LALIGN statistics

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Citations per year

Number of citations per year for the bioinformatics software tool LALIGN
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Tool usage distribution map

This map represents all the scientific publications referring to LALIGN per scientific context
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Associated diseases

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Popular tool citations

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Protocols

LALIGN specifications

Information


Unique identifier OMICS_15830
Name LALIGN
Interface Web user interface
Restrictions to use None
Input data A query sequence
Programming languages C
Computer skills Basic
Stability Stable
Maintained Yes

LALIGN citations

 (135)
library_books

Effects of Mutations and Ligands on the Thermostability of the l Arginine/Agmatine Antiporter AdiC and Deduced Insights into Ligand Binding of Human l Type Amino Acid Transporters

2018
Int J Mol Sci
PMCID: 5877779
PMID: 29558430
DOI: 10.3390/ijms19030918

[…] The amino acid sequence identity and similarity analyses were carried out with LALIGN (https://embnet.vital-it.ch/software/LALIGN_form.html) by applying local alignment method using default settings, i.e., BLOSUM50 scoring matrix, 3 as number of reported sub-alignments, 10.0 as […]

call_split

Characterization of thiol‐based redox modifications of Brassica napus SNF1‐related protein kinase 2.6‐2C

2018
FEBS Open Bio
PMCID: 5881534
PMID: 29632815
DOI: 10.1002/2211-5463.12401
call_split See protocol

[…] e retrieved according to previous studies , , , , . Sequences were aligned by ClustalW , and the conserved domains were identified as previously described . Sequence identity was calculated using the LALIGN program (http://www.ch.embnet.org/software/LALIGN_form.html). Protein tertiary structure was predicted using the RaptorX structure prediction server (http://raptorx.uchicago.edu/) , and the tem […]

library_books

Pseudomonas rhizophila S211, a New Plant Growth Promoting Rhizobacterium with Potential in Pesticide Bioremediation

2018
Front Microbiol
PMCID: 5829100
PMID: 29527191
DOI: 10.3389/fmicb.2018.00034

[…] Identification of closely related strains to S211 was performed based on Basic Local Alignment Search Tool (BLAST) searches. 16S rRNA gene sequences were aligned with T-Coffee (v11.00.8cbe486) using Lalign_pair and slow_pair alignments (Weng et al., ). The phylogenetic tree was reconstructed using the bayesian inference method implemented in the MrBayes program (v3.2.3). The number of substitutio […]

call_split

The SCO4117 ECF Sigma Factor Pleiotropically Controls Secondary Metabolism and Morphogenesis in Streptomyces coelicolor

2018
Front Microbiol
PMCID: 5826349
PMID: 29515563
DOI: 10.3389/fmicb.2018.00312
call_split See protocol

[…] vidans), SAV_3491 (S. avermitilis), SVEN15_3779 (S. venezuelae), SGR_3904 (S. griseus), and SCLAV_3143/ SCLAV_3144 (S. clavuligerus). Amino acid similarities were estimated using the software package Lalign (http://www.ch.embnet.org/software/LALIGN_form.html). […]

library_books

In vitro and in vivo characterization of three Cellvibrio japonicus glycoside hydrolase family 5 members reveals potent xyloglucan backbone cleaving functions

2018
Biotechnol Biofuels
PMCID: 5816542
PMID: 29467823
DOI: 10.1186/s13068-018-1039-6

[…] molecular replacement using Phaser [] using residues 138–500 of PDB entry 3zmr as the search model [], which align to residues 106–464 of CjGH5D, with which they share 38% identity (using the program lalign from the FASTA package []). The structure was built automatically using Buccaneer [] and refined using cycles of manual model rebuilding using Coot [] followed by refinement with REFMAC [], inc […]

library_books

Adrenergic Agonists Bind to Adrenergic Receptor Like Regions of the Mu Opioid Receptor, Enhancing Morphine and Methionine Enkephalin Binding: A New Approach to “Biased Opioids”?

2018
Int J Mol Sci
PMCID: 5796218
PMID: 29342106
DOI: 10.3390/ijms19010272

[…] of similarity. A variety of human α and β adrenergic receptor and human opioid receptor sequences were identified in the UniProt database (Available online: www.expasy.org). These were compared using LALIGN (Available online: www.expasy.org), BLOSSUM80, local search, all parameters set to default values []. […]


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LALIGN institution(s)
Department of Computer Science, Michigan Technological University, Houghton, MI, USA; Department of Computer Science, The Pennsylvania State University, University Park, PA, USA
LALIGN funding source(s)
This work was supported by Grant R01 LM05110 form the National Library of Medicine.

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