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SmartBlast specifications

Information


Unique identifier OMICS_16325
Name SmartBlast
Interface Web user interface
Restrictions to use None
Input data One protein accession.
Input format FASTA
Computer skills Basic
Stability Stable
Maintained No

SmartBlast citations

 (15)
call_split

Gene Expression of Pneumocystis murina after Treatment with Anidulafungin Results in Strong Signals for Sexual Reproduction, Cell Wall Integrity, and Cell Cycle Arrest, Indicating a Requirement for Ascus Formation for Proliferation

2018
Antimicrob Agents Chemother
PMCID: 5923105
PMID: 29463544
DOI: 10.1128/AAC.02513-17
call_split See protocol

[…] The BLASTp suite was used to assign initial gene homologies with a post hoc analysis using SmartBLAST (National Library of Medicine, National Center for Biotechnology Information), which is available from https://blast.ncbi.nlm.nih.gov/smartblast/. SmartBLAST is a new tool from NCBI that wi […]

library_books

De novo draft assembly of the Botrylloides leachii genome provides further insight into tunicate evolution

2018
Sci Rep
PMCID: 5882950
PMID: 29615780
DOI: 10.1038/s41598-018-23749-w

[…] Genes and transcripts for each examined genome were identified by a tBLASTn search (e-value cut-off of 10−5) using the SequencerServer software. This was followed by a reciprocal BLAST using SmartBLAST, to confirm their identity.Conserved protein domains used to identify the corresponding orthologous proteins within tunicate genomes are found in Table . […]

library_books

SAAV2152 is a single stranded DNA binding protein: the third SSB in Staphylococcus aureus

2018
Oncotarget
PMCID: 5945547
PMID: 29755648
DOI: 10.18632/oncotarget.24427

[…] e for SSBs with SaSsbC showed that they could be classified into at least 6 groups (Figure ). Although SaSsbC and SpSsbA share 34% identity, they were classified into different phylogenetic groups by SmartBlast. […]

library_books

Unique tRNA gene profile suggests paucity of nucleotide modifications in anticodons of a deep sea symbiotic Spiroplasma

2018
Nucleic Acids Res
PMCID: 5861454
PMID: 29390076
DOI: 10.1093/nar/gky045

[…] in the genome were searched using tRNAscan (). The genes for potential tRNA posttranscriptional modifications and their targets were predicted with tRNAmodpred (). Phylogeny-based filtration and NCBI SmartBLAST were performed to examine the output of tRNAmodpred. […]

library_books

Database resources of the National Center for Biotechnology Information

2017
Nucleic Acids Res
PMCID: 5753372
PMID: 29140470
DOI: 10.1093/nar/gkx1095

[…] The SmartBLAST service quickly returns the most similar proteins to a query, and was updated in 2017 to prioritize matching proteins to the ‘landmark’ database that contains proteomes from 26 well-annotat […]

call_split

A Journey across Genomes Uncovers the Origin of Ubiquinone in Cyanobacteria

2017
Genome Biol Evol
PMCID: 5714133
PMID: 29106540
DOI: 10.1093/gbe/evx225
call_split See protocol

[…] on of this method was developed and showed high correlation with the results of genomic chimaerism obtained previously (; ). This method is based on the computation of the top five hits obtained with smartBLAST [https://blast.ncbi.nlm.nih.gov/smartblast/] for about 100 proteins essential for membrane and energy metabolism (the list of these proteins will be made available upon request). The result […]

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