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Rosetta 3 - General

Topic / Topic starter Repliessort descending Views Last post
Normal topic Access sigma values for rotamers
by pachecoj » Thu, 2014-05-15 07:10
5
4,630 by rmoretti
Sat, 2014-05-17 14:10
Normal topic loop modelling error on Rosetta3.2 or Rosetta3.3
by exchhattu » Thu, 2011-09-29 03:58
5
4,313 by rpache
Mon, 2014-04-21 06:47
Normal topic de novo RNA loop
by c.ocasion » Sun, 2021-02-14 18:34
5
1,788 by everyday847
Mon, 2021-03-29 20:19
Normal topic The design of a helical peptide
by Jacob-kong » Tue, 2012-06-26 06:26
6
7,193 by Jacob-kong
Mon, 2014-04-21 06:47
Normal topic pdb files in Rosetta format
by zhisheng » Mon, 2011-10-31 08:52
6
6,270 by smlewis
Mon, 2014-04-21 06:47
Normal topic Don't want to output the design structure
by Lindsay » Wed, 2012-05-02 08:02
6
4,767 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Atomic refinement with fixed ligand
by ahmadkhalifa » Tue, 2018-07-24 10:41
6
3,630 by rmoretti
Mon, 2018-08-20 11:45
Normal topic How to run Rosetta3 in parallel
by lennylv » Mon, 2009-03-30 04:21
6
8,402 by rmoretti
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
5,269 by robren
Mon, 2014-04-21 06:47
Normal topic Rosetta CM incorrect threading
by ahmadkhalifa » Mon, 2018-08-06 11:09
6
3,879 by rmoretti
Fri, 2018-08-24 11:59
Normal topic Rosetta CM - Ignore Sporadic Errors
by Swillard » Wed, 2018-06-13 05:47
6
3,491 by rmoretti
Mon, 2018-11-12 14:29
Normal topic Problem With Rosetta3.3 Comparative/Loop Modeling And Constraints
by jurkm » Mon, 2011-09-12 01:01
6
5,327 by jurkm
Mon, 2014-04-21 06:47
Normal topic Public subversion / Enzyme design public app
by weallen » Tue, 2009-08-11 20:50
6
4,519 by weallen
Mon, 2014-04-21 06:47
Normal topic two questions about "Prepare structures for use in Rosetta"
by Anonymous » Wed, 2012-06-06 08:13
6
5,114 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Energy Calculation in Rosetta3.4
by sdg_lab » Thu, 2012-04-12 04:49
6
9,863 by rmoretti
Mon, 2014-04-21 06:47
Normal topic is it possible to ab initio only a part of a protein?
by albumns » Sun, 2011-02-13 08:10
6
4,030 by albumns
Mon, 2014-04-21 06:47
Normal topic mitochondria protein modeling
by rlwoltz » Fri, 2012-10-26 14:32
6
5,872 by smlewis
Mon, 2014-04-21 06:47
Normal topic SASA packing score in Rosetta 3.1
by enoee » Wed, 2010-07-28 01:45
6
5,821 by smlewis
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
5,267 by rmoretti
Fri, 2014-03-28 09:03
Normal topic Add a ligand with only one atom (i.e. Zn) to the RosettaCM
by lanselibai » Tue, 2021-06-22 10:28
6
1,598 by rmoretti
Thu, 2021-06-24 12:23
Normal topic optH flag makes hydrogen bond energy scores worse...
by tsjain » Fri, 2012-07-13 14:04
6
5,772 by smlewis
Mon, 2014-04-21 06:47
Normal topic selecting pivot_residue in Backrub for ensemble generation
by rohi » Fri, 2020-08-07 15:41
6
2,782 by matteoferla
Tue, 2020-08-11 10:00
Normal topic modeling loops between domains
by dhorita » Thu, 2009-03-05 14:48
6
4,715 by jarod
Mon, 2014-04-21 06:47
Normal topic Native gives higher (positive) than lowest energy and clustered decoys
by tiagogomes89 » Thu, 2011-06-02 07:19
6
4,695 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Relax structure using Membrane Environment Scoring Function
by anna.duncan » Thu, 2010-02-04 08:01
6
7,061 by jruhym
Mon, 2014-04-21 06:47
Normal topic ERROR: compiling rosetta3.1 with MPI
by biofisikx » Thu, 2010-08-05 16:00
6
5,594 by smlewis
Mon, 2014-04-21 06:47
Normal topic '-norepack_disulf' flag NOT work in Ligand-protein docking ?
