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Rosetta 3 - General

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Normal topic RosettaCM: adding constraints while keeping AUTO constraints
by Michele.Bonus » Sun, 2020-08-30 10:42
2
1,080 by Michele.Bonus
Sun, 2020-08-30 23:06
Normal topic Parametrisation problems
by DmitriiN » Tue, 2016-05-31 09:37
2
1,822 by DmitriiN
Wed, 2016-06-01 15:46
Normal topic RestrictToRepackingRLT and PreventRepackingRLT
by coomteng@gmail.com » Mon, 2018-03-05 11:19
2
1,709 by coomteng@gmail.com
Tue, 2018-03-06 02:31
Normal topic Basic help with Protein-DNA and Protein-Protein modeling and engineering
by Robert Evans » Sat, 2013-08-17 12:21
2
3,117 by Robert Evans
Mon, 2014-04-21 06:48
Normal topic Can't read constraint type
by allan.ferrari » Fri, 2015-08-28 12:33
2
2,145 by allan.ferrari
Mon, 2015-09-21 21:54
Normal topic Reading chloride anions
by Martin Floor » Mon, 2018-08-27 14:29
2
1,676 by Martin Floor
Tue, 2018-08-28 13:21
Normal topic Issues with angle Constraints during Docking
by LeonhardJS » Thu, 2021-01-28 04:40
2
863 by LeonhardJS
Fri, 2021-01-29 01:12
Normal topic Structure Prediction: Max Sequence Length?
by jcsaborio » Tue, 2009-07-14 12:10
2
3,241 by jcsaborio
Mon, 2014-04-21 06:47
Normal topic Protein Docking Error
by ac.research » Thu, 2017-08-17 02:57
2
1,614 by ac.research
Fri, 2017-08-18 00:53
Normal topic error running rosetta3.1 demos
by lvtun » Thu, 2010-10-21 20:43
2
2,358 by lvtun
Mon, 2014-04-21 06:47
Normal topic Rosetta ab initio with disordered regions
by smiruthi » Thu, 2011-12-15 14:37
2
2,400 by smiruthi
Mon, 2014-04-21 06:47
Normal topic constraints
by lah435 » Sun, 2017-03-12 03:25
2
1,704 by lah435
Mon, 2017-04-03 19:50
Normal topic MSDMover error in RECON protocol
by yifeili1983 » Mon, 2019-04-01 00:44
2
1,276 by yifeili1983
Mon, 2019-04-15 22:34
Normal topic relax from a silent input file
by mintseris » Thu, 2010-04-29 19:54
2
2,447 by mintseris
Mon, 2014-04-21 06:47
Normal topic Is there any significant improvement of model generation in rosetta3.4 comparing to rosetta3.3?
by jiongzhang » Fri, 2012-04-20 13:35
2
2,333 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Fitting a structure with an unrecognized residue to an EM density
by ahmadkhalifa » Tue, 2017-12-05 14:44
2
1,583 by ahmadkhalifa
Wed, 2017-12-06 12:30
Normal topic Segfault with docking protocol
by almeida85 » Mon, 2021-02-08 06:39
2
746 by almeida85
Mon, 2021-02-08 09:50
Normal topic Checkpoints in Rosetta
by exchhattu » Mon, 2009-10-19 17:47
2
2,329 by exchhattu
Mon, 2014-04-21 06:47
Normal topic Extracting PDBs from a Silent file: "Can't find residue type for ARG"
by avsrivatsa » Sat, 2020-10-17 16:20
2
984 by avsrivatsa
Mon, 2020-10-19 18:16
Normal topic PIPER-FlexPepDock protocol file apply_ftresult.py missing
by diasmarieli » Thu, 2021-11-04 06:33
2
608 by diasmarieli
Fri, 2021-11-26 05:11
Normal topic rna_denovo and minize_rna
by frits » Wed, 2013-07-10 00:22
2
2,385 by frits
Mon, 2014-04-21 06:48
Normal topic Chi values for side chains when switching from centroid mode
by MarkW » Fri, 2015-07-03 04:43
2
2,071 by MarkW
Fri, 2015-07-03 15:36
Normal topic ligand dock residue selection
by Silice » Wed, 2009-08-12 08:57
2
2,169 by frichter
Mon, 2014-04-21 06:47
Normal topic SnugDock equivalent in newer Rosetta code
by SenyorDrew » Tue, 2016-03-29 09:16
2
2,089 by SenyorDrew
Wed, 2016-04-06 10:52
Normal topic where is PyIgClassfiy.py ?
by mxp » Tue, 2020-07-07 23:57
2
1,022 by mxp
Wed, 2020-07-08 23:25
Normal topic Energy updates in Rosetta 3.3
by gipsonb » Tue, 2011-10-11 09:58
2
2,131 by gipsonb
Mon, 2014-04-21 06:47
Normal topic possible error in make_fragments.pl and fix
by DanielK » Fri, 2012-04-27 02:23
2
2,363 by DanielK
Mon, 2014-04-21 06:47
Normal topic What is a "silent file"?
