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Rosetta 3 - Applications

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:18
0
7,543 by admin
Fri, 2015-09-04 16:17
Normal topic Stepwise Monte Carlo - errors with ResidueTypeSet and Disulfides
by user42 » Wed, 2021-07-21 20:34
1
48 by everyday847
Fri, 2021-07-30 13:26
Normal topic FlexPepDock bug? Constraints do not appear in total_score?
by nrollins » Mon, 2021-07-26 14:29
0
32 by nrollins
Mon, 2021-07-26 14:29
Normal topic FlexPepDock ab initio: behavior without fragment files
by nrollins » Mon, 2021-07-26 14:16
0
28 by nrollins
Mon, 2021-07-26 14:16
Normal topic Running Rosetta CM Hybridize step errors with: Scorefunction not set up for nonideal/Cartesian scoring
by brspurri » Wed, 2017-03-29 13:19
7
2,945 by matteoferla
Mon, 2021-07-19 06:13
Normal topic rosetta_cm segfault
by browns02 » Fri, 2021-07-09 13:35
2
68 by rmoretti
Fri, 2021-07-09 15:05
Normal topic D-amino acids tripeptide docking.
by sam_dc » Sat, 2021-07-03 08:48
2
96 by vmulligan
Tue, 2021-07-06 08:27
Normal topic Repacker vs minimization
by Elijah_Hix » Fri, 2021-07-02 07:25
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53 by Elijah_Hix
Fri, 2021-07-02 07:25
Normal topic How can I set ref2015 and ligand.wts(-restore_pre_talaris_2013_behavior )
by asbelx » Sat, 2019-06-08 00:07
3
1,044 by happycaapi
Tue, 2021-06-29 15:35
Normal topic setup_RosettaCM.py
by browns02 » Mon, 2021-06-28 07:13
2
65 by browns02
Tue, 2021-06-29 11:41
Normal topic How to Perform point mutations with NCAA
by Subhrodeep Saha » Tue, 2021-06-22 02:05
1
73 by vmulligan
Thu, 2021-06-24 13:23
Normal topic NCAA attached at two points
by tsztain » Wed, 2021-06-16 15:20
3
137 by matteoferla
Sat, 2021-06-19 03:07
Normal topic different value of score from rna_denovo and rna_score?
by yikanzhang » Wed, 2021-02-03 07:17
1
189 by CameronJA
Tue, 2021-06-15 20:02
Normal topic Fastsaxs
by Pernille » Mon, 2013-07-22 07:29
14
32,218 by rmoretti
Mon, 2021-06-14 12:56
Normal topic Blast error for rosetta antibody: No argument value given for Query file
by dngusdnr1 » Tue, 2021-06-08 17:30
1
95 by taylorjones
Wed, 2021-06-09 16:38
Normal topic Rosetta Ligand Ensemble
by malfonsoprieto » Wed, 2021-05-26 10:21
2
183 by malfonsoprieto
Tue, 2021-06-01 00:20
Normal topic FastRelax Refinement severe clashes
by Victor Tobiasson » Thu, 2021-05-20 06:55
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106 by Victor Tobiasson
Thu, 2021-05-20 06:55
Normal topic residue_energy_breakdown of a protein-ligand complex.
by sam_dc » Tue, 2021-05-18 04:45
1
154 by rmoretti
Tue, 2021-05-18 07:21
Normal topic Issues with modifying dock.xml for multiple ligand docking
by DGR95 » Fri, 2021-05-14 12:51
0
115 by DGR95
Fri, 2021-05-14 12:51
Normal topic Disulfide Bonds in Loop Modeling
by code_Monkey » Mon, 2021-05-03 08:27
2
178 by code_Monkey
Thu, 2021-05-06 07:14
Normal topic trRosetta protocol Segmentation Fault
by nc-ring » Wed, 2021-04-28 11:57
5
295 by nc-ring
Tue, 2021-05-04 12:26
Normal topic Thread target sequence
by duz » Thu, 2021-04-01 10:09
4
327 by duz
Mon, 2021-05-03 07:50
Normal topic Score Functions for Ligand-protein Docking
by ziruiw » Sun, 2021-04-25 13:41
4
293 by ziruiw
Fri, 2021-04-30 12:01
Normal topic Help with enzyme design files
by Wenithor » Thu, 2021-04-29 10:33
1
155 by rmoretti
Thu, 2021-04-29 10:44
Normal topic hpatch commands and how to identify patches
by Bianca Oliva » Thu, 2021-04-29 04:02
0
142 by Bianca Oliva
Thu, 2021-04-29 04:02
Normal topic ligand_docking tutorial help: do crystal_complex.pdb files need to be prepped before using with <InterfaceScoreCalculator>
by DGR95 » Fri, 2021-04-16 19:26
4
301 by DGR95
Wed, 2021-04-28 16:13
Normal topic RosettaCM/hybridize
by kywei » Wed, 2021-04-28 09:56
1
156 by vmulligan
Wed, 2021-04-28 12:59
Normal topic Generalized KIC loop closure affects downstream residues without perturbations
by chenna » Mon, 2021-04-26 02:16
2
176 by chenna
Wed, 2021-04-28 07:18
Normal topic Filling the missing loops
by code_Monkey » Tue, 2021-04-27 07:44
2
162 by code_Monkey
Tue, 2021-04-27 12:11
Normal topic Element 'trRosettaProtocol': This element is not expected.
