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Rosetta 3 - General

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Normal topic ddG backbone movement
by dave » Wed, 2012-10-03 03:23
2
2,931 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
2,103 by dasdevashishdas
Thu, 2018-08-23 18:02
Normal topic Homology modeling
by mchldln » Mon, 2009-08-17 13:04
2
3,562 by smlewis
Mon, 2014-04-21 06:47
Normal topic I got the message "ERROR: Residue names must be unique!".
by monos_morpheus » Sun, 2011-02-06 03:55
2
3,551 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic Loop modelling,
by berk » Sat, 2013-06-08 08:29
2
2,722 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
2,952 by pitmand
Tue, 2015-05-26 12:20
Normal topic Clustering Rosetta output PDB files
by ritacc18 » Sat, 2014-01-11 20:13
2
5,534 by jwillis
Sat, 2015-06-27 21:11
Normal topic What is "residue packing", "repacking", and so on?
by cossio » Wed, 2014-12-03 08:49
2
3,494 by cossio
Wed, 2014-12-03 14:51
Normal topic scoring with omega energy term
by SergeyP » Thu, 2017-03-09 12:03
2
2,540 by SergeyP
Fri, 2017-03-10 11:16
Normal topic FARFAR2 Error With Secondary Structure File
by bdh81 » Thu, 2023-11-02 09:01
2
157 by bdh81
Sun, 2023-11-05 16:04
Normal topic the meaning of "maxsub" in score.fsc
by exchhattu » Tue, 2009-11-10 04:37
2
3,423 by smlewis
Mon, 2014-04-21 06:47
Normal topic Running time of Rosetta/FlexPepDock
by gerdos » Thu, 2015-10-15 02:14
2
2,598 by gerdos
Fri, 2015-10-16 03:01
Normal topic Job Distribution Error
by ac.research » Mon, 2020-02-10 08:22
2
1,854 by ac.research
Fri, 2020-02-14 23:33
Normal topic RuntimeError: CUDA out of memory.
by ravi.thakkar » Tue, 2023-03-07 00:27
2
539 by rmoretti
Tue, 2023-03-07 08:18
Normal topic Rosetta numbering with missing occupancies
by ShaneOConnor » Fri, 2011-10-07 16:18
2
3,483 by ShaneOConnor
Mon, 2014-04-21 06:47
Normal topic RASREC - finding lowest energy structure
by Lati » Fri, 2015-11-20 03:08
2
2,726 by Lati
Tue, 2016-01-12 13:28
Normal topic DockingProtocol mover ensemble error
by dfcoelho » Tue, 2018-10-16 08:32
2
2,396 by brspurri
Thu, 2020-08-20 13:22
Normal topic Rigid Body & Flexible Minimization
by Hanieh » Thu, 2014-02-06 12:37
2
3,784 by Hanieh
Fri, 2014-02-28 12:43
Normal topic Error reading new residue .param file
by mgrom92 » Tue, 2016-03-22 12:54
2
4,224 by mgrom92
Wed, 2016-03-23 16:45
Normal topic GeneralizedKIC disulfide closure
by Ken » Tue, 2022-08-16 13:32
2
804 by Ken
Wed, 2022-08-17 08:04
Normal topic Specifying sidechain NOE restraints in Relax!
by kalabharath » Mon, 2012-12-10 16:44
2
2,965 by kalabharath
Mon, 2014-04-21 06:47
Normal topic Using NCAAs in protocols with native heme proteins
by htorres » Wed, 2018-01-24 08:32
2
2,539 by htorres
Mon, 2018-02-05 06:53
Normal topic de novo protein prediction
by pci112 » Tue, 2021-03-23 10:13
2
1,412 by pci112
Thu, 2021-03-25 01:44
Normal topic Does Rosetta have a separate refinement function?
by ylwang » Tue, 2019-09-24 19:08
2
1,851 by ylwang
Tue, 2019-10-08 18:34
Normal topic Patches for post-translational modifications
by ltrabuco » Tue, 2011-02-22 01:00
2
3,964 by ltrabuco
Mon, 2014-04-21 06:47
Normal topic Using mode=profile
by Biokhar » Fri, 2012-07-06 00:29
2
3,197 by scombs
Mon, 2014-04-21 06:47
Normal topic How to prevent rotamers from being pruned from the interaction graph?
