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Rosetta 3 - General

Topic / Topic starter Replies Viewssort descending Last post
Normal topic protein binding energy problem
by Lindsay » Thu, 2014-04-17 23:10
5
5,178 by jadolfbr
Mon, 2014-04-21 07:30
Normal topic Questions about Monte Carlo Simulated Annealing algorithm in the design protocols
by mdyini » Thu, 2012-05-31 12:39
3
5,211 by smlewis
Mon, 2014-04-21 06:47
Normal topic scoring models
by peony » Fri, 2013-12-06 02:45
5
5,211 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Problem with HETATM entries in PDB file
by asmi » Fri, 2011-05-20 10:17
3
5,217 by smlewis
Mon, 2014-04-21 06:47
Normal topic loop modelling/Rosetta 3.4, 3.5
by berk » Tue, 2013-07-02 08:38
5
5,223 by MRH
Mon, 2014-04-21 06:48
Normal topic Antibody homology modeling fails after blastp
by sunhwan » Sat, 2017-02-18 11:25
7
5,239 by sunhwan
Mon, 2017-02-27 11:02
Normal topic rosetta 3.1-how to run parallel tasks?
by wtscrystal » Fri, 2009-11-06 03:23
4
5,260 by lqzhang
Mon, 2014-04-21 06:47
Normal topic Clustering Rosetta output PDB files
by ritacc18 » Sat, 2014-01-11 20:13
2
5,261 by jwillis
Sat, 2015-06-27 21:11
Normal topic calculate RMSD (RNA modelling)
by obdulia » Tue, 2016-07-05 01:58
5
5,266 by obdulia
Wed, 2016-07-13 09:11
Normal topic Interface energy vs binding energy
by Apiwat » Wed, 2014-02-05 00:47
2
5,266 by Apiwat
Sat, 2014-02-08 01:41
Normal topic Membrane folding - blastpgp error.
by arthuc01 » Sun, 2012-03-25 14:47
4
5,272 by arthuc01
Mon, 2014-04-21 06:47
Normal topic MPI nodes hanging and output log incomplete
by yuvals » Wed, 2014-06-18 05:40
1
5,276 by yuvals
Sat, 2014-06-21 02:17
Normal topic Binding energy calculation
by SunH » Thu, 2010-12-09 19:29
3
5,289 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic pro_closure energy scoring function
by peony » Sat, 2013-11-16 13:22
5
5,300 by rmoretti
Mon, 2014-04-21 06:48
Normal topic calculated ddG_bind converges to zero
by fukamitka » Mon, 2013-06-24 20:32
6
5,301 by fukamitka
Mon, 2014-04-21 06:48
Normal topic Abinitio Calculations - typical parameters
by vamsi » Thu, 2010-11-11 07:06
5
5,305 by smlewis
Mon, 2014-04-21 06:47
Normal topic Connecting 2 Domains Via Non-Flexible Linker
by jurkm » Mon, 2011-09-05 06:10
2
5,307 by kbuhr
Tue, 2015-07-14 04:30
Normal topic Rosetta repacking output
by doranhen » Mon, 2012-12-03 03:44
5
5,337 by doranhen
Mon, 2014-04-21 06:47
Normal topic What is "repack", "prepack"?
by cossio » Wed, 2015-11-04 17:59
1
5,347 by rmoretti
Tue, 2015-11-10 11:52
Normal topic protein protein docking pipeline
by dzhao » Thu, 2012-07-19 06:25
4
5,347 by smlewis
Mon, 2014-04-21 06:47
Normal topic force field, energy function
by masterofpuppets » Wed, 2015-01-21 11:06
3
5,349 by masterofpuppets
Tue, 2015-01-27 07:07
Normal topic Enzyme Design
by bharat_46010 » Tue, 2014-11-25 23:55
4
5,359 by bharat_46010
Mon, 2014-12-15 20:51
Normal topic two questions about "Prepare structures for use in Rosetta"
by Anonymous » Wed, 2012-06-06 08:13
6
5,365 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Fixed bb design with hydrogen bond constraint
by bharat_46010 » Mon, 2012-04-30 22:56
6
5,390 by smlewis
Mon, 2014-04-21 06:47
Normal topic what is the xxx.static.linuxgccrelease?
