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SEARCHPKS specifications

Information


Unique identifier OMICS_15789
Name SEARCHPKS
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Debasisa Mohanty <>

Publication for SEARCHPKS

SEARCHPKS in publications

 (7)
PMCID: 4863872
PMID: 27199544
DOI: 10.4137/EBO.S32694

[…] the protein sequence of ks domain of pksp (xp_756095.1) of a. fumigatus af293 as a query into blastp. domains in pks were searched by subjecting each putative amino acid sequence to online tools searchpks, mapsidb, and cdd (ncbi). a total of 190 aspergilli pks sequences were retrieved and analyzed in this study. iterative type i pks sequences from other fungi, where polyketide products […]

PMCID: 4751271
PMID: 26903957
DOI: 10.3389/fmicb.2016.00063

[…] domains and their organization. comparative analyses of ks domains of five subject organisms were performed with known polyketide producers and with the structure of polyketides using ncbi cdd and searchpks, respectively. the aa composition was also predicted to substantiate the function of type ii pks and ketosynthase of our interest., profile hidden morkov model (hmm) analysis was carried […]

PMCID: 4210621
PMID: 25301375
DOI: 10.1186/1471-2164-15-885

[…] encoding type i polyketide synthases (orfs kalb_6560 – kalb_6567) with 21 modules in total, each containing different sets of reductase and acyltransferase domains as predicted by antismash and searchpks (figure , additional file : table s1) [, ]. since biosynthesis of the aculeximycin polyketide scaffold is predicted to require 20 condensation steps including loading it makes us believe […]

PMCID: 3826140
PMID: 24129229
DOI: 10.3390/md11103875

[…] putative orfs were predicted using the frameplot 3.0 beta online program [], and function annotation was performed using blast analysis. the pks domains were predicted and analyzed by searching the searchpks database []., deduced amino acid sequences of the halogenase genes retrieved from the strains were searched in the ncbi database. related sequences were aligned using the dnaman program […]

PMCID: 3250452
PMID: 22235310
DOI: 10.1371/journal.pone.0029609

[…] complete and incomplete, published sequencing projects) from the genus clostridium for the occurrence of pks genes. the module architectures encoded in each gene cluster was annotated using the searchpks software . even though nearly 60% of the available genome sequences belong to pathogenic clostridia (six species), we could not detect any pks genes in these genomes. in contrast, 23% […]


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SEARCHPKS institution(s)
National Institute of Immunology, Aruna Asaf Ali Marg, New Delhi, India
SEARCHPKS funding source(s)
This work was supported by grants to the National Institute of Immunology from the Department of Biotechnology, Government of India.

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