Apr
08
2015
1

Request an invitation to RosettaCON2015

Requests are now being accepted through the RosettaCON website for invitations for the limited openings for RosettaCON2015 for members of the pharmaceutical, biotech, and related industries.

RosettaCon is an invitation-only conference at the Sleeping Lady Mountain Retreat in Washington’s Cascade Mountains, where Rosetta Commons member laboratories share the latest experimental and computational research breakthroughs in protein and macromolecular engineering and structure prediction. The Commons grew out of David Baker’s laboratory at the University of Washington and is now a consortium of twenty-four international laboratories. Justin Siegel of the University of California at Davis and Frank DiMaio of the University of Washington organize this year’s conference. We are delighted to have Bill DeGrado of the University of California at San Francisco, Roberto Chica of the University of Ottowa, Lillian Chong of the University of Pittsburgh, and Gaël McGill of Digizyme and Harvard Medical School as confirmed invited guest speakers.

In addition to showcasing cutting edge research, there will be an industry-focused session for fostering collaborations and exploring the exchange of ideas, people and resources. We invite you to participate in this session through presentations, flip charts, and breakout discussions. We hope to expand on the growing number of industry-Rosetta Commons collaborations, such as:

  • Jeffrey Gray lab – AxioMx collaboration deciphering the specificity of antibodies binding phosporylated peptides
  • Jens Meiler lab – Eli Lilly collaboration developing methods for drug design
  • Tanja Kortemme lab –DSM collaboration developing ROSETTA applications to re-design enzyme substrate specificity

Hands-on Rosetta tutorial sessions may be offered for industry attendees interested in learning to use ROSETTA.

After the conference, hikes, climbs, and backing trips are organized by conference attendees on the most scenic trails and stellar climbs in all of Washington State.

 

May
15
2014
0

Two spots remaining for RosettaCon2014!

There are two spots remaining for RosettaCon2014 this summer, July 30th – August 2nd! RosettaCon is the annual meeting of members of the Rosetta Commons and scientists using Rosetta in the pharmaceutical and biotechnology sectors. There will be workshops, seminars, and a special industry collaboration session. The conference will take place at the beautiful Sleeping Lady Mountain Retreat in Leavenworth, Washington, about 2.5 hours outside Seattle in the dramatic Cascade mountain range. Kick back, have a beer, fold a protein, re-design a protein, and go for a hike.

Please email info@rosettadesigngroup.com for more information and registration details.

Apr
12
2012
0

Rosetta 3.4 released

Just a short note to let you know that Rosetta 3.4 was released a couple of weeks ago. This release contains new applications and features like Noncanonical amino acid utilities, Point mutations scan, New RNA applications and many more.

The word on the street in the Rosetta developers community is that releases are about to become much more frequent, so there is a lot to look forward to.

Written by admin in: News,Resources | Tags: , ,
Nov
09
2011
0

Protein design: breaks gluten, wins iGEM2011

An undergraduate group of students from the University of Washington, managed to redesign an enzyme to efficiently break down a model peptide for Gluten, achieving an increase in activity of hundreds fold over the only current clinically tested treatment for Gluten intolerance – Winning iGEM2011. All this, over the summer. Oh, and they also managed to produce Diesel in E. Coli.

(more…)

Written by Nir London in: News,Weird science | Tags: , , , , , ,
Jun
08
2011
2

One Sided De-Novo Computational Design of a Protein-Protein Interaction

In a recent Science paper, Sarel Fleishman et al. report the de-novo computational design of a protein interface to specifically target and tightly bind a surface patch of the flu hemaglutinin protein. We interview Sarel to get the insights from behind the scenes and the outlook for this exciting approach.

(more…)

May
26
2011
2

A PLoS ONE Rosetta Collection

Three articles recently published in PLoS ONE are the harbinger of a RosettaCon 2010 PLoS one collection. How do you design a new enzyme from scratch? How do you model peptide binding with almost no prior information? And what puzzles CAN’T Rosetta solve?

(more…)

Feb
05
2011
0

Rosetta 3.2 Released

Rosetta 3.2 is the first rosetta release in over a year and is chock-full of new features. Get your (free for academia) copy at: www.rosettacommons.org/software and find the new and improved documentation at: www.rosettacommons.org/manuals/archive/rosetta3.2_user_guide

What’s new in Rosetta 3.2 ?

“Automatic” Comparative Modeling: build structural models of proteins using one or more known structures as templates for modeling.

Flexible Peptide Docking: create high-resolution models of complexes between flexible peptides and globular proteins, starting from approximate, coarse-grain models.

Symmetric Docking: predict the structure of symmetric homooligomeric protein assemblies starting from the structure of a single subunit. The relative subunit orientation and conformations of side-chains are simultaneously optimized for a symmetric protein assembly.

RosettaMatch Application: search through a protein backbone (“scaffold”) to find positions where a binding site for a desired small molecule (or biomolecule, in the more general case) target can be introduced.

Molecular Replacement: solve difficult molecular replacement problems. It will generally be used alongside the molecular replacement software Phaser.

Sequence Tolerance: perform specificity prediction and library design (i.e. for phage display, yeast display, or other selection techniques).

Written by admin in: News,Resources | Tags: , ,
Dec
17
2010
2

Rosetta Web Servers

The Rosetta macromolecular modeling suite has a very wide range of applications, and although installing and running Rosetta, becomes increasingly easier over the years, some non-experts would still prefer to run it over a comfortable to use web-server. We have assembled here the list of Rosetta applications for which such a web-server exists. Bookmark for future modeling tasks.

(more…)

Sep
27
2010
2

Sub-angstrom modeling of complexes between flexible peptides and globular proteins

We present Rosetta FlexPepDock, a novel tool for refining coarse peptide–protein models that allows significant changes in both peptide backbone and side chains. We obtain high resolution models, often of sub-angstrom backbone quality, over an extensive and general benchmark of 89 peptide–protein interactions.

(more…)

Apr
17
2010
1

Practically useful: what the Rosetta protein modeling suite can do for you

In a recent review published in Biochemistry, Kaufmann, Lemmon and DeLuca et al. from the Meiler Lab, cover the Rosetta modeling suite capabilities. More importantly, as supplementary information they provide tutorials to demonstrate 6 basic use cases of Rosetta.

(more…)

Written by Nir London in: Literature Reviews,Resources | Tags: , , ,

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