by syoifczeri » Sat, 2015-10-31 04:09
2
5,398 by syoifczeri
Mon, 2015-11-02 03:59
Normal topic low resolution blind protein-protein docking with a ligand
by einew » Sun, 2011-03-20 13:59
5
5,404 by einew
Mon, 2014-04-21 06:47
Normal topic Can anyone become a Rosetta developer?
by cossio » Thu, 2015-01-22 05:10
4
5,436 by cossio
Thu, 2015-01-29 11:50
Normal topic membrane ab initio error after montecarlo
by adva » Mon, 2012-12-24 01:43
6
5,437 by tevang
Mon, 2014-04-21 06:47
Normal topic ETABLE constraint function type
by allan.ferrari » Tue, 2017-01-10 08:01
8
5,443 by smlewis
Sun, 2017-01-15 18:14
Normal topic '-norepack_disulf' flag NOT work in Ligand-protein docking ?
by darlintai » Tue, 2011-01-11 22:21
6
5,460 by smlewis
Mon, 2014-04-21 06:47
Normal topic computer specifications
by rlwoltz » Tue, 2012-10-09 16:11
4
5,511 by rlwoltz
Mon, 2014-04-21 06:47
Normal topic No score.sc generated after running flexpepdock.
by monos_morpheus » Sun, 2011-04-10 04:06
6
5,528 by robren
Mon, 2014-04-21 06:47
Normal topic RosettaHoles
by ge0rgekh0ury » Mon, 2012-01-09 09:01
6
5,529 by Anonymous
Mon, 2014-04-21 06:47
Normal topic what rotamer lib is used in rosetta3.5?
by Lindsay » Thu, 2014-02-06 16:11
6
5,542 by rmoretti
Fri, 2014-03-28 09:03
Normal topic how to optimize the weights?
by Lindsay » Tue, 2012-04-10 07:40
7
5,543 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Problem With Rosetta3.3 Comparative/Loop Modeling And Constraints
by jurkm » Mon, 2011-09-12 01:01
6
5,593 by jurkm
Mon, 2014-04-21 06:47
Normal topic Problems installing Rosetta
by S » Fri, 2010-09-03 01:04
4
5,617 by abdullah_ahmed
Mon, 2014-04-21 06:47
Normal topic Comparative Modeling databases?
by nitroamos » Wed, 2011-11-23 14:54
6
5,627 by rmoretti
Thu, 2016-04-28 16:15
Normal topic Unrecognized residue Glc
by cgautier » Tue, 2015-03-31 02:20
5
5,638 by rmoretti
Thu, 2015-04-16 10:09
Normal topic How the Rosetta score (dG) is actually related to dH (enthalpy) and dS (entropy)?
by lanselibai » Thu, 2014-12-04 13:16
4
5,640 by lanselibai
Fri, 2014-12-12 10:27
Normal topic Is the packer aware of non canonical amino acids?
by krdav » Tue, 2016-08-16 08:16
7
5,677 by krdav
Wed, 2016-08-17 12:57
Normal topic Getting an interface score from RosettaDock without docking
by rosend » Fri, 2015-12-18 14:02
3
5,692 by rosend
Fri, 2015-12-18 19:39
Normal topic What's the unit of Rosetta energy function?
by Run » Tue, 2014-06-24 00:44
1
5,700 by rmoretti
Tue, 2014-07-01 12:45
Normal topic Robetta fragments and silent.out-file
by masterofpuppets » Wed, 2015-01-07 04:28
5
5,723 by masterofpuppets
Tue, 2015-02-10 03:15
Normal topic Structure refinement guided by Cryo-EM density maps
by ahmadkhalifa » Thu, 2018-03-08 08:22
7
5,748 by ahmadkhalifa
Tue, 2018-05-01 09:04
Normal topic loop remodelling with a fixed bound DNA
by jtmacd » Thu, 2010-02-25 03:23
8
5,765 by jtmacd
Mon, 2014-04-21 06:47
Normal topic Introduction or tutorial about RosettaMatch
by kwak » Thu, 2010-10-21 06:37
4
5,772 by kwak
Mon, 2014-04-21 06:47
Normal topic General Protein Folding Question
by twopint23oz » Sun, 2012-04-01 22:57
7
5,787 by smlewis
Mon, 2014-04-21 06:47
Normal topic Reading FE from 2PAH
by jadolfbr » Tue, 2013-01-29 16:10
5
5,788 by rmoretti
Mon, 2014-04-21 06:47
Normal topic how to cluster loop?
