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Rosetta 3 - General

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Normal topic AbInitioRelax.mpi Hangs - Waiting for Job Request
by nleroy » Thu, 2019-10-31 07:30
2
1,912 by nleroy
Fri, 2019-11-08 12:44
Normal topic Which rosetta for antibody modelling?
by oppopomoz » Wed, 2013-04-24 09:10
2
2,837 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Question about CartesianMD
by orionshih » Sun, 2018-04-29 21:07
2
1,883 by orionshih
Tue, 2018-05-01 21:16
Normal topic Why does the sum of the per-residue total energy not match the whole score?
by matteoferla » Fri, 2021-07-09 08:36
2
1,290 by matteoferla
Mon, 2021-07-12 02:23
Normal topic Minimizing across jumps
by SenyorDrew » Thu, 2017-07-06 06:26
2
2,321 by SenyorDrew
Thu, 2017-07-06 07:48
Normal topic multi state protein design
by rohi » Fri, 2020-09-04 08:14
2
1,661 by rmoretti
Tue, 2021-02-09 13:45
Normal topic total_score changes when decomposing bb hbonds ref2015
by Liviu Copoiu » Mon, 2022-10-31 15:40
2
498 by Liviu Copoiu
Mon, 2022-10-31 16:03
Normal topic filter score by I_sc and keep top 1000
by aaj » Tue, 2016-01-19 07:13
2
2,680 by aaj
Mon, 2016-02-22 07:43
Normal topic Different weights in the constraints for each stage of AbinitioRelax
by allan.ferrari » Sun, 2017-01-15 04:35
2
2,477 by smlewis
Sun, 2017-01-15 18:10
Normal topic Rescoring regions of structures
by erin_cutts » Mon, 2013-07-22 04:43
2
2,867 by erin_cutts
Mon, 2014-04-21 06:48
Normal topic recommended function type for cross links data
by meravb » Sun, 2018-08-05 06:57
2
1,778 by rmoretti
Mon, 2018-08-20 11:51
Normal topic Performace Benchmarking
by Tushar Kush » Wed, 2019-12-04 02:50
2
2,163 by smlewis
Wed, 2019-12-04 13:07
Normal topic Patches for post-translational modifications
by ltrabuco » Tue, 2011-02-22 01:00
2
3,857 by ltrabuco
Mon, 2014-04-21 06:47
Normal topic Is the Fold&Dock protocol availabe in Rosetta3.1
by justin » Mon, 2011-01-17 02:41
2
2,326 by smlewis
Mon, 2014-04-21 06:47
Normal topic loop file
by banshee » Tue, 2013-06-04 13:26
2
2,572 by banshee
Mon, 2014-04-21 06:48
Normal topic Score Differences between Ab Initio Scoring and Rescore
by mmarlett » Wed, 2016-06-15 09:14
2
2,436 by mmarlett
Thu, 2016-06-16 07:06
Normal topic Design with non-canonical amino acids (NCAA)
by yinasun » Mon, 2019-08-05 00:34
2
2,148 by matteoferla
Thu, 2019-08-22 05:39
Normal topic jd2 time out error
by ytao » Mon, 2013-03-04 20:47
2
2,519 by ytao
Mon, 2014-04-21 06:47
Normal topic Is CST_Design required for enzdes protocol?
by dasdevashishdas » Mon, 2018-09-03 00:51
2
2,125 by dasdevashishdas
Thu, 2018-09-27 03:35
Normal topic What is the best way to make a residue-specific SASA constraint?
by jmaly » Thu, 2020-01-23 16:40
2
2,032 by matteoferla
Wed, 2020-01-29 12:18
Normal topic problem plotting results from docking_analyser with provided Rscript
by madammolecular » Mon, 2021-02-01 14:44
2
1,298 by amystevens
Thu, 2021-09-30 14:18
Normal topic Weekly releases for commercial users?
by rjacak » Tue, 2022-03-22 07:48
2
842 by rjacak
Thu, 2022-03-31 10:53
Normal topic input secondary structure prediction to AbinitioRelax
by biofisikx » Mon, 2010-08-09 12:36
2
2,459 by biofisikx
Mon, 2014-04-21 06:47
Normal topic loop design
by varma » Sun, 2012-11-04 21:25
2
3,707 by varma
Mon, 2014-04-21 06:47
Normal topic Jump::random_trans strange behavior
by SergeyP » Tue, 2015-11-03 07:56
2
2,405 by SergeyP
Sat, 2015-12-19 05:20
Normal topic How to transform a pose from symmetric into non-symmetric?
