ArticleNucleic acids research2006
HHsenser: exhaustive transitive profile search using HMM-HMM comparison.
Article in Nucleic acids research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 45 papers.
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Who cites it
45 citing papers in PubMed.
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- Bacterial kinesin light chain (Bklc) links the Btub cytoskeleton to membranes.Scientific reports · 2017Article
- Tuned SMC Arms Drive Chromosomal Loading of Prokaryotic Condensin.Molecular cell · 2017Article
- The MPI bioinformatics Toolkit as an integrative platform for advanced protein sequence and structure analysis.Nucleic acids research · 2016Article
- Recent Mobility of Casposons, Self-Synthesizing Transposons at the Origin of the CRISPR-Cas Immunity.Genome biology and evolution · 2016Article
- Properties and Phylogeny of 76 Families of Bacterial and Eukaryotic Organellar Outer Membrane Pore-Forming Proteins.PloS one · 2016Article
- Discovery and Functional Characterization of Diverse Class 2 CRISPR-Cas Systems.Molecular cell · 2015Article
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- Vaccinia virus protein A49 is an unexpected member of the B-cell Lymphoma (Bcl)-2 protein family.The Journal of biological chemistry · 2015Article
- The thalidomide-binding domain of cereblon defines the CULT domain family and is a new member of the β-tent fold.PLoS computational biology · 2015Article
- Diversity and variability of NOD-like receptors in fungi.Genome biology and evolution · 2014Article
- morFeus: a web-based program to detect remotely conserved orthologs using symmetrical best hits and orthology network scoring.BMC bioinformatics · 2014Article
- Inhibition of Mycobacterium tuberculosis PknG by non-catalytic rubredoxin domain specific modification: reaction of an electrophilic nitro-fatty acid with the Fe-S center.Free radical biology & medicine · 2013Article
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Authors and funding
4 authors.
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No grant is acknowledged in the PubMed record.
Abstract
HHsenser is the first server to offer exhaustive intermediate profile searches, which it combines with pairwise comparison of hidden Markov models. Starting from a single protein sequence or a multiple alignment, it can iteratively explore whole superfamilies, producing few or no false positives. The output is a multiple alignment of all detected homologs. HHsenser's sensitivity should make it a useful tool for evolutionary studies. It may also aid applications that rely on diverse multiple sequence alignments as input, such as homology-based structure and function prediction, or the determination of functional residues by conservation scoring and functional subtyping.HHsenser can be accessed at http://hhsenser.tuebingen.mpg.de/. It has also been integrated into our structure and function prediction server HHpred (http://hhpred.tuebingen.mpg.de/) to improve predictions for near-singleton sequences.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.