by albumns » Wed, 2011-01-05 19:48
6
5,807 by smlewis
Mon, 2014-04-21 06:47
Normal topic log files
by shadrinams » Fri, 2018-01-26 07:29
7
5,827 by shadrinams
Mon, 2018-02-12 11:47
Normal topic Talaris scoring function
by Lindsay » Sun, 2014-08-24 18:16
2
5,843 by AndrewLeaver-Fay
Sun, 2015-09-20 19:34
Normal topic total energy score of the pdb structure
by Lindsay » Tue, 2012-05-01 12:14
4
5,846 by Lindsay
Mon, 2014-04-21 06:47
Normal topic ERROR: compiling rosetta3.1 with MPI
by biofisikx » Thu, 2010-08-05 16:00
6
5,853 by smlewis
Mon, 2014-04-21 06:47
Normal topic Loop modeling with ligand in the receptor
by cno » Mon, 2010-12-13 14:07
5
5,857 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error_fragment_generation
by Payal Chatterjee » Fri, 2016-02-12 12:11
6
5,875 by G Mustafa
Fri, 2021-09-10 01:16
Normal topic Using 2 non-standard residues in one run
by einew » Tue, 2011-03-08 21:24
5
5,888 by einew
Mon, 2014-04-21 06:47
Normal topic best_ifaceE.py error
by rosa » Fri, 2013-07-12 08:35
7
5,900 by rosa
Mon, 2014-04-21 06:48
Normal topic Question on eval_atom_derivative function.
by Al52 » Thu, 2015-12-03 16:17
7
5,907 by rmoretti
Thu, 2016-02-04 09:29
Normal topic About align hundreds of pdb structures produced by rosseta membrane abinitio
by ritacc18 » Wed, 2013-05-22 12:37
5
5,926 by ssrb
Tue, 2015-09-22 08:35
Normal topic Rosetta Dock with MPI / PBS
by edpryor » Wed, 2012-09-05 11:04
3
5,928 by smlewis
Mon, 2014-04-21 06:47
Normal topic Question regarding buried or exposed residues
by qlj » Fri, 2012-11-09 23:43
5
5,943 by qlj
Mon, 2014-04-21 06:47
Normal topic Constraints and final scoring of satisfied constraints in ab initio
by Azadeh » Tue, 2014-07-15 01:29
3
5,964 by rmoretti
Thu, 2014-07-17 09:21
Normal topic Possible Shellshock Patch problem results in no output files being written
by hazards » Wed, 2014-10-22 13:48
3
5,982 by rmoretti
Mon, 2014-11-03 16:39
Normal topic P-P docking with ambiguous constraints
by Anouk » Fri, 2013-11-08 11:38
5
6,007 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Problem with clustering 1000 centroid pdbs
by doranhen » Sat, 2012-04-28 10:34
6
6,032 by doranhen
Mon, 2014-04-21 06:47
Normal topic how to use AbinitioRelax.mpi.linuxgccrelease?
by albumns » Mon, 2012-03-26 22:50
5
6,034 by smlewis
Mon, 2014-04-21 06:47
Normal topic optH flag makes hydrogen bond energy scores worse...
by tsjain » Fri, 2012-07-13 14:04
6
6,045 by smlewis
Mon, 2014-04-21 06:47
Normal topic first try at relaxing a structure
by einew » Wed, 2011-01-05 11:09
4
6,076 by einew
Mon, 2014-04-21 06:47
Normal topic SASA packing score in Rosetta 3.1
by enoee » Wed, 2010-07-28 01:45
6
6,104 by smlewis
Mon, 2014-04-21 06:47
Normal topic type of docking
by rohi » Mon, 2020-07-06 06:55
11
6,135 by rohi
Sun, 2020-07-26 17:03
Normal topic defining interface in interface analyzer
by aa20 » Fri, 2013-09-27 11:08
5
6,150 by smlewis
Mon, 2014-04-21 06:48
Normal topic Loop Modeling Deletes Residues
by Julix » Wed, 2012-09-05 10:14
7
6,169 by smlewis
Mon, 2014-04-21 06:47
Normal topic mitochondria protein modeling
by rlwoltz » Fri, 2012-10-26 14:32
6
6,178 by smlewis
Mon, 2014-04-21 06:47
Normal topic This element is not expected.
by ac.research » Fri, 2017-10-13 03:47
6
6,183 by vmulligan
Thu, 2020-07-16 23:31
Normal topic Cannot run binaries after successful compilation
by ac.research » Mon, 2017-08-14 02:56
6
6,236 by ac.research
Fri, 2017-08-18 00:57
Normal topic How does one prevent Rosetta from connecting two separate chains?