by darlintai » Tue, 2011-01-11 22:21
6
5,179 by smlewis
Mon, 2014-04-21 06:47
Normal topic Using Patches in Rosetta
by JS » Wed, 2010-03-10 13:32
6
7,071 by JS
Mon, 2014-04-21 06:47
Normal topic membrane ab initio error after montecarlo
by adva » Mon, 2012-12-24 01:43
6
5,161 by tevang
Mon, 2014-04-21 06:47
Normal topic Comparative Modeling databases?
by nitroamos » Wed, 2011-11-23 14:54
6
5,362 by rmoretti
Thu, 2016-04-28 16:15
Normal topic abinitiorelax: No funnel
by cno » Tue, 2010-07-27 06:14
6
4,638 by biofisikx
Mon, 2014-04-21 06:47
Normal topic how to cluster loop?
by albumns » Wed, 2011-01-05 19:48
6
5,580 by smlewis
Mon, 2014-04-21 06:47
Normal topic RosettaHoles
by ge0rgekh0ury » Mon, 2012-01-09 09:01
6
5,264 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
5,108 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to define specific residues in alascan ?
by Park » Mon, 2011-06-13 19:56
6
6,187 by smlewis
Mon, 2014-04-21 06:47
Normal topic side-chain refinement
by qlj » Wed, 2013-02-20 04:40
6
7,571 by qlj
Mon, 2014-04-21 06:47
Normal topic Error_fragment_generation
by Payal Chatterjee » Fri, 2016-02-12 12:11
6
5,551 by G Mustafa
Fri, 2021-09-10 01:16
Normal topic Linker problems when building mini
by assaff » Mon, 2009-10-12 01:07
6
4,497 by smlewis
Mon, 2014-04-21 06:47
Normal topic calculated ddG_bind converges to zero
by fukamitka » Mon, 2013-06-24 20:32
6
5,039 by fukamitka
Mon, 2014-04-21 06:48
Normal topic Give preference to native residue during fixed backbone designing
by tusharranjanmoharana » Mon, 2016-04-04 12:43
6
4,588 by rmoretti
Thu, 2016-04-28 15:19
Normal topic Memory leak when PDB preparation
by Jacky010 » Mon, 2019-05-06 01:28
6
3,143 by Jacky010
Tue, 2019-05-14 01:24
Normal topic Problem with clustering 1000 centroid pdbs
by doranhen » Sat, 2012-04-28 10:34
6
5,803 by doranhen
Mon, 2014-04-21 06:47
Normal topic How do I add hydrogen atoms to my PDB file?
by monos_morpheus » Wed, 2011-03-30 03:30
6
12,069 by rmoretti
Mon, 2014-04-21 06:47
Normal topic This element is not expected.
by ac.research » Fri, 2017-10-13 03:47
6
5,710 by vmulligan
Thu, 2020-07-16 23:31
Normal topic Fe3p Heme Iron Unrecognized Despite Loading Hem Params
by vsjasion » Fri, 2011-09-02 10:37
6
6,669 by tigerous
Mon, 2014-04-21 06:47
Normal topic Cannot run binaries after successful compilation
by ac.research » Mon, 2017-08-14 02:56
6
5,797 by ac.research
Fri, 2017-08-18 00:57
Normal topic Can i start again the job ?
by byin » Thu, 2011-09-15 01:19
6
4,556 by byin
Mon, 2014-04-21 06:47
Normal topic NR Database Download in install_dependencies.pl (for make_fragments.pl) Broken
by Jacob_Verburgt » Tue, 2020-03-10 08:58
6
3,815 by Jacob_Verburgt
Wed, 2020-03-11 05:18
Normal topic dG_separated threshold for identifying non-binding peptides with InterfaceAnalyzer.