by csaylan » Tue, 2021-04-20 14:21
2
204 by csaylan
Tue, 2021-04-20 16:13
Normal topic Docking Analysis and Metrics in RosettaLigand.
by sam_dc » Tue, 2021-04-20 03:54
1
213 by rmoretti
Tue, 2021-04-20 13:27
Normal topic multi ligand docking using rosetta script
by syntekabio2019 » Tue, 2021-04-13 19:31
0
146 by syntekabio2019
Tue, 2021-04-13 19:31
Normal topic r_frag_quality
by ii_cnr » Mon, 2021-04-12 03:06
2
182 by ii_cnr
Mon, 2021-04-12 23:44
Normal topic GeneralizedKIC loop closure error
by chenna » Sat, 2021-04-10 00:21
2
228 by chenna
Mon, 2021-04-12 22:08
Normal topic What is an SS0 predictor?
by ojmel » Fri, 2021-04-02 14:25
0
145 by ojmel
Mon, 2021-04-12 07:50
Normal topic RosettaLigand ERROR: Error in core::conformation::check_good_cutpoint_neighbour()
by sam_dc » Thu, 2021-03-25 09:32
2
283 by sam_dc
Mon, 2021-04-12 07:24
Normal topic issues about cstfile in RosettaMatch
by Nicole Deng » Fri, 2020-12-18 05:44
3
576 by He Xiao
Sun, 2021-04-11 19:29
Normal topic Patch to impose tetrahedral geometry on backbone O atom
by georg » Thu, 2021-04-08 09:30
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120 by georg
Thu, 2021-04-08 09:31
Normal topic Loop modeling with constraints
by agctomer » Sat, 2021-03-20 03:53
3
470 by agctomer
Thu, 2021-04-08 07:37
Normal topic PDB Clustering
by code_Monkey » Mon, 2021-04-05 10:40
0
149 by code_Monkey
Mon, 2021-04-05 10:40
Normal topic How to use base_pair_constraint for RNA as a constraint term?
by yels » Sat, 2021-04-03 01:19
1
186 by everyday847
Sun, 2021-04-04 12:48
Normal topic Can rosetta generate a centroid model based on the rna sequence?
by yels » Fri, 2021-03-26 04:06
7
460 by yels
Wed, 2021-03-31 18:31
Normal topic Protein Ensemble RosettaLigand Docking
by sam_dc » Fri, 2021-03-26 10:18
2
277 by sam_dc
Fri, 2021-03-26 12:04
Normal topic Should I be stripping water molecules from my input structure for Rosetta Design?
by chrisHKL » Wed, 2021-03-24 14:22
1
205 by smlewis
Wed, 2021-03-24 14:59
Normal topic Can't generate a cst file to use with ddg_monomer application
by ctqwong » Sat, 2021-03-13 03:53
6
522 by ctqwong
Thu, 2021-03-18 02:04
Normal topic Ab Initio folding with HEM ligand molecule
by jseco » Fri, 2021-03-05 06:49
0
169 by jseco
Mon, 2021-03-08 03:40
Normal topic Comparative Modeling Tutorial
by code_Monkey » Thu, 2021-03-04 12:35
1
232 by rmoretti
Fri, 2021-03-05 09:35
Normal topic Error from clean_pdb.py
by code_Monkey » Mon, 2021-03-01 17:00
2
266 by code_Monkey
Thu, 2021-03-04 12:14
Normal topic BuildPeptide - Using Phosphorylated and Sulfated Tyrosine
by jlawrie » Thu, 2020-09-03 14:29
1
483 by cryosky
Mon, 2021-03-01 21:37
Normal topic How to write down a connection between ligand's atom and metal ion from enzyme?
