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Rosetta 3 - General

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Normal topic Identical decoys
by aroop » Tue, 2012-09-25 12:50
4
4,369 by smlewis
Mon, 2014-04-21 06:47
Normal topic Seasons greetings with a Christmas tree shaped protein
by matteoferla » Sun, 2019-12-22 03:37
4
2,595 by matteoferla
Mon, 2019-12-23 07:24
Normal topic How to add uncommon metal elements into Rosetta and make it recognizable?
by JasonIsaac » Thu, 2023-02-09 00:08
4
505 by JasonIsaac
Sat, 2023-02-11 00:44
Normal topic Antibody Homology Modeling - Antibody vs. Antibody_legacy
by cannond » Tue, 2017-02-14 05:53
4
3,802 by cannond
Wed, 2017-03-01 08:05
Normal topic Repeated entries in silent file
by almeida85 » Fri, 2022-08-05 02:52
4
905 by almeida85
Thu, 2022-08-11 00:29
Normal topic Fluctuations in I_sc
by eminegenetics » Thu, 2018-09-13 12:07
4
2,879 by eminegenetics
Fri, 2018-09-21 07:42
Normal topic I have a .tab file. How do I extract information from it?
by monos_morpheus » Tue, 2011-02-08 09:30
4
4,946 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic Difference between score and silent_score when silent files are combined
by justin » Tue, 2012-01-03 06:44
4
4,112 by justin
Mon, 2014-04-21 06:47
Normal topic Symmetric abrelax modeling
by SenyorDrew » Fri, 2011-02-18 10:14
4
4,188 by IAndre
Mon, 2014-04-21 06:47
Normal topic rosetta 3.1-how to run parallel tasks?
by wtscrystal » Fri, 2009-11-06 03:23
4
5,481 by lqzhang
Mon, 2014-04-21 06:47
Normal topic short peptide fragment file generation
by cheyuk » Mon, 2016-07-11 00:04
4
4,302 by smlewis
Wed, 2016-07-13 23:41
Normal topic Error while running MakeRotLib
by saxen » Sun, 2016-04-17 22:51
4
4,268 by saxen
Mon, 2016-04-25 10:38
Normal topic Error : seqpos <= size()
by phanvy » Sun, 2014-10-05 17:20
4
5,290 by phanvy
Wed, 2014-10-08 01:42
Normal topic rosettaScore.py has a typo, I think. Can I fix it in my own copy?
by mdeklotz » Thu, 2018-08-02 15:15
4
3,107 by rmoretti
Fri, 2018-08-03 11:39
Normal topic No values for total score while running Rosetta score file.
by Shweata Maurya » Wed, 2023-02-01 02:05
4
576 by Shweata Maurya
Wed, 2023-02-08 03:19
Normal topic RosettaCM density guided rebuilding methodology
by ahmadkhalifa » Thu, 2018-08-30 06:45
4
2,907 by ahmadkhalifa
Thu, 2018-08-30 23:09
Normal topic Differentiable Energy Function w/ Centroid Representation
by protein_fan » Sun, 2022-03-20 09:39
4
1,193 by protein_fan
Fri, 2022-04-15 17:41
Normal topic [dev] Using h-bonding values in new energy term
by ipetrik_ambry » Wed, 2017-03-01 11:33
4
3,322 by ipetrik_ambry
Thu, 2017-03-02 15:35
Normal topic adding NCAA to the N-terminal of RCSB pdb
by ate » Tue, 2021-06-08 08:24
4
2,114 by Subhrodeep Saha
Sat, 2021-06-19 07:17
Normal topic an old question
by albumns » Sun, 2012-10-28 12:14
4
4,463 by rmoretti
Mon, 2014-04-21 06:47
Normal topic I generated a table of images & info of the premade NCAA params in the database
by matteoferla » Sun, 2020-02-16 06:27
4
2,584 by matteoferla
Sat, 2020-03-21 09:14
Normal topic Updated publications/details on Rosetta score function?
