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PONDR-FIT specifications

Information


Unique identifier OMICS_03617
Name PONDR-FIT
Interface Web user interface
Restrictions to use Academic or non-commercial use
Computer skills Basic
Stability No
Maintained Yes

Publication for PONDR-FIT

PONDR-FIT citations

 (114)
library_books

Deciphering the dark proteome of Chikungunya virus

2018
Sci Rep
PMCID: 5895634
PMID: 29643398
DOI: 10.1038/s41598-018-23969-0

[…] ain is a most causative strain of Chikungunya disease [UniProt ID: Q8JUX6 and Q8JUX5]. Previously, for disorder analysis, several specialized predictors have been developed, for example, PONDR® pool [PONDR® FIT, PONDR® VLS2, PONDR® VLXT], as well as IUPred, DisoPred, DisEMBL, GlobPlot, SPRITZ, and much more. To evaluate the precision of disorder predictors, several aforementioned tools were compar […]

library_books

Understanding the Role of Intrinsic Disorder of Viral Proteins in the Oncogenicity of Different Types of HPV

2018
Int J Mol Sci
PMCID: 5796147
PMID: 29315236
DOI: 10.3390/ijms19010198

[…] ly and the results obtained were compared to each other. shows the number of disordered amino acids at the two termini and the overall percentage of intrinsic disorder of E6 proteins, analyzed by the PONDR-FIT software [].The N-terminal and C-terminal ends of the high-risk HPV E6 proteins were observed to have a higher number of disordered amino acids and a higher percentage of ID relative to the […]

call_split

Bioinformatic Analysis Reveals Conservation of Intrinsic Disorder in the Linker Sequences of Prokaryotic Dual family Immunophilin Chaperones

2017
Comput Struct Biotechnol J
PMCID: 5852385
PMID: 29552333
DOI: 10.1016/j.csbj.2017.12.002
call_split See protocol

[…] rograms, and the PrDOS results agreed with essentially all of them, including several meta-predictors (data not shown), such as MetaDisorder, which compares nearly two dozen different methods [], and PONDR-FIT, which combines five []. For routine analysis, the PrDOS results were downloaded as CSV (comma-separated values) files, and then imported into Excel for further analysis and graphing.For ab […]

library_books

Phosphorylation of multiple sites within an acidic region of Alcadein α is required for kinesin 1 association and Golgi exit of Alcadein α cargo

2017
Mol Biol Cell
PMCID: 5739299
PMID: 29093024
DOI: 10.1091/mbc.E17-05-0301

[…] of the Golgi exit of Alcα and APP remains unclear. Furthermore, an acidic region, which resides between WD1 and WD2 in the Alcα cytoplasmic region, was predicted to be intrinsically disordered by the PONDR-FIT prediction tool (), but the role of this large acidic region in the function and/or metabolism of Alcα has not been revealed.Together with Alcα, other membrane proteins including APP, apolip […]

library_books

Disulfide driven folding for a conditionally disordered protein

2017
Sci Rep
PMCID: 5717278
PMID: 29208936
DOI: 10.1038/s41598-017-17259-4

[…] Intrinsic disorder in hCox17 was predicted using the web-based algorithms FoldIndex, IUPRED, ESpritz, PONDR-FIT and RONN with default settings. An 11-residue sliding window was used in all cases. […]

library_books

Calreticulin: Challenges Posed by the Intrinsically Disordered Nature of Calreticulin to the Study of Its Function

2017
PMCID: 5703715
PMID: 29218307
DOI: 10.3389/fcell.2017.00096

[…] s play an important role in the functionality of human CALR. To start delineate the effects of these SNPs on the tertiary structure of CALR, we used a set of commonly used disorder predictors such as PONDR® FIT (Xue et al., ), PONDR® VSL2 (Obradovic et al., ), and PONDR® VL3 (Peng et al., ) to predict the effects of some of these SNPs on the disorder profiles of the human protein (Figure ). The ef […]

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PONDR-FIT institution(s)
Center for Computational Biology and Bioinformatics, Indiana University School of Medicine, Indianapolis, IN, USA

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