HHblits pipeline

HHblits specifications


Unique identifier OMICS_05171
Name HHblits
Alternative name HMM-HMM-based lightning-fast iterative sequence search
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes


  • person_outline Johannes Soding <>

Publication for HMM-HMM-based lightning-fast iterative sequence search

HHblits citations

PMCID: 5305211

[…] the formation or maintenance of compact heterochromatic regions remains an important goal., search for homologous proteins of full-length drosophila iswi and alignment of sequences were done using hhblits with standard settings. sequence logos of conserved ntr motifs were derived with weblogo three from this alignment (schneider and stephens, 1990). proteins containing the pphsa motif […]

PMCID: 4833323

[…] extremely low scores (i.e., 2.34 for f_orf141 and 3.36 for m_orf138; see s4 table)., the presence of f_orf141 was also searched for in all available bivalve complete mitochondrial genomes using hhblits. in all the other available meretrix species, a homolog was found in the reverse strand, within the lur. all homologous orfs have a probability over 90%, while e-value and p-value were always […]

HHblits institution(s)
Gene Center and Center for Integrated Protein Science Munich, Ludwig-Maximilians Universit√§t M√ľnchen, Munich, Germany

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