ENCoM statistics

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Associated diseases

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ENCoM specifications

Information


Unique identifier OMICS_08059
Name ENCoM
Alternative name Elastic Network Contact Model
Interface Web user interface
Restrictions to use None
Input format PDB
Computer skills Basic
Stability Stable
Maintained Yes

Maintainers


  • person_outline Rafael Najmanovich <>
  • person_outline François Major <>

Information


Unique identifier OMICS_08059
Name ENCoM
Alternative name Elastic Network Contact Model
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C, Perl
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainers


  • person_outline Rafael Najmanovich <>
  • person_outline François Major <>

Publications for Elastic Network Contact Model

ENCoM in publications

 (6)
PMCID: 5864748
PMID: 29567948
DOI: 10.1038/s41598-018-23423-1

[…] residues and calculates the changes in stability of protein-protein, protein-nucleic acid and protein-ligand interactions. finally, we used, a vibrational entropy and enthalpy-based approach (encom and foldx4), to measure the impact of mutations on the flexible conformations of rnap. prediction of stability of rnap complex by mcsm indicated a stabilizing effect for mutations d441y […]

PMCID: 5835713
PMID: 29437904
DOI: 10.1042/BSR20171113

[…] coupling’ concept (refer to goncearenco et al. [] for more details) in spacer.structural thermal stability: thermal stability of the modeled rt–nnrti complex structures were evaluated using the encom [] (standalone version; according to the protocol []) with the wild-type control (pdb: 3t19) for the corresponding mutations. the estimated free energy change (δδg including vibrational entropy […]

PMCID: 5850734
PMID: 29294020
DOI: 10.1093/molbev/msx325

[…] were excluded (henceforth referred to as the nonlethal model). a model built by including the lethal mutations with 8 different predictors (ease-mm δδg, i-mutant δδg, neemo δδg, popmusic δδg, encom δδg, sdm δδg, secondary structure and face location [catalytic or stability face]; c and d, online; henceforth referred to as the lethal model) explained 50% of the observed variance. thus, […]

PMCID: 5367698
PMID: 28450967
DOI: 10.1007/s12549-016-0268-6

[…] circulating hydrothermal fluids generated during post-oligocene basalt flood event(s). this hydrothermal circulation resulted in a significant post-depositional alteration and in an accompanying all encom-passing homogenization of the mineralogical and major element composition of the entire eocene to miocene succession. the trace element composition, i.e. th/sc and zr/sc ratios, however, […]

PMCID: 5187361
PMID: 28083537
DOI: 10.3389/fmolb.2016.00085

[…] doniach, ; mahajan and sanejouand, )., during the past few years, several web-servers performing on-line normal mode analysis (nma) have been set up and described: elnemo (suhre and sanejouand, ), encom (frappier et al., ), [email protected] (tiwari et al., ), anm 2.0 (eyal et al., ), ad-enm (zheng and doniach, ), nmsim (kruger et al., ). we have extended and updated our own server, nomad-ref (lindahl et […]


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ENCoM institution(s)
Department of Biochemistry and Molecular Medicine, Université de Montréal, Montréal, QC, Canada; Department of Computer Science and Operations Research, Université de Montréal, Montréal, QC, Canada; Institute for Research in Immunology and Cancer, Université de Montréal, Montréal, QC, Canada; Department of Pharmacology and Physiology, Université de Montréal, Montréal, QC, Canada; Department of Biology, MIT, Cambridge, MA, USA
ENCoM funding source(s)
Supported by Natural Sciences and Engineering Research Council of Canada (NSERC) Discovery program grants and Canadian Institutes of Health Research (CIHR) (grant number MOP-93679).

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