by msardejani » Tue, 2016-10-04 16:55
2
2,368 by msardejani
Wed, 2016-10-05 10:53
Normal topic the meaning of "maxsub" in score.fsc
by exchhattu » Tue, 2009-11-10 04:37
2
3,344 by smlewis
Mon, 2014-04-21 06:47
Normal topic error when running beta_strand_homodimer_design
by szypanther » Sun, 2014-05-25 20:22
2
3,349 by szypanther
Mon, 2014-05-26 22:03
Normal topic Ineffective Constraints
by Sandy » Tue, 2017-09-05 19:36
2
2,125 by CameronJA
Wed, 2022-01-19 20:50
Normal topic Homology modeling
by mchldln » Mon, 2009-08-17 13:04
2
3,469 by smlewis
Mon, 2014-04-21 06:47
Normal topic generate full atom coordinates with abinitio rosetta structure prediction
by anusmita_sahoo » Tue, 2010-03-30 00:11
2
2,980 by Trentage
Mon, 2014-04-21 06:47
Normal topic I can't find the workflow about modeling disordered regsion using rosetta?
by lihowe » Thu, 2011-12-29 03:45
2
2,928 by wangyr
Mon, 2014-04-21 06:47
Normal topic Does the energy score output by fixbb design have unit?
by Lindsay » Mon, 2012-06-18 15:03
2
2,925 by Lindsay
Mon, 2014-04-21 06:47
Normal topic Configuration of Robetta fragment libraries
by Run » Fri, 2014-01-24 23:03
2
2,822 by Run
Mon, 2014-04-21 06:48
Normal topic The -symmetry:perturb_rigid_body_dofs flag
by doranhen » Sat, 2012-04-28 13:01
2
2,610 by doranhen
Mon, 2014-04-21 06:47
Normal topic Write PDB with multiple side-chain configurations
by pachecoj » Tue, 2014-09-30 21:42
2
2,800 by pachecoj
Thu, 2014-10-09 18:15
Normal topic Expanding the silent file
by jharamesh » Fri, 2018-01-12 09:15
2
1,853 by rmoretti
Mon, 2018-01-15 14:35
Normal topic Undocumented changes in BackrubDD
by abhi_pe_acharya » Mon, 2018-07-16 00:24
2
1,827 by abhi_pe_acharya
Sun, 2018-08-05 22:03
Normal topic protein surface design
by tatsiana.bylund » Sun, 2019-09-15 03:44
2
1,717 by dfcoelho
Tue, 2019-11-19 10:16
Normal topic harmonic_Calphas in RosettaLigand flags.txt
by cpkuntz » Wed, 2010-07-14 08:57
2
2,394 by smlewis
Mon, 2014-04-21 06:47
Normal topic fixbb design use
by Lindsay » Fri, 2012-03-23 09:05
2
2,677 by Lindsay
Mon, 2014-04-21 06:47
Normal topic Generate structural fragments
by kingljy » Tue, 2011-05-10 20:18
2
4,941 by pepfolder
Mon, 2014-04-21 06:47
Normal topic How to specify residue numbers in a resfile for a batch of pdbs, while some of them have missing residue numbers?
