LOMETS pipeline

LOMETS specifications

Information


Unique identifier OMICS_10830
Name LOMETS
Alternative name Local Meta-Threading-Server
Interface Web user interface
Restrictions to use Academic or non-commercial use
Input data Protein sequence
Input format FASTA
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Yang Zhang <>

Publication for Local Meta-Threading-Server

LOMETS IN pipelines

 (6)
2018
PMCID: 5842395
PMID: 29718486
DOI: 10.1093/jisesa/iey011

[…] (i-tasser) server (http://zhanglab.ccmb.med.umich.edu/i-tasser/) for the prediction of tertiary structure. the representative structural template was identified from pdb by a locally installed lomets meta-threading server. models were constructed by iterative tasser simulations. the generated pdb files were then visualized with pymol molecular graphics system., to investigate […]

2018
PMCID: 5924525
PMID: 29597290
DOI: 10.3390/genes9040183

[…] best template based on the qmean score value. the scores and the parameters of the selected templates for all osalba proteins are mentioned in table 2., the amino acid sequences were submitted to lomets [76] to generate 3d structures. the 3d structures predicted for osalba proteins (figure 6) were aligned to their respective templates in the tm-align server [77]. the predicted model […]

2017
PMCID: 5438488
PMID: 28526057
DOI: 10.1186/s13062-017-0184-3

[…] obtained using hhpred were of low sequence identity and in order to gain confidence on the fold assignment, further the same region of gcn1 was analysed using other fold recognition methods such as lomets [17] and phyre2 [18]. all the independent hmm matching and fold recognition methods employed consistently predicted heat repeat containing proteins as related to the 2159–2641 region of gcn1 […]

2015
PMCID: 4311259
PMID: 25633348
DOI: 10.1038/srep08153

[…] structures predicted with psipred51. then, the sequence and the predicted secondary structures are submitted against a pdb structure library using a suit of seven threading programs, all compiled in lomets52. second, continuous fragments are excised from threading alignments and assembled to build structural conformations, with the structure of non-aligned regions modeled ab initio. third, […]

2014
PMCID: 4135291
PMID: 25187683
DOI: 10.6026/97320630010428

[…] was used for analyzing hbx protein., the three dimensional structure of hbx protein from sequence was predicted using threading algorithm by lomet server (http : //zhanglab.ccmb.med.umich.edu /lomets /). for constructing the structure blast was performed against pdb database to identify the sequence identitiy, the final structure was done at lomet server by using amino acid sequence of hbx […]

LOMETS institution(s)
Center for Bioinformatics and Department of Molecular Bioscience, University of Kansas, Lawrence, KS, USA
LOMETS funding source(s)
The project is partially supported by KU Start-up Fund 06194 and NFGRF 2302003.

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