by Corvin » Mon, 2021-02-15 06:54
7
708 by aloshbau
Mon, 2021-03-01 20:06
Normal topic antibody H3 modelling protocol for nanobody gives "[ ERROR ] Inaccurate G!" messages
by AlfredoKCL » Sun, 2021-02-28 16:42
2
282 by AlfredoKCL
Mon, 2021-03-01 04:07
Hot topic CoupledMoves not altering backbone coordinates?
by amorin » Wed, 2021-01-20 11:38
15
1,449 by amorin
Sat, 2021-02-27 20:29
Normal topic Number of max allowed mutations from WT sequence
by mouung » Fri, 2020-09-04 02:33
2
563 by amorin
Fri, 2021-02-12 08:53
Normal topic Segfault with Pepspec
by almeida85 » Thu, 2021-02-11 02:56
0
154 by almeida85
Thu, 2021-02-11 02:56
Normal topic core.optimization.LineMinimizer: [ ERROR ] Inaccurate G!
by aralz » Thu, 2021-02-11 00:46
0
233 by aralz
Thu, 2021-02-11 00:46
Normal topic hbond_sr_bb and hbond_lr_bb for different chains
by tylerborrman » Tue, 2020-10-13 13:41
2
465 by tylerborrman
Tue, 2021-02-09 16:33
Normal topic Rosetta antibody- modeling in the presense of an antigen
by agctomer » Mon, 2021-02-01 03:19
4
441 by nannemdp
Wed, 2021-02-03 08:52
Normal topic antibody.linuxgccrelease- output models don't have the same sequence as the input fasta
by agctomer » Thu, 2021-01-21 15:35
4
518 by agctomer
Sun, 2021-01-31 01:06
Normal topic Modelling humanized camelid like antibody
by terabithia2011 » Tue, 2021-01-26 10:12
0
192 by terabithia2011
Tue, 2021-01-26 10:12
Normal topic Creating fragment files for proteins less than 27 aa in length
by Poladu » Tue, 2021-01-26 07:50
0
188 by Poladu
Tue, 2021-01-26 07:50
Normal topic Question with rosetta AbPredict tutorial
by terabithia2011 » Mon, 2021-01-25 09:24
0
168 by terabithia2011
Mon, 2021-01-25 09:24
Normal topic [Solved] Resetting a pose with RigidBodyTransMover
by bjharris » Wed, 2021-01-13 14:01
1
288 by bjharris
Fri, 2021-01-22 17:34
Normal topic manually defining CDRs in antibody modelling
by gard.nelson » Fri, 2020-07-10 13:31
1
449 by brspurri
Wed, 2021-01-20 08:11
Normal topic RosettaAntibody - No matching templates for CDR1
by agctomer » Tue, 2021-01-19 22:45
0
195 by agctomer
Tue, 2021-01-19 22:45
Normal topic [Solved] RosettaAntibody3 - Grafting step is failing to detect H3 from the input sequence
by brspurri » Mon, 2021-01-04 16:46
1
340 by brspurri
Mon, 2021-01-18 18:14
Normal topic A problem with "molfile_to_params.py"
by Rosettasz » Mon, 2013-08-19 19:35
10
7,549 by egecav
Mon, 2021-01-18 05:41
Normal topic relax.linuxgccrelease in multiple processors
by jpfuenzalidawx » Thu, 2021-01-14 14:07
5
639 by jadolfbr
Fri, 2021-01-15 08:06
Normal topic Writing down properties for new atom types
by Corvin » Tue, 2021-01-12 04:30
0
163 by Corvin
Wed, 2021-01-13 04:00
Normal topic constraints in Rosetta ligand docking (AddorRemoveMatchCsts, Addconstraints Mover, and ConstraintSetMover)
by rohi » Mon, 2021-01-11 13:32
0
244 by rohi
Mon, 2021-01-11 13:58
Normal topic Design of multimeric protein
by ldlamini » Mon, 2021-01-11 07:23
0
186 by ldlamini
Mon, 2021-01-11 07:23
Normal topic Protonating all possible sites: the problem in MOL2 file format or the innate Rosetta feature(bug)?
by Corvin » Wed, 2020-12-16 04:58
0
243 by Corvin
Wed, 2020-12-30 09:21
Normal topic RemodelMover and Input Pose
by ozyo » Tue, 2020-12-29 09:41
0
225 by ozyo
Tue, 2020-12-29 09:41
Normal topic protein-ligand docking rescoring with interfaceAnalyzer
by syntekabio2019 » Sat, 2020-12-19 03:59
2
395 by syntekabio2019
Sun, 2020-12-20 21:10
Normal topic flexpepdcok of lipid conjugated peptide with glyco protein.