by msun » Wed, 2013-04-17 14:19
2
2,739 by smlewis
Mon, 2014-04-21 06:47
Normal topic Adding centroid .params files for non-canonical residues based on all-atom .params files
by jcminerlanl » Thu, 2017-04-27 09:28
2
2,477 by vmulligan
Thu, 2017-04-27 16:41
Normal topic The concept of unsatisfied hydrogen bond
by asbelx » Wed, 2018-04-25 01:32
2
2,961 by asbelx
Thu, 2018-04-26 00:23
Normal topic Controlling Input in the Tutorial
by Smbat » Wed, 2020-07-29 22:41
2
1,532 by Smbat
Thu, 2020-07-30 03:07
Normal topic Differences between energy values reported in the tutorials and the ones obtained by running the code, what is normal?
by ericlang » Mon, 2021-07-05 05:43
2
1,135 by ericlang
Mon, 2021-07-05 06:59
Normal topic Is the Fold&Dock protocol availabe in Rosetta3.1
by justin » Mon, 2011-01-17 02:41
2
2,403 by smlewis
Mon, 2014-04-21 06:47
Normal topic -RBSegmentRelax:cst_wt not present in ca_to_allatom.linuxgccrelease application?
by Karol » Thu, 2016-05-12 06:30
2
2,488 by Karol
Thu, 2016-05-12 07:58
Normal topic MakeRotLib
by yinasun » Fri, 2019-07-26 02:18
2
1,992 by jalan
Sun, 2020-04-12 08:01
Normal topic input secondary structure prediction to AbinitioRelax
by biofisikx » Mon, 2010-08-09 12:36
2
2,534 by biofisikx
Mon, 2014-04-21 06:47
Normal topic Residue variant types and fragments
by jadolfbr » Mon, 2013-01-21 09:01
2
3,153 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic No RMS and IRMS values in protein/nucleic acid docking
by rbeier1 » Wed, 2016-01-13 12:41
2
3,172 by smlewis
Thu, 2016-01-14 08:19
Normal topic Error in flex ddG tutorial
by wentlewi » Sat, 2020-05-16 08:06
2
1,531 by Alvin Yang
Wed, 2023-10-04 03:34
Normal topic De novo backbone trace from fragments
by Victor Tobiasson » Tue, 2020-12-22 06:34
2
1,807 by Victor Tobiasson
Tue, 2020-12-22 09:18
Normal topic Modelling Sheets
by monteirotorres » Thu, 2009-07-02 11:41
2
2,733 by monteirotorres
Mon, 2014-04-21 06:47
Normal topic ERROR: PDB reader is ignoring atom
by phanvy » Wed, 2014-04-16 17:59
2
3,530 by phanvy
Mon, 2014-04-21 03:58
Normal topic which make_fragments.pl
by renedominik » Mon, 2018-06-04 08:58
2
3,069 by renedominik
Sat, 2018-07-07 03:03
Normal topic RosettaRemodel gives no increased output when setting higher -num_trajectory
by JW_24 » Tue, 2020-09-22 11:49
2
1,490 by JW_24
Wed, 2020-09-23 01:27
Normal topic Help deciphering an input
by Elijah_Hix » Wed, 2021-09-22 11:12
2
1,178 by Elijah_Hix
Thu, 2021-09-23 10:13
Normal topic Docking antibody to membrane protein
by Yegor_Ko » Thu, 2023-10-12 07:37
2
244 by Yegor_Ko
Fri, 2023-10-20 01:35
Normal topic How to use Rosetta 3.1 to model the structure of an antibody?
by sylvia » Mon, 2009-10-26 14:06
2
3,299 by vanita
Mon, 2014-04-21 06:47
Normal topic Error when clustering the output from a docking study
by jos » Thu, 2011-09-08 03:26
2
3,293 by jos
Mon, 2014-04-21 06:47
Normal topic Rosetta Resfile header
by G Mustafa » Mon, 2020-01-20 06:45
2
2,006 by G Mustafa
Tue, 2020-01-21 06:04
Normal topic score against rmsd plot of designs
by LanMei » Mon, 2022-03-21 22:46
2
955 by LanMei
Tue, 2022-03-22 20:45
Normal topic generate full atom coordinates with abinitio rosetta structure prediction
by anusmita_sahoo » Tue, 2010-03-30 00:11
2
3,056 by Trentage
Mon, 2014-04-21 06:47
Normal topic ERROR: Not complementary at positions
by szcshr123 » Fri, 2021-02-26 05:58
2
1,686 by szcshr123
Fri, 2021-02-26 14:41
Normal topic AbinitioRelax with restraints/constraints
by jtmacd » Mon, 2011-07-11 07:07
2
4,103 by jtmacd
Mon, 2014-04-21 06:47
Normal topic Calibur not listing cluster members
by Swillard » Sun, 2018-07-01 13:07
2
2,235 by benhardy
Fri, 2021-05-07 07:22
Normal topic harmonic_Calphas in RosettaLigand flags.txt
by cpkuntz » Wed, 2010-07-14 08:57
2
2,470 by smlewis
Mon, 2014-04-21 06:47
Normal topic Talaris scoring function
by Lindsay » Sun, 2014-08-24 18:16
2
6,172 by AndrewLeaver-Fay
Sun, 2015-09-20 19:34
Normal topic what is the xxx.static.linuxgccrelease?