by nitroamos » Tue, 2009-10-20 19:48
4
4,563 by rmoretti
Mon, 2015-03-30 14:43
Normal topic RosettaMatch in 3.2
by jtmacd » Mon, 2010-12-20 08:04
4
4,724 by jtmacd
Mon, 2014-04-21 06:47
Normal topic enzdes error
by bo » Tue, 2012-08-21 09:12
4
4,025 by bo
Mon, 2014-04-21 06:47
Normal topic using defined WATERS in PACKING
by ast » Wed, 2012-01-11 09:11
4
4,009 by smlewis
Mon, 2014-04-21 06:47
Normal topic Errors in scorefiles after running Design
by Jhreed » Tue, 2016-03-29 10:25
4
3,604 by smlewis
Wed, 2016-03-30 09:52
Normal topic Error using InterfaceHoles filter
by SenyorDrew » Fri, 2017-04-14 08:55
4
4,120 by SenyorDrew
Mon, 2017-07-24 11:06
Normal topic Errors in Interface design  
by Kazu » Thu, 2019-10-31 17:48
4
2,609 by Kazu
Mon, 2020-05-18 10:52
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
7,035 by dgront
Mon, 2014-04-21 06:47
Normal topic unknown constraint function type: AtomPair ?
by jiongzhang » Sun, 2012-07-15 02:13
4
4,158 by jiongzhang
Mon, 2014-04-21 06:47
Normal topic params file for beta-amino acids
by phonez » Mon, 2021-03-29 18:30
4
2,116 by everyday847
Thu, 2021-04-01 11:59
Normal topic how to do cluster after low resolution protein-protein docking?
by albumns » Sat, 2010-11-27 01:17
4
4,190 by albumns
Mon, 2014-04-21 06:47
Normal topic What is virtual atom means in a params file and how to generate it?
by JasonIsaac » Fri, 2022-11-04 04:53
4
844 by JasonIsaac
Mon, 2022-11-07 19:15
Normal topic Question regarding Mlipo score
by DanielK » Tue, 2012-05-29 02:04
4
4,484 by smlewis
Mon, 2014-04-21 06:47
Normal topic What is the total_score that relax outputs?
by cossio » Tue, 2014-12-02 13:50
4
4,665 by cossio
Thu, 2014-12-04 05:41
Normal topic restrain multiple portions of proteins with MinMover
by Karol » Wed, 2016-09-07 08:29
4
4,477 by rmoretti
Thu, 2016-09-08 10:56
Normal topic DesignByCavityProximity: element not expected
by karenjgonzalez » Tue, 2020-01-28 05:16
4
2,411 by karenjgonzalez
Tue, 2020-02-11 08:44
Normal topic Comparing scores
by renedominik » Mon, 2012-02-27 05:21
4
4,308 by renedominik
Mon, 2014-04-21 06:47
Normal topic Problems installing Rosetta
by S » Fri, 2010-09-03 01:04
4
5,823 by abdullah_ahmed
Mon, 2014-04-21 06:47
Normal topic postive score models from AbinitioRelax
by xpzhang » Fri, 2012-06-22 12:34
4
3,918 by smlewis
Mon, 2014-04-21 06:47
Normal topic Membrane folding - blastpgp error.
by arthuc01 » Sun, 2012-03-25 14:47
4
5,450 by arthuc01
Mon, 2014-04-21 06:47
Normal topic Ligand conformations file in docking
by rosa » Fri, 2013-07-12 09:21
4
5,020 by rosa
Mon, 2014-04-21 06:48
Normal topic Denovo density corrupted silent file
by ahmadkhalifa » Mon, 2018-04-23 07:30
4
3,284 by ahmadkhalifa
Thu, 2018-04-26 09:11
Normal topic protein protein docking pipeline
by dzhao » Thu, 2012-07-19 06:25
4
5,568 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error when running enzyme_design tutorial
by linucks » Fri, 2017-06-30 12:26
4
3,436 by linucks
Mon, 2017-07-03 09:50
Normal topic how to keep native structure when do loop modeling
by zlni » Sun, 2009-05-03 10:12
4
3,904 by zlni
Mon, 2014-04-21 06:47
Normal topic computer specifications
by rlwoltz » Tue, 2012-10-09 16:11
4
5,788 by rlwoltz
Mon, 2014-04-21 06:47
Normal topic RNA Parameter File
by hdavis9 » Tue, 2010-07-06 11:36
4
3,663 by smlewis
Mon, 2014-04-21 06:47
Normal topic Does Rosetta recognise OXT atom type in PDB.?
by monos_morpheus » Mon, 2011-04-11 23:57
4
5,118 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic Energy calculation for protein design
by Filipe » Sat, 2011-11-26 15:01
4
6,932 by Filipe
Mon, 2014-04-21 06:47
Normal topic Suppressing Rosetta output, flag for that?
