Protocols

Parmodel specifications

Information


Unique identifier OMICS_26816
Name Parmodel
Interface Web user interface
Restrictions to use None
Input data One amino acid sequence and up to eight templates structures.
Computer skills Basic
Maintained No

Publication for Parmodel

Parmodel citations

 (2)
call_split

A lupane triterpene isolated from Combretum leprosum Mart. fruit extracts that interferes with the intracellular development of Leishmania (L.) amazonensis in vitro

2015
BMC Complement Altern Med
PMCID: 4457080
PMID: 26048712
DOI: 10.1186/s12906-015-0681-9
call_split See protocol

[…] The PARMODEL web server [] has been used to model the DNA topoisomerase IB (EC 5.99.1.2) from Leishmania braziliensis in apo form (gene name: LbrM20_V2.3020). The atypical heterodimeric DNA topoisomerase […]

library_books

Functional expression and activity of the recombinant antifungal defensin PvD1r from Phaseolus vulgaris L. (common bean) seeds

2014
BMC Biochem
PMCID: 3996258
PMID: 24690228
DOI: 10.1186/1471-2091-15-7

[…] d using the Gromos96 Swiss-PDB Viewer program. The stereochemical quality of the models was checked using the Ramachandran plots (PROCHECK program) and Profile 3D, both of which were available on the PARMODEL web server [,], and several parameters were analyzed, including the peptide bonds, planarity of the rings of the side chains, and twist angles ϕ and ψ of the main chain. […]

Parmodel institution(s)
Departamento de Fısica UNESP, Sao Jose do Rio Preto, Brazil; Center for Applied Toxicology, Instituto Butantan, Sao Paulo, Brazil
Parmodel funding source(s)
Supported by grants from FAPESP (SMOLBNet, Proc. Num. 01/07532-0,02/04383-7, 04/00217-0) and the Brazilian Council for Scientific and Technological Development.

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