<font face="바탕" size="2">Pfam은 [[ProDom]]에서 진화한 것으로 개념적으로 [[PROSITE]] profile들과 연관된 [[HMM]]들의 집합이다<p>The <strong>Pfam</strong> database contains information about protein domains and families. Pfam-A is the manually curated portion of the database that contains over 9,000 entries. For each entry a protein sequence alignment and a hidden Markov model is stored. These hidden Markov models can be used to search sequence databases with the HMMer package written by Sean Eddy. Because the entries in Pfam-A do not cover all known proteins an automatically generated supplement is provided called Pfam-B. Pfam-B is derived from the PRODOM database.</p><p>The database <strong>iPfam</strong> builds on the domain description of Pfam.It investigates if different proteins described together in the protein structure database PDB are close enough to potentially interact.</p><p>&nbsp;</p><h2><span class="mw-headline">See also</span></h2><ul> <li>TrEMBL Database performing an automated protein sequence annotation </li> <li>InterPro Integration of protein domain and protein family databases </li></ul><p>&nbsp;<br /p><h2><span class="mw-headline">References</span></h2><ul> <li><cite style="FONT-STYLE: normal">Finn RD, Mistry J, Schuster-Bockler B, Griffiths-Jones S, Hollich V, Lassmann T, Moxon S, Marshall M, Khanna A, Durbin R, Eddy SR, Sonnhammer EL, Bateman A (2006). &quot;Pfam: clans, web tools and services&quot;. <em>Nucleic Acids Res.</em> <strong>34</strong>: D247-D251. PMID 16381856.</cite><span class="Z3988" title="ctx_ver=Z39.88-2004&amp;rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&amp;rft.genre=article&amp;rft.atitle=Pfam 모델들은 전형적으로 완전한 단백질 도메인들에 걸쳐 있으며 HMMER package나 Web%3A+clans%2C+web+tools+and+services&amp;rft.jtitle=Nucleic+Acids+Res.&amp;rft.date=2006&amp;rft.volume=34&amp;rft.au=Finn+RD%2C+Mistry+J%2C+Schuster-based server로 검색될 수 있다Bockler+B%2C+Griffiths-Jones+S%2C+Hollich+V%2C+Lassmann+T%2C+Moxon+S%2C+Marshall+M%2C+Khanna+A%2C+Durbin+R%2C+Eddy+SR%2C+Sonnhammer+EL%2C+Bateman+A&amp;rft.pages=D247-D251">&nbsp;<br /span> </li></ul><ul>현재의 버전은 Pfam20으로 8296개의 모델들을 포함하고 있다 <li><cite style="FONT-STYLE: normal">Finn RD, Marshall M, Bateman A (2005).&nbspquot;iPfam: visualization of protein-protein interactions in PDB at domain and amino acid resolutions&quot;. <em>Bioinformatics</em> <strong>21</strong>: 410-412. PMID 15353450.<br /cite>PROSITE profile과 유사하게 Pfam 모델들은 분명한 [[homolog]]들로부터 출발하여 점차적으로 먼 집단들의 구성원들을 포함시키면서 반복적으로 정련된다<span class="Z3988" title="ctx_ver=Z39.88-2004&amp;rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&amp;rft. genre=article&nbspamp;r들의 informationrft.atitle=iPfam%3A+visualization+of+protein-rich descriptor들 때문에 두가지 집합들은 다른 방법으로는 드물게 발견되는 단백질 모티브의 매우 먼 예도 검출한다protein+interactions+in+PDB+at+domain+and+amino+acid+resolutions&amp;rft.jtitle=Bioinformatics&amp;rft.date=2005&amp;rft.volume=21&amp;rft.au=Finn+RD%2C+Marshall+M%2C+Bateman+A&amp;rft.pages=410-412">&nbsp;<br /span> </li><br /ul><ul> <li><cite style="FONT-STYLE: normal">PROSITE와는 대조적으로 Pfam entry들은 semiBateman A, Coin L, Durbin R, Finn RD, Hollich V, Griffiths-automatic하게 생성되고Jones S, 이것은 비교적 낮은 정밀도를 보여주지만 개정과정은 보다 쉽다Khanna A, Marshall M, Moxon S, Sonnhammer EL, Studholme DJ, Yeats C, Eddy SR (2004).&nbspquot;The Pfam protein families database&quot;. <em>Nucleic Acids Res.</em> <strong>32(Database issue)</strong>: D138-D141. PMID 14681378.<br /cite><span class="Z3988" title="ctx_ver=Z39.88-2004&amp;rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&amp;rft.genre=article&amp;rft.atitle=The+Pfam documentation은 최소한이지만 자주 상응하는 PROSITE entry에 대한 연결이 포함되어 있다+protein+families+database&amp;rft.jtitle=Nucleic+Acids+Res.&amp;rft.date=2004&amp;rft.volume=32%28Database+issue%29&amp;rft.au=Bateman+A%2C+Coin+L%2C+Durbin+R%2C+Finn+RD%2C+Hollich+V%2C+Griffiths-Jones+S%2C+Khanna+A%2C+Marshall+M%2C+Moxon+S%2C+Sonnhammer+EL%2C+Studholme+DJ%2C+Yeats+C%2C+Eddy+SR&amp;rft.pages=D138-D141">&nbsp;<br /span> </li></ul><p>Pfam 모델들과 PROSITE profile들은 상호전환이 이루어질 수 있고, 조합 검색이 가능하다.&nbsp;</p><h2><span class="mw-headline">External links</span></h2><ul> <li>Pfam - Protein family database at Sanger Institute UK </li> <li>Pfam - Protein family database at Janelia Farm Research Campus USA </li> <li>Pfam - Protein family database at Center for Genomics and Bioinformatics Sweden </li> <li>iPfam - Interactions of Pfam domains in PDB </li></ul><div class="boilerplate metadata" id="stub"></div><p><br clear="all" />[[SMART]] 데이터베이스는 신호전달에 포함된 단백질 도메인들에 초점을 맞춘 181개의 HMM들의 독립적인 집합이다. </p></font>