by msellers » Tue, 2011-04-26 11:18
4
4,882 by smlewis
Mon, 2014-04-21 06:47
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
5,900 by lanselibai
Fri, 2014-12-12 10:27
Normal topic a question about loop refinement
by albumns » Fri, 2012-03-02 09:38
4
5,172 by albumns
Mon, 2014-04-21 06:47
Normal topic Discarding atoms for fixbb
by Jacob-kong » Tue, 2012-06-26 06:23
4
5,018 by Jacob-kong
Mon, 2014-04-21 06:47
Normal topic Give diferent chain information for a single sequence (comparative modeling)
by Martin Floor » Tue, 2013-04-02 08:59
4
4,374 by Martin Floor
Mon, 2014-04-21 06:47
Normal topic span and frags filefor multichain transmembrane protein
by zhiguang » Wed, 2016-10-26 13:28
4
3,657 by zhiguang
Tue, 2016-11-15 12:27
Normal topic Error when attempting to relax pdb, "flag_input_relax" not found
by Wexter300 » Mon, 2023-01-23 11:32
4
490 by Wexter300
Wed, 2023-01-25 12:34
Normal topic solvation
by gw » Wed, 2011-08-31 17:14
4
4,334 by smlewis
Mon, 2014-04-21 06:47
Normal topic Fragment files
by exchhattu » Fri, 2009-09-18 01:04
4
4,360 by rmoretti
Tue, 2015-01-06 09:58
Normal topic Can anyone become a Rosetta developer?
by cossio » Thu, 2015-01-22 05:10
4
5,669 by cossio
Thu, 2015-01-29 11:50
Normal topic total energy score of the pdb structure
by Lindsay » Tue, 2012-05-01 12:14
4
6,048 by Lindsay
Mon, 2014-04-21 06:47
Normal topic Comparative Modeling Tutorial Script not working
by Srinivas23 » Thu, 2017-09-21 12:00
4
3,037 by Srinivas23
Tue, 2017-10-24 10:58
Normal topic could I add some constrain to the backbone but not completely fix it when relax?
by albumns » Tue, 2010-06-29 05:43
4
3,600 by smlewis
Mon, 2014-04-21 06:47
Normal topic Flexible backbone design using PSSM
by kalicuta » Thu, 2012-07-26 13:38
4
4,662 by rmoretti
Mon, 2014-04-21 06:47
Normal topic protein ligand docking
by patrickchirdon » Sun, 2018-12-30 15:07
4
3,012 by smlewis
Mon, 2018-12-31 08:58
Normal topic UBQ chemically conjugated docking error
by cheyuk » Fri, 2015-09-18 06:57
4
4,258 by cheyuk
Sun, 2015-09-20 02:08
Normal topic core.scoring.rms_util: WARNING: CA_rmsd out of range...
by mdyini » Sat, 2012-02-25 16:14
4
4,070 by mdyini
Mon, 2014-04-21 06:47
Normal topic Picking the correct model from a large set of decoys (30,000+)
by brspurri » Thu, 2012-04-26 15:37
4
5,278 by rmoretti
Mon, 2014-04-21 06:47
Normal topic computer shuts down during autobulding with rosetta
by intekhab » Tue, 2011-07-19 01:07
4
4,055 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Ab initio/relax flag file setup
by w107kdk » Fri, 2009-08-28 11:49
4
4,303 by w107kdk
Mon, 2014-04-21 06:47
Normal topic Relax protocol details for Rosetta 3.1
by Matthys » Sun, 2012-01-15 10:00
4
4,181 by rmoretti
Mon, 2014-04-21 06:47
Normal topic error about 'std::bad_alloc' during running
by zhisheng » Mon, 2011-01-10 09:45
4
10,928 by smlewis
Mon, 2014-04-21 06:47
Normal topic [Mover] is not known to the MoverFactory
by Jhreed » Fri, 2016-08-05 12:23
4
3,870 by msardejani
Sun, 2016-08-07 17:49
Normal topic Can I compare binding affinity of different ligands using Rosetta?
by zg148119@ohio.edu » Sun, 2020-12-06 11:30
4
2,789 by nannemdp
Fri, 2021-02-05 06:49
Normal topic pepspec aplication - segmentation fault
by tiagogomes89 » Fri, 2011-09-02 11:18
4
3,961 by smlewis
Mon, 2014-04-21 06:47
Normal topic Unrecognized residue Glc
by cgautier » Tue, 2015-03-31 02:20
5
5,902 by rmoretti
Thu, 2015-04-16 10:09
Normal topic Encouraging better packing in enzyme_design
by linucks » Thu, 2018-03-01 07:05
5
5,159 by linucks
Wed, 2018-04-25 08:50
Normal topic Produces a set of rotamers from a given residue
by a-eatemadi@razi... » Tue, 2017-08-15 08:05
5
4,829 by a-eatemadi@razi...