by lanselibai » Mon, 2014-09-22 02:43
2
5,738 by lanselibai
Mon, 2014-09-22 08:13
Normal topic H3 modelling scoring function
by aneamtu » Wed, 2017-12-27 23:10
2
1,605 by aneamtu
Mon, 2018-01-08 23:49
Normal topic -ignore_unrecognized_res doesn't work
by e3lm » Fri, 2022-05-06 14:47
2
158 by e3lm
Fri, 2022-05-06 16:10
Normal topic help with perturbation docking please
by einew » Fri, 2011-03-25 16:16
2
2,584 by einew
Mon, 2014-04-21 06:47
Normal topic ERROR:: Exit from: src/core/fragment/ConstantLengthFragSet.cc line: 116
by phanvy » Wed, 2014-10-08 22:28
2
2,360 by phanvy
Wed, 2014-10-15 21:41
Normal topic rama energy term and explicit zero
by SergeyP » Sat, 2015-12-19 05:25
2
2,206 by SergeyP
Sun, 2015-12-20 01:44
Normal topic Calibur-linux binary or source code availability?
by jasnyderjr » Sat, 2016-12-10 23:36
2
2,153 by jadolfbr
Sun, 2016-12-11 10:53
Normal topic clean_pdb.py
by duz » Wed, 2021-03-24 13:36
2
1,006 by duz
Thu, 2021-04-01 09:34
Normal topic How do I add virtual atom to my cofactor (metal ion) in rosettadock?
by monos_morpheus » Sat, 2011-02-05 21:24
2
2,668 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic AbInitioRelax.mpi Hangs - Waiting for Job Request
by nleroy » Thu, 2019-10-31 07:30
2
1,328 by nleroy
Fri, 2019-11-08 12:44
Normal topic Which rosetta for antibody modelling?
by oppopomoz » Wed, 2013-04-24 09:10
2
2,397 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Question about CartesianMD
by orionshih » Sun, 2018-04-29 21:07
2
1,421 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
624 by matteoferla
Mon, 2021-07-12 02:23
Normal topic multi state protein design
by rohi » Fri, 2020-09-04 08:14
2
1,128 by rmoretti
Tue, 2021-02-09 13:45
Normal topic filter score by I_sc and keep top 1000
by aaj » Tue, 2016-01-19 07:13
2
2,240 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
2,031 by smlewis
Sun, 2017-01-15 18:10
Normal topic activation of filters in rosetta3.0 or later
by exchhattu » Thu, 2009-12-03 17:52
2
2,132 by exchhattu
Mon, 2014-04-21 06:47
Normal topic Rescoring regions of structures
by erin_cutts » Mon, 2013-07-22 04:43
2
2,414 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
1,362 by rmoretti
Mon, 2018-08-20 11:51
Normal topic Performace Benchmarking
by Tushar Kush » Wed, 2019-12-04 02:50
2
1,448 by smlewis
Wed, 2019-12-04 13:07
Normal topic Minimizing across jumps
by SenyorDrew » Thu, 2017-07-06 06:26
2
1,879 by SenyorDrew
Thu, 2017-07-06 07:48
Normal topic loop file
by banshee » Tue, 2013-06-04 13:26
2
2,146 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
2,008 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
1,557 by matteoferla
Thu, 2019-08-22 05:39
Normal topic jd2 time out error
by ytao » Mon, 2013-03-04 20:47
2
2,115 by ytao
Mon, 2014-04-21 06:47
Normal topic constrain files tutorial
by knutjbj » Fri, 2011-02-18 23:57
2
2,107 by smlewis
Mon, 2014-04-21 06:47
Normal topic Is CST_Design required for enzdes protocol?
by dasdevashishdas » Mon, 2018-09-03 00:51
2
1,587 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
1,312 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
719 by amystevens
Thu, 2021-09-30 14:18
Normal topic Weekly releases for commercial users?
