertiary) structure that can evolve, function, and exist independently of the rest of the protein chain.</p>
  
  <p>This is different from global protein similarity, so similarity to neurotoxin type F doesn't necessarily mean that sequence A has similar domain to your known toxin gene. Your blast results do include conserved domain information though.</p>
  