by syoifczeri » Sat, 2015-10-31 04:09
2
5,812 by syoifczeri
Mon, 2015-11-02 03:59
Normal topic Constraining a docking study
by jos » Tue, 2011-10-18 05:26
2
2,552 by rmoretti
Mon, 2014-04-21 06:47
Normal topic "Local sequence-structure compatability" in "design of ideal protein structures"
by petrikigor » Sun, 2012-12-02 09:25
2
3,012 by petrikigor
Mon, 2014-04-21 06:47
Normal topic changing the chain id
by aneamtu » Tue, 2018-01-09 00:08
2
4,514 by aneamtu
Thu, 2018-01-18 00:56
Normal topic MPI optimization on TACC stampede2 HPC
by rlwoltz » Tue, 2021-03-16 18:07
2
1,822 by rlwoltz
Wed, 2021-03-24 22:36
Normal topic homo-oligomeric proteins.............folddock+symmetry+abinito
by anusmita_sahoo » Thu, 2010-04-29 02:59
2
3,509 by biofisikx
Mon, 2014-04-21 06:47
Normal topic ligand docking
by hong wei » Thu, 2021-11-18 05:01
2
1,177 by hong wei
Thu, 2021-11-25 02:46
Normal topic Different dG_separated from RAbD and InterfaceAnalyzer
by brubin » Mon, 2022-12-19 13:58
2
674 by brubin
Tue, 2022-12-20 13:26
Normal topic Using Relax to asses conformational space
by glapidoth11 » Sat, 2011-07-30 05:09
2
2,821 by smlewis
Mon, 2014-04-21 06:47
Normal topic RosettaCM: threading okay, but hybridize loses many secondary structure
by lanselibai » Wed, 2021-06-23 13:51
2
1,146 by lanselibai
Thu, 2021-06-24 10:16
Normal topic Issue with Loop Analyzer Mover ouput
by abhi_pe_acharya » Mon, 2018-04-30 09:55
2
1,926 by abhi_pe_acharya
Mon, 2018-04-30 22:54
Normal topic error running rosetta3.1 demos
by lvtun » Thu, 2010-10-21 20:43
2
2,950 by lvtun
Mon, 2014-04-21 06:47
Normal topic Rosetta atoms types for enzyme design
by bharat_46010 » Thu, 2011-11-10 06:01
2
3,836 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Questions on energy oddities
by pachecoj » Wed, 2014-10-15 13:26
2
2,602 by pachecoj
Wed, 2014-10-15 15:12
Normal topic Error score_scatter_plot.py
by jrcf » Wed, 2015-12-30 05:46
2
3,274 by jrcf
Fri, 2016-02-12 16:41
Normal topic generating 10 lowest energy structures from abinitio
by isengupta13 » Fri, 2010-05-07 11:44
2
2,480 by ndousis
Mon, 2014-04-21 06:47
Normal topic build parallel version of Rosetta
by atfrank » Tue, 2009-10-06 22:33
2
3,635 by smlewis
Mon, 2014-04-21 06:47
Normal topic reporting IteratedConvergence status
by sdh_h » Thu, 2016-08-04 10:05
2
2,396 by sdh_h
Thu, 2016-08-04 11:22
Normal topic runtime error
by exchhattu » Wed, 2010-03-03 02:54
2
2,436 by exchhattu
Mon, 2014-04-21 06:47
Normal topic what is minirosetta
by Lindsay » Tue, 2012-04-10 07:48
2
9,649 by Lindsay
Mon, 2014-04-21 06:47
Normal topic possible idealize app bug - residues being deleted
by jtmacd » Mon, 2009-06-08 06:27
2
2,634 by jtmacd
Mon, 2014-04-21 06:47
Normal topic Error Atom_::dihedral_between_bonded_children
by abiadak » Mon, 2012-07-30 06:34
2
3,792 by abiadak
Mon, 2014-04-21 06:47
Normal topic ​​B​3​-protein design using rosettaScript movers