Fri, 2017-09-15 07:45
Normal topic segmentation fault when using design_hpatch scoring function
by rbjacob » Mon, 2018-04-09 11:05
5
3,470 by smlewis
Wed, 2018-04-11 11:45
Normal topic defining interface in interface analyzer
by aa20 » Fri, 2013-09-27 11:08
5
6,492 by smlewis
Mon, 2014-04-21 06:48
Normal topic dun10
by jadolfbr » Thu, 2012-01-19 12:16
5
4,796 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Scoring Electrostatics
by aroop » Tue, 2012-08-07 11:41
5
5,178 by aroop
Mon, 2014-04-21 06:47
Normal topic modeling residues with covalent ligand attachments
by sid » Fri, 2011-04-15 09:16
5
7,350 by rmoretti
Fri, 2015-07-03 14:02
Normal topic Rosetta Antibody Prepack - Problem HL_A vs. LH_A
by cannond » Fri, 2017-03-03 02:41
5
4,868 by cannond
Wed, 2017-03-08 03:00
Normal topic protocols.jd2.JobDistributor: [ ERROR ]
by johnnytam100 » Thu, 2019-04-11 09:30
5
4,110 by jadolfbr
Tue, 2019-04-16 09:15
Normal topic calculate RMSD (RNA modelling)
by obdulia » Tue, 2016-07-05 01:58
5
5,572 by obdulia
Wed, 2016-07-13 09:11
Normal topic uninstalling or rebuilding rosetta
by rlwoltz » Thu, 2013-04-11 11:45
5
7,303 by rlwoltz
Mon, 2014-04-21 06:47
Normal topic Abinitio Calculations - typical parameters
by vamsi » Thu, 2010-11-11 07:06
5
5,533 by smlewis
Mon, 2014-04-21 06:47
Normal topic comparison of energy
by sdh » Mon, 2010-08-16 07:55
5
5,049 by smlewis
Mon, 2014-04-21 06:47
Normal topic About align hundreds of pdb structures produced by rosseta membrane abinitio
by ritacc18 » Wed, 2013-05-22 12:37
5
6,202 by ssrb
Tue, 2015-09-22 08:35
Normal topic RosettaDock decoys recoring with ZRANK
by cheyuk » Fri, 2014-04-11 01:40
5
7,483 by rmoretti
Thu, 2016-04-28 15:53
Normal topic De novo Protein Design
by ac.research » Sat, 2017-07-15 10:39
5
7,846 by rmoretti
Mon, 2017-08-14 09:06
Normal topic Reading FE from 2PAH
by jadolfbr » Tue, 2013-01-29 16:10
5
6,020 by rmoretti
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
6,902 by rmoretti
Mon, 2014-04-21 06:48
Normal topic combine_silent ERROR: unknown atom_name: CYS SG
by freedman » Mon, 2017-03-06 10:56
5
3,911 by freedman
Mon, 2017-03-06 13:24
Normal topic cluster pdb structures questions
by ritacc18 » Thu, 2013-03-28 19:20
5
6,731 by ritacc18
Mon, 2014-04-21 06:47
Normal topic Computing energy gradients for side chain minimization
by pachecoj » Wed, 2017-03-29 08:03
5
4,274 by pachecoj
Wed, 2017-03-29 12:32
Normal topic Question regarding buried or exposed residues
by qlj » Fri, 2012-11-09 23:43
5
6,185 by qlj
Mon, 2014-04-21 06:47
Normal topic loop modelling/Rosetta 3.4, 3.5
by berk » Tue, 2013-07-02 08:38
5
5,471 by MRH
Mon, 2014-04-21 06:48
Normal topic how to use AbinitioRelax.mpi.linuxgccrelease?
by albumns » Mon, 2012-03-26 22:50
5
6,269 by smlewis
Mon, 2014-04-21 06:47
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