by jhbrown » Thu, 2011-12-15 14:08
7
6,253 by Anonymous
Mon, 2014-04-21 06:47
Normal topic rerun same experiment on MPI.
by exchhattu » Tue, 2010-02-23 21:14
7
6,307 by exchhattu
Mon, 2014-04-21 06:47
Normal topic Error with non-canonical amino acid in SnugDock.
by sk0319 » Thu, 2016-12-29 16:12
8
6,329 by sk0319
Wed, 2017-01-11 10:52
Normal topic I am a beginner in rosetta software and need help to build params file
by nais » Fri, 2011-03-18 13:37
3
6,348 by rmoretti
Mon, 2014-04-21 06:47
Normal topic What is a "silent file"?
by lanselibai » Mon, 2014-09-22 02:43
2
6,360 by lanselibai
Mon, 2014-09-22 08:13
Normal topic Reproducing Rosetta++ scoring function with Rosetta 3?
by JuliusSu » Mon, 2014-03-17 21:15
7
6,450 by JuliusSu
Wed, 2014-03-19 20:38
Normal topic How to define specific residues in alascan ?
by Park » Mon, 2011-06-13 19:56
6
6,463 by smlewis
Mon, 2014-04-21 06:47
Normal topic A question about Multiple constraints
by kxiao » Mon, 2014-06-16 07:02
7
6,466 by masterofpuppets
Fri, 2014-12-19 08:30
Normal topic cluster pdb structures questions
by ritacc18 » Thu, 2013-03-28 19:20
5
6,479 by ritacc18
Mon, 2014-04-21 06:47
Normal topic What's a good application to thread a sequence over a peptide (of a peptide-protein complex) and minimize?
by brspurri » Tue, 2013-02-12 08:19
6
6,505 by smlewis
Mon, 2014-04-21 06:47
Normal topic pdb files in Rosetta format
by zhisheng » Mon, 2011-10-31 08:52
6
6,570 by smlewis
Mon, 2014-04-21 06:47
Normal topic extraction of pdbs from silent.out files on Mac
by pramod » Tue, 2014-01-07 11:43
5
6,651 by rmoretti
Mon, 2014-04-21 06:48
Normal topic building a 77 aa long protein fragment
by tevang » Sat, 2010-02-20 11:37
8
6,679 by gsmurphy
Mon, 2014-04-21 06:47
Normal topic ERROR: Unused "free" argument specified: GDP.fa.tors
by ahmadkhalifa » Fri, 2018-06-15 11:27
10
6,714 by smlewis
Tue, 2018-06-19 09:28
Normal topic Energy calculation for protein design
by Filipe » Sat, 2011-11-26 15:01
4
6,720 by Filipe
Mon, 2014-04-21 06:47
Normal topic RosettaVIP
by nick.polizzi » Tue, 2013-08-06 15:13
8
6,741 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Using rosetta 3 to make a fragment library and then use it to model loop of a protein structure
by bharat_46010 » Sun, 2011-01-23 05:22
4
6,766 by dgront
Mon, 2014-04-21 06:47
Normal topic AbinitioRelax under different directories without -constant_seed -jran flag
by xpzhang » Wed, 2010-09-15 14:56
6
6,886 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Every thing Ok in PC end Error on Server
by jrcf » Tue, 2016-03-22 07:21
8
6,892 by jrcf
Wed, 2016-03-23 12:16
Normal topic Fe3p Heme Iron Unrecognized Despite Loading Hem Params
by vsjasion » Fri, 2011-09-02 10:37
6
6,935 by tigerous
Mon, 2014-04-21 06:47
Normal topic ERROR: Unable to open weights/patch file
by peony » Sun, 2013-11-17 02:49
4
6,937 by rmoretti
Tue, 2019-07-09 10:29
Normal topic cutpoint error!
by monos_morpheus » Thu, 2011-04-07 08:04
7
6,942 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic Rosetta3 Tutorials Beta Release
by smlewis » Fri, 2011-08-19 13:35
7
6,947 by smlewis
Mon, 2014-04-21 06:47
Normal topic uninstalling or rebuilding rosetta
by rlwoltz » Thu, 2013-04-11 11:45
5
6,986 by rlwoltz
Mon, 2014-04-21 06:47
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