by jyotisutar9 » Thu, 2016-12-01 00:39
6
4,537 by jyotisutar9
Wed, 2016-12-14 09:39
Normal topic distances definition in course-grained (centroid mode) steps
by allan.ferrari » Tue, 2017-01-03 05:15
6
4,303 by allan.ferrari
Tue, 2017-01-03 11:15
Normal topic I used mpirun/mpiexec and it runs same job 32times
by leygkn » Mon, 2020-09-21 00:53
6
2,641 by jadolfbr
Thu, 2020-09-24 10:04
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
6,261 by smlewis
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
6,611 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Help with get_pdb.py for PDB file cleaning
by lzx32 » Mon, 2011-03-28 02:11
7
8,004 by smlewis
Mon, 2014-04-21 06:47
Normal topic how to optimize the weights?
by Lindsay » Tue, 2012-04-10 07:40
7
5,258 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Rosetta3.3 enzyme_design errors
by jtmacd » Wed, 2012-01-25 03:33
7
6,917 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Talaris score function
by nawsad » Tue, 2013-05-21 03:32
7
7,642 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Structure refinement guided by Cryo-EM density maps
by ahmadkhalifa » Thu, 2018-03-08 08:22
7
5,384 by ahmadkhalifa
Tue, 2018-05-01 09:04
Normal topic Error running Abinitio relax with @flags
by samuelrpita » Mon, 2015-10-05 13:20
7
6,720 by rmoretti
Tue, 2015-10-27 09:11
Normal topic Docking + Active Site Design
by bharat_46010 » Sat, 2014-12-13 23:04
7
7,211 by rmoretti
Wed, 2015-01-21 08:43
Normal topic ERROR READING PDB FILE
by asmi » Sat, 2011-02-26 07:23
7
7,505 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta3 Tutorials Beta Release
by smlewis » Fri, 2011-08-19 13:35
7
6,618 by smlewis
Mon, 2014-04-21 06:47
Normal topic Loop Modeling Deletes Residues
by Julix » Wed, 2012-09-05 10:14
7
5,899 by smlewis
Mon, 2014-04-21 06:47
Normal topic log files
by shadrinams » Fri, 2018-01-26 07:29
7
5,389 by shadrinams
Mon, 2018-02-12 11:47
Normal topic How to input constraints?
by violetsha7 » Wed, 2009-05-13 00:13
7
8,008 by smlewis
Mon, 2014-04-21 06:47
Normal topic Is the packer aware of non canonical amino acids?
by krdav » Tue, 2016-08-16 08:16
7
5,384 by krdav
Wed, 2016-08-17 12:57
Normal topic about Residue Number in Rosetta
by jiongzhang » Mon, 2012-06-11 14:58
7
9,101 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to deal with Cu-as a ligand or as part of the receptor?
by hanypao » Fri, 2011-09-30 18:50
7
9,127 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Question on eval_atom_derivative function.
by Al52 » Thu, 2015-12-03 16:17
7
5,603 by rmoretti
Thu, 2016-02-04 09:29
Normal topic best_ifaceE.py error
by rosa » Fri, 2013-07-12 08:35
7
5,626 by rosa
Mon, 2014-04-21 06:48
Normal topic A question about Multiple constraints
by kxiao » Mon, 2014-06-16 07:02
7
6,130 by masterofpuppets
Fri, 2014-12-19 08:30
Normal topic Using D-amino acids in Rosetta docking
by moehle » Wed, 2011-06-01 00:49
7
7,452 by moehle
Mon, 2014-04-21 06:47
Normal topic Reproducing Rosetta++ scoring function with Rosetta 3?
by JuliusSu » Mon, 2014-03-17 21:15
7
6,158 by JuliusSu
Wed, 2014-03-19 20:38
Normal topic Antibody homology modeling fails after blastp
by sunhwan » Sat, 2017-02-18 11:25
7
4,922 by sunhwan
Mon, 2017-02-27 11:02
Normal topic How does one prevent Rosetta from connecting two separate chains?
by jhbrown » Thu, 2011-12-15 14:08
7
5,947 by Anonymous
Mon, 2014-04-21 06:47
Normal topic AbinitioRelax using multiple cores on a single machine without mpi?