by johnnytam100 » Wed, 2019-05-08 02:30
2
2,151 by johnnytam100
Wed, 2019-05-15 18:45
Normal topic homo-oligomeric proteins.............folddock+symmetry+abinito
by anusmita_sahoo » Thu, 2010-04-29 02:59
2
3,443 by biofisikx
Mon, 2014-04-21 06:47
Normal topic Loop Modelling: ERROR: switch_to_residue_type_set fails
by smiruthi » Wed, 2012-07-18 14:48
2
3,392 by smlewis
Mon, 2014-04-21 06:47
Normal topic symmetric docking application rosetta3.2: the docking_local_refine flag
by doranhen » Sun, 2012-05-06 02:20
2
3,006 by doranhen
Mon, 2014-04-21 06:47
Normal topic sign of ddG of mutation
by Lindsay » Wed, 2013-11-27 00:25
2
4,284 by Lindsay
Mon, 2014-04-21 06:48
Normal topic Calculating binding affinity
by phanvy » Wed, 2014-10-15 23:35
2
4,333 by phanvy
Thu, 2014-10-16 18:54
Normal topic Repeating sequence in Rosetta de novo protein folding
by orionshih » Wed, 2018-02-07 20:52
2
1,903 by sheehajh
Thu, 2018-02-08 21:18
Normal topic perturb_temp flag
by Loki01 » Tue, 2018-11-27 05:06
2
1,784 by rmoretti
Wed, 2019-04-03 09:58
Normal topic Ligand being read as part of protein structure
by MarkusAurelius » Thu, 2021-04-01 11:00
2
1,375 by MarkusAurelius
Fri, 2021-04-02 11:44
Normal topic genkic mover produced an unwanted HN - CA bond
by cttm4a1 » Mon, 2022-06-20 14:25
2
652 by cttm4a1
Mon, 2022-06-20 16:58
Normal topic Is it possible to use two broker files
by kalabharath » Wed, 2011-06-08 01:01
1
2,279 by smlewis
Mon, 2014-04-21 06:47
Normal topic No output with docking full protocol
by JulienO » Mon, 2016-05-30 02:08
1
1,736 by rmoretti
Tue, 2016-07-12 08:40
Normal topic SNUGDOCK
by adva » Sun, 2017-07-16 00:49
1
1,460 by jeliazkov
Tue, 2017-07-18 09:51
Normal topic Predicting conformations of mutated residues
by Delfosse57 » Tue, 2023-08-22 12:26
1
94 by rmoretti
Wed, 2023-08-23 08:26
Normal topic symmetric Docking- TRIMER in Rosetta 3.4 ?
by sdg_lab » Thu, 2012-04-12 04:22
1
3,404 by rmoretti
Mon, 2014-04-21 06:47
Normal topic opt-E Reference energies
by vijayan » Wed, 2013-08-07 07:35
1
2,022 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Plexpepdock with Zn
by phanvy » Sun, 2014-06-22 22:40
1
1,903 by nawsad
Wed, 2014-06-25 13:26
Normal topic How to convert fragments to PDB format?
by JadAbbass » Wed, 2015-08-19 04:05
1
2,036 by rmoretti
Wed, 2015-09-02 12:48
Normal topic HBNetStapleInterface
by sdh_h » Wed, 2016-08-24 03:30
1
1,581 by smlewis
Wed, 2016-08-24 07:23
Normal topic What is the best protocol to predict the missing residues in X-ray crystallisation?
by lanselibai » Sun, 2019-12-29 04:44
1
1,184 by matteoferla
Wed, 2020-01-01 04:30
Normal topic Help - Protein-Protein interface design
by Dinesh Kumar » Thu, 2021-01-28 00:47
1
934 by rmoretti
Tue, 2021-02-09 10:29
Normal topic mcm for Docking in Rosetta3.1
by dyq » Tue, 2010-01-12 13:44
1
2,149 by smlewis
Mon, 2014-04-21 06:47
Normal topic Multiple jobs for homology modeling
by justin » Fri, 2011-06-24 08:03
1
2,956 by smlewis
Mon, 2014-04-21 06:47
Normal topic Moving Rosetta to C++11 standard
by smlewis » Wed, 2012-02-29 12:30
1
15,367 by rmoretti
Sat, 2015-09-05 12:10
Normal topic Amino acid post-translational modifications
by aelatico » Tue, 2018-06-19 03:29
1
1,773 by smlewis
Tue, 2018-06-19 10:31
Normal topic Protein-Protein Docking
by hwillis » Fri, 2009-08-07 01:31
1
2,450 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to set the cyana format of distance restraint in rosetta?
by zhisheng » Mon, 2011-04-25 02:21
1
2,969 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error: Some problem with atom_id_mask in defining atom_id_map
by galvaner » Tue, 2016-03-01 13:23
1
1,631 by rmoretti
Thu, 2016-04-28 15:57
Normal topic Multi-state design with the error "unable to locate database file"
by yifeili1983 » Sun, 2019-03-31 18:30
1
1,680 by rmoretti
Wed, 2019-04-03 09:31
Normal topic str::out_of_range with mpiexec and relax
by pedro.guillem » Fri, 2020-06-19 10:39
1
1,590 by pedro.guillem
Wed, 2020-06-24 04:49
Normal topic parameter file of GLU protonated (GLU_P1.params)
by rohi » Sat, 2021-06-05 20:44
1
893 by nannemdp
Sun, 2021-06-06 09:26
Normal topic Cluster gdtmm vs. rmsd
by brspurri » Thu, 2012-04-19 08:20
1
3,377 by rmoretti
Mon, 2014-04-21 06:47
Normal topic symmetric design without symmetrizing the structure
by sdh_h » Tue, 2016-09-13 05:49
1
1,859 by rmoretti
Tue, 2016-09-13 07:41
Normal topic Errors Rosetta symm refine
by ms4392 » Fri, 2016-10-21 13:56
1
1,861 by rmoretti
Mon, 2016-11-14 14:26
Normal topic RifGen error on rosetta, "assertion failed", please help!
