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MEDELLER specifications

Information


Unique identifier OMICS_17628
Name MEDELLER
Interface Web user interface
Restrictions to use None
Input data The input is a template protein structure and a sequence alignment between the target and template proteins.
Input format PIR, PDB, FASTA
Computer skills Basic
Stability Stable
Maintained Yes

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Documentation


Maintainer


  • person_outline Sebastian Kelm <>

Publication for MEDELLER

MEDELLER in publications

 (4)
PMCID: 4530436
PMID: 26112884
DOI: 10.1021/acs.biochem.5b00235

[…] models. it would also be of possible interest to include the recent trpa1 channel structure as an additional template, and possibly to compare the output of membrane protein-specific tools such as medeller and/or rosetta membrane with those of the used modeller. additionally, a more exhaustive alanine scan of the region of the protein identified in this study and/or the use of non-natural […]

PMCID: 4031050
PMID: 24854015
DOI: 10.1371/journal.pcbi.1003636

[…] and individual distorted tmh conformations. they were compared to the starting template and to models generated with the same input information (e.g. alignment, template structure) using 1. medeller , a comparative modeling technique developed for membrane proteins, 2. the widely used modeller comparative modeling method and 3. i-tasser, a widely-used protein structure prediction […]

PMCID: 3999033
PMID: 24763408
DOI: 10.1371/journal.pone.0095767

[…] and transmembrane domains, and (iii) the fact that maraviroc in the ccr5 structure is an allosteric inhibitor which may induce conformational changes to ccr5 that impede gp120 binding , we used medeller to construct three preliminary v3 loop : ccr5 complexes based on . the three preliminary v3 loop : ccr5 docked complexes corresponded to the three lowest binding free energy complexes […]

PMCID: 3716705
PMID: 23894534
DOI: 10.1371/journal.pone.0069744

[…] homology-modeling methods were utilized for prediction. for example, arnold et al. succeeded in modeling human transmembrane protease 3 using remote homology templates. kelm et al. applied medeller to separately model transmembrane cores and loops. because g-protein-coupled receptors (gpcrs) are a major target for the pharmaceutical industry, continuous attention is given […]


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MEDELLER institution(s)
Department of Statistics, University of Oxford, Oxford, UK; UCB Celltech, Branch of UCB Pharma S.A., Slough, UK
MEDELLER funding source(s)
This work was supported by Biotechnology and Biological Sciences Research Council; University of Oxford Doctoral Training Centres.

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