by JoG » Tue, 2011-10-25 00:40
7
10,388 by smlewis
Mon, 2014-04-21 06:47
Normal topic General Protein Folding Question
by twopint23oz » Sun, 2012-04-01 22:57
7
5,525 by smlewis
Mon, 2014-04-21 06:47
Normal topic rerun same experiment on MPI.
by exchhattu » Tue, 2010-02-23 21:14
7
6,016 by exchhattu
Mon, 2014-04-21 06:47
Normal topic how to transfer the rosetta score to physical unit?
by Lindsay » Thu, 2012-06-28 09:33
7
6,870 by Lindsay
Mon, 2014-04-21 06:47
Normal topic relax structure before design?
by Lindsay » Tue, 2013-11-05 20:50
7
8,648 by rmoretti
Mon, 2014-04-21 06:48
Normal topic hydrophobicity patch
by Lindsay » Fri, 2012-05-04 08:24
7
7,722 by Lindsay
Mon, 2014-04-21 06:47
Normal topic Error when renumbering PDB
by dzhao » Wed, 2012-07-18 01:03
7
8,166 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Rosetta (antibody_designer) performance
by Kihang _Youn » Wed, 2022-03-02 00:48
7
1,102 by Kihang _Youn
Thu, 2022-03-10 16:30
Normal topic errors while running rosetta 3.1
by isengupta13 » Tue, 2011-05-17 18:11
7
6,809 by jurkm
Mon, 2014-04-21 06:47
Normal topic cutpoint error!
by monos_morpheus » Thu, 2011-04-07 08:04
7
6,532 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic Debugging Rosetta under XCode
by sacch » Sun, 2011-10-16 18:23
8
6,978 by sacch
Mon, 2014-04-21 06:47
Normal topic Looking for a pdb....
by MarkW » Mon, 2014-10-13 15:45
8
6,979 by rmoretti
Mon, 2014-11-03 16:30
Normal topic memory issue rosetta3.4 scripts
by ast » Mon, 2013-01-28 06:25
8
8,438 by smlewis
Mon, 2014-04-21 06:47
Normal topic kinematic loop modeling/sequence design keeps crashing with segmentation fault
by banshee » Thu, 2013-03-28 09:52
8
7,132 by smlewis
Mon, 2014-04-21 06:47
Normal topic Submitting job to local cluster
by tusharranjanmoharana » Fri, 2016-04-15 01:38
8
8,265 by rmoretti
Mon, 2016-05-09 09:23
Normal topic how to design binding interface?
by Lindsay » Mon, 2013-12-02 19:06
8
9,222 by rmoretti
Tue, 2019-07-09 12:50
Normal topic Error with non-canonical amino acid in SnugDock.
by sk0319 » Thu, 2016-12-29 16:12
8
5,942 by sk0319
Wed, 2017-01-11 10:52
Normal topic Problems with Cterm_amidation.txt
by helenah » Thu, 2020-10-08 04:52
8
3,316 by helenah
Tue, 2020-11-03 04:33
Normal topic Resfile
by vijayaraj81 » Thu, 2014-02-27 01:14
8
7,448 by vijayaraj81
Tue, 2014-03-04 05:07
Normal topic ETABLE constraint function type
by allan.ferrari » Tue, 2017-01-10 08:01
8
5,064 by smlewis
Sun, 2017-01-15 18:14
Normal topic talaris2013 energy terms modifications
by peony » Sat, 2013-11-23 02:48
8
14,315 by rmoretti
Mon, 2014-04-21 06:48
Normal topic RosettaVIP
by nick.polizzi » Tue, 2013-08-06 15:13
8
6,348 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Every thing Ok in PC end Error on Server
by jrcf » Tue, 2016-03-22 07:21
8
6,533 by jrcf
Wed, 2016-03-23 12:16
Normal topic loop remodelling with a fixed bound DNA
by jtmacd » Thu, 2010-02-25 03:23
8
5,463 by jtmacd
Mon, 2014-04-21 06:47
Normal topic Rosetta3 Tutorials
by smlewis » Fri, 2011-11-18 07:33
8
15,730 by rmoretti
Tue, 2019-07-09 10:24
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