by straore » Mon, 2015-03-16 05:05
2
2,722 by straore
Fri, 2015-04-17 01:54
Normal topic Modelling a loopless structure
by jhbrown » Tue, 2011-11-22 11:39
2
2,871 by jhbrown
Mon, 2014-04-21 06:47
Normal topic docking mover(s) in rosetta
by aaj » Mon, 2016-01-25 02:38
2
2,574 by aaj
Mon, 2016-02-22 07:50
Normal topic rosetta run error
by isengupta13 » Thu, 2010-06-03 19:00
2
3,002 by aminzia
Fri, 2019-07-26 13:14
Normal topic PUBLICATION using Rosetta as a method
by phanvy » Thu, 2014-06-19 08:33
2
2,876 by phanvy
Sun, 2014-06-22 23:29
Normal topic Another request for help with restarts
by jasnyderjr » Tue, 2015-08-18 12:14
2
2,810 by rmoretti
Tue, 2015-08-18 17:11
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
3,226 by monos_morpheus
Mon, 2014-04-21 06:47
Normal topic Flag to not use PDB ligands
by matteoferla » Wed, 2019-08-21 10:14
2
1,796 by matteoferla
Wed, 2019-08-21 11:58
Normal topic Ca-RMSD
by jrcf » Mon, 2016-02-29 16:39
2
3,094 by jrcf
Tue, 2016-05-03 17:40
Normal topic JD3 w/ Silent file output crashing - Option filename not found
by aduffy33 » Mon, 2023-10-30 13:40
2
158 by aduffy33
Mon, 2023-10-30 15:35
Normal topic Cluster gdtmm vs. rmsd
by brspurri » Thu, 2012-04-19 08:19
2
3,806 by rmoretti
Mon, 2014-04-21 06:47
Normal topic The following options have been set but have not yet been used
by jrcf » Fri, 2015-10-09 10:48
2
3,647 by jrcf
Fri, 2015-10-16 10:57
Normal topic RifDock building error on Ubuntu 20.04,please help!
by guowuchen » Mon, 2022-03-28 03:53
2
1,509 by guowuchen
Wed, 2022-03-30 04:20
Normal topic -fake_native Error - not found in command line of rosetta 3.2.1
by vsjasion » Wed, 2011-10-05 12:01
2
3,192 by vsjasion
Mon, 2014-04-21 06:47
Normal topic mutate residue at termini
by jarek » Fri, 2013-09-13 09:24
2
3,623 by jarek
Mon, 2014-04-21 06:48
Normal topic Cannot create cst files from upl files
by road runner » Wed, 2015-11-11 22:07
2
2,643 by road runner
Tue, 2015-12-01 10:08
Normal topic Installing Rosetta Abinitio make_fragments.pl
by ctaylor » Thu, 2009-09-17 09:20
2
3,280 by ctaylor
Mon, 2014-04-21 06:47
Normal topic keep crystal structure hydrogens
by gw » Wed, 2011-07-20 03:54
2
3,147 by gw
Mon, 2014-04-21 06:47
Normal topic How to remove clashes in peptide bonds and proline residue?
by Anatol » Fri, 2012-08-31 09:26
2
2,987 by Anatol
Mon, 2014-04-21 06:47
Normal topic Interface energy vs binding energy
by Apiwat » Wed, 2014-02-05 00:47
2
5,782 by Apiwat
Sat, 2014-02-08 01:41
Normal topic Explanation of constraint functions?
by aloshbau » Mon, 2015-12-14 22:38
2
2,369 by aloshbau
Mon, 2015-12-14 23:30
Normal topic error in mol2 to params conversion for GAliganddocking
by jalan » Wed, 2020-04-22 06:08
2
1,757 by jalan
Thu, 2020-04-23 05:19
Normal topic Chain name being read as residue
by MarkusAurelius » Mon, 2021-03-22 11:19
2
1,257 by MarkusAurelius
Mon, 2021-03-29 09:06
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