Pfam domain tree construction pipeline This pipeline processes HMM scan outputs, identifies non-overlapping domains, and constructs phylogenies by extracting sequences from the genomes of a given species. This
你有一个蛋白序列,想要得到他的功能区域注释,主要是三种方法。CDD,samrt,interpro. 1.cdd 直接去ncbi可以找到,但是不可以给你给出一个模式图。只有功能区的名字和信息 优点是可以批量处理 2.smart 不是很准。但是图好看 3.pfam(interpro) Pfam: Search Pfam (xfam.org) 以前是叫pfam。现在网站关了,并入了in...
omain search table. PFAM domain search table.PFAM domain search table.Kaneez, FatimaShilu, MathewMohd, SuhailAshraf, AliGhazi, DamanhouriEsam, AzharIshtiaq, Qadri
Pfam domains and domain patterns in the microneme proteins of apicomplexan parasites.Zhongqiang ChenOmar S. HarbDavid S. Roos
http://pfam./search#tabview=tab1 点击submit之后就等邮件就行了。运行完成,可以在邮箱里找到邮件,打开邮件 保存为文本文件 放到TBtools对应的工具中(Others->Domain/Motif Pattern Drawer->...Pfam...) 具体结果... 从这个结果来看,和NCBI CDD 的差别不是非常大, ...
concise/standard/full results该如何选择，选择full results出现的pfam号更多，不同的pfam号该如何选择，...
Computational and experimental studies of plasmodium falciparum protein PfAMA1 domain-II loop dynamics: implications in PfAMA1-PfRON2 binding eventdoi:10.1101/2021.10.10.463826Suman SinhaAnamika BiswasJagannath MondalKalyaneswar MandalCold Spring Harbor Laboratory...
(2012) Assignment of protein sequences to existing domain and family classification systems: Pfam and the PDB. Bioinformatics, 28, 2763-2772.Xu, Q., and Dumbrack, R. L. Jr. (2012). Assignment of protein sequences to existing domain and family classification systems: pfam and the PDB. ...
et al. (1997) Pfam: a comprehensive database of protein domain families based on seed alignments. Proteins, 28, 405-420.Sonnhammer E L, Eddy S R & Durbin R, Pfam: A comprehensive database of protein domain families based on seed alignments, Proteins, 28 (1997) 405-420....
Analyzing protein domain architchure with Pfam and HMMsSonnhammer, ErikSonnhammer, Erik