by rjacak » Tue, 2022-03-22 07:48
2
219 by rjacak
Thu, 2022-03-31 10:53
Normal topic error when running beta_strand_homodimer_design
by szypanther » Sun, 2014-05-25 20:22
2
2,900 by szypanther
Mon, 2014-05-26 22:03
Normal topic Ineffective Constraints
by Sandy » Tue, 2017-09-05 19:36
2
1,561 by CameronJA
Wed, 2022-01-19 20:50
Normal topic Predict the N-terminal of a protein
by aliaselin » Mon, 2010-11-08 03:23
2
2,018 by smlewis
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
2,567 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
2,498 by Lindsay
Mon, 2014-04-21 06:47
Normal topic Configuration of Robetta fragment libraries
by Run » Fri, 2014-01-24 23:03
2
2,368 by Run
Mon, 2014-04-21 06:48
Normal topic loop design
by varma » Sun, 2012-11-04 21:25
2
3,077 by varma
Mon, 2014-04-21 06:47
Normal topic Jump::random_trans strange behavior
by SergeyP » Tue, 2015-11-03 07:56
2
2,000 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
1,944 by msardejani
Wed, 2016-10-05 10:53
Normal topic The -symmetry:perturb_rigid_body_dofs flag
by doranhen » Sat, 2012-04-28 13:01
2
2,192 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
2,318 by pachecoj
Thu, 2014-10-09 18:15
Normal topic Expanding the silent file
by jharamesh » Fri, 2018-01-12 09:15
2
1,396 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
1,374 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
1,238 by dfcoelho
Tue, 2019-11-19 10:16
Normal topic fixbb design use
by Lindsay » Fri, 2012-03-23 09:05
2
2,284 by Lindsay
Mon, 2014-04-21 06:47
Normal topic input secondary structure prediction to AbinitioRelax
by biofisikx » Mon, 2010-08-09 12:36
2
2,052 by biofisikx
Mon, 2014-04-21 06:47
Normal topic Generate structural fragments
by kingljy » Tue, 2011-05-10 20:18
2
4,527 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
1,279 by johnnytam100
Wed, 2019-05-15 18:45
Normal topic weird prolines with hydroxyls from fixbb.linuxgccrelease
by louisclark » Wed, 2010-08-25 15:01
2
2,220 by louisclark
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
2,623 by doranhen
Mon, 2014-04-21 06:47
Normal topic sign of ddG of mutation
by Lindsay » Wed, 2013-11-27 00:25
2
3,722 by Lindsay
Mon, 2014-04-21 06:48
Normal topic Calculating binding affinity
by phanvy » Wed, 2014-10-15 23:35
2
3,740 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
1,464 by sheehajh
Thu, 2018-02-08 21:18
Normal topic perturb_temp flag
by Loki01 » Tue, 2018-11-27 05:06
2
1,267 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
822 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
61 by cttm4a1
Mon, 2022-06-20 16:58
Normal topic generate full atom coordinates with abinitio rosetta structure prediction
by anusmita_sahoo » Tue, 2010-03-30 00:11
2
2,565 by Trentage
Mon, 2014-04-21 06:47
Normal topic make_fragments
by ctaylor » Mon, 2009-09-21 12:41
2
2,243 by ctaylor
Mon, 2014-04-21 06:47
Normal topic RosettaDOM
by ndousis » Sun, 2010-12-12 01:08
2
2,527 by ndousis
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
2,981 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta forcefield terms and interpretation
by zigeuner » Sat, 2013-05-25 16:59
2
4,085 by rmoretti
Mon, 2014-04-21 06:47
Normal topic dG/dsasa , What is the exact meaning?
by Apiwat » Sun, 2014-04-13 00:38
2
3,248 by Apiwat
Thu, 2014-04-17 09:56
Normal topic Rosetta CM round_thread.pdb doesn't exist and can't find pose (id = round)
by ahmadkhalifa » Wed, 2018-05-23 09:51
2
2,383 by rmoretti
Thu, 2018-06-28 14:09
Normal topic 4mer 6mer fragment database
by bjharris » Wed, 2020-09-09 15:12
2
1,113 by bjharris
Wed, 2020-09-09 20:04
Normal topic how does rosetta handle hydrogens?
by patcD » Tue, 2021-08-31 00:48
2
583 by patcD
Wed, 2021-09-01 06:54
Normal topic harmonic_Calphas in RosettaLigand flags.txt
by cpkuntz » Wed, 2010-07-14 08:57
2
1,969 by smlewis
Mon, 2014-04-21 06:47
Normal topic Run PackRotamersMover on specified rotamer set
by pachecoj » Mon, 2014-11-10 06:51
2
2,204 by pachecoj
Tue, 2014-11-11 19:30
Normal topic Method for WebServer Fragment Generation
by Jacob_Verburgt » Tue, 2020-06-02 07:29
2
1,239 by Jacob_Verburgt
Tue, 2020-06-02 10:26
Normal topic ddG backbone movement
by dave » Wed, 2012-10-03 03:23
2
2,439 by dave
Mon, 2014-04-21 06:47
Normal topic Do Rosetta support hydroxide(OH-) and oxide(O2-) params?
by dasdevashishdas » Thu, 2018-08-16 21:15
2
1,502 by dasdevashishdas
Thu, 2018-08-23 18:02
Normal topic Loop modelling,
by berk » Sat, 2013-06-08 08:29
2
2,229 by berk
Mon, 2014-04-21 06:48
Normal topic How to generate symmdef file for translational symmetry only?
by pitmand » Thu, 2015-05-14 11:34
2
2,380 by pitmand
Tue, 2015-05-26 12:20
Normal topic Clustering Rosetta output PDB files
by ritacc18 » Sat, 2014-01-11 20:13
2
4,841 by jwillis
Sat, 2015-06-27 21:11
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