by guowuchen » Thu, 2022-05-05 06:20
1
864 by sia
Tue, 2022-07-05 05:47
Normal topic rosie github log in
by YUANXU » Tue, 2023-04-25 20:13
1
217 by Sergey
Thu, 2023-04-27 12:03
Normal topic Cterm_amidation
by G Mustafa » Wed, 2021-11-03 08:52
1
849 by gezmi
Sat, 2021-11-06 15:26
Normal topic what kind of focefield does Rosetta based on?
by albumns » Tue, 2010-07-06 11:08
1
2,014 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to make Rosetta's sampling more aggresive ?
by jiongzhang » Mon, 2012-03-12 11:04
1
2,107 by rmoretti
Mon, 2014-04-21 06:47
Normal topic the output of ligand docking
by phanvy » Fri, 2015-07-03 01:27
1
1,925 by rmoretti
Fri, 2015-07-03 13:14
Normal topic problems in building rosetta3.1 (solved)
by zpliu09 » Wed, 2010-03-31 02:03
1
1,859 by smlewis
Mon, 2014-04-21 06:47
Normal topic prepack vs. relax with bb_cst
by Anonymous » Mon, 2012-06-25 06:50
1
2,430 by smlewis
Mon, 2014-04-21 06:47
Normal topic Extremely low interface scores with "local refinement"
by eminegenetics » Wed, 2017-03-29 12:24
1
1,848 by rmoretti
Wed, 2017-03-29 12:37
Normal topic Rosetta Antibody cuts off light chain?
by ziheng@mit.edu » Thu, 2019-05-02 15:17
1
1,328 by jeliazkov
Fri, 2019-05-03 07:00
Normal topic abintio clustering - funnel plot
by vamsi » Fri, 2011-03-25 09:18
1
2,502 by smlewis
Mon, 2014-04-21 06:47
Normal topic Memory leak? Memory consumption rises quickly when using JD2 app(s)
by yuvals » Mon, 2014-10-06 11:35
1
2,054 by yuvals
Mon, 2014-10-06 15:02
Normal topic Ab Initio large threshold for clustering
by Swillard » Mon, 2018-11-12 14:14
1
1,478 by rmoretti
Wed, 2018-11-21 14:01
Normal topic mol2genparams.py script dependencies
by dhirajks » Wed, 2022-06-08 16:46
1
523 by matteoferla
Thu, 2022-06-09 14:41
Normal topic Question about FlexPepDock score
by aelatico » Thu, 2018-07-19 20:39
1
1,533 by rmoretti
Wed, 2018-08-01 16:04
Normal topic error running "helix_preassemble_setup.py"
by zahra_AZ » Tue, 2020-11-03 01:54
1
1,256 by rmoretti
Tue, 2021-02-09 12:19
Normal topic Calculating shape complementarity of ligand and protein
by varunmc99 » Tue, 2023-01-17 11:29
1
397 by rmoretti
Mon, 2023-02-06 14:42
Normal topic Domain Insertion equivalent in Rosetta 3.2
by SenyorDrew » Wed, 2011-02-09 09:47
1
1,985 by smlewis
Mon, 2014-04-21 06:47
Normal topic PDB output sum
by enoee » Fri, 2010-07-16 12:29
1
1,997 by smlewis
Mon, 2014-04-21 06:47
Normal topic header pathways not accessable: No such file or directory
by rlwoltz » Tue, 2012-09-18 17:44
1
2,208 by smlewis
Mon, 2014-04-21 06:47
Normal topic Installing rosetta 3.0
by dalemu » Thu, 2009-09-24 13:28
1
2,595 by smlewis
Mon, 2014-04-21 06:47
Normal topic 3D Structure Prediction
by anirbanzz » Sat, 2010-04-17 02:47
1
2,517 by smlewis
Mon, 2014-04-21 06:47
Normal topic File specification of binary part of silent file (especially PDB section)
by m.ebert » Wed, 2019-05-29 01:52
1
1,256 by smlewis
Wed, 2019-05-29 13:21
Normal topic Residue outside res_map range
by to-qinbin@163.com » Sat, 2022-09-10 01:56
1
721 by rmoretti
Mon, 2022-09-12 07:01
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