by ravi.thakkkar369 » Fri, 2020-12-18 13:00
0
206 by ravi.thakkkar369
Fri, 2020-12-18 13:00
Normal topic where is generate_ligens.linuxgccrelease?
by Nicole Deng » Thu, 2020-12-03 00:00
2
468 by Nicole Deng
Fri, 2020-12-18 00:28
Normal topic pepspec anchor dock
by Astghik » Tue, 2020-10-20 05:31
6
983 by Pappmaschee
Thu, 2020-12-17 02:24
Normal topic Error when using Remodel on a protein with a chemically bound ligand
by Pappmaschee » Wed, 2020-12-16 09:23
0
252 by Pappmaschee
Wed, 2020-12-16 09:23
Normal topic RosettaScripts filter BuriedUnsatHbonds2 missing still
by zdaw » Fri, 2020-12-11 12:39
3
499 by zdaw
Tue, 2020-12-15 15:38
Normal topic RNA modeling with step wise Monte Carlo error
by szcshr123 » Mon, 2020-12-07 18:08
3
520 by everyday847
Wed, 2020-12-09 21:46
Normal topic Can I believe the antibody design result?
by Sunyp_IM » Mon, 2020-11-30 03:29
6
933 by jadolfbr
Sun, 2020-12-06 17:41
Normal topic Error: in membrane docking : Cannot split pose by membrane jump! Quitting...
by Astghik » Tue, 2020-11-24 05:27
2
459 by Astghik
Thu, 2020-12-03 02:35
Normal topic Undesirable behaviour of PoseFromSFRBuilder regarding Hydrogen atoms
by Corvin » Wed, 2020-12-02 04:00
1
322 by rmoretti
Wed, 2020-12-02 07:27
Normal topic polymer docking using rosetta scripts
by syntekabio2019 » Fri, 2020-11-27 01:51
1
304 by rmoretti
Fri, 2020-11-27 10:47
Normal topic Prevention of the negatively charged Nitrogen protonation by coupled_moves
by Corvin » Wed, 2020-11-18 02:56
4
681 by Corvin
Wed, 2020-11-25 02:58
Normal topic RosettaMP: issue with generating .lips4 file
by ksy141 » Mon, 2019-01-21 17:17
5
1,477 by noahC_noahDo
Fri, 2020-11-20 11:29
Normal topic How to use MHC Epitope energy (mhc_epitope) to deimmunize a protein structure?
by Sunyp_IM » Sun, 2020-11-08 08:07
5
894 by Brahm Yachnin
Wed, 2020-11-18 17:21
Normal topic debug rosetta_scripts FunFolDes run
by tatsiana.bylund » Sun, 2019-08-18 23:17
1
665 by neelamraju.srid...
Wed, 2020-11-18 05:47
Normal topic Membrane Abinitio modeling error
by jkyan007 » Thu, 2020-10-29 03:30
1
371 by noahC_noahDo
Tue, 2020-11-17 10:35
Normal topic Segmentation fault (core dumped) in rosetta_scripts.default.linuxgccrelease after blueprint file reading
by Corvin » Tue, 2020-06-30 00:36
12
2,805 by Corvin
Tue, 2020-11-10 01:22
Normal topic Using Rmsd RosettaScripts filter with alignment files
by bjharris » Sun, 2020-11-08 15:51
1
322 by rmoretti
Sun, 2020-11-08 18:56
Normal topic core.pose.util: [ ERROR ] Can't find residue type 'UNK' in type set of mode fa_standard
by AlfredoKCL » Sat, 2020-11-07 18:21
0
385 by AlfredoKCL
Sat, 2020-11-07 18:21
Normal topic How to add additional rounds of design and optimization in Rosetta scripts?
by Nicole Deng » Tue, 2020-11-03 19:05
2
477 by Nicole Deng
Thu, 2020-11-05 03:04
Normal topic Speed problem when running RosettaLigand ligand docking
by Nicole Deng » Tue, 2019-10-08 04:29
2
1,110 by Nicole Deng
Tue, 2020-11-03 19:07
Normal topic antibody.mpi.linuxgccrelease some antibodies failing to model
by drewaight » Mon, 2020-11-02 17:07
0
349 by drewaight
Mon, 2020-11-02 17:07
Normal topic ERROR: Unable to fill in missing atoms.
by mieczyslaw » Tue, 2020-10-20 09:43
5
1,242 by mieczyslaw
Thu, 2020-10-29 07:52
Normal topic not knowing which one of three ways to run rosettascript
by xinmiaohe » Tue, 2020-10-13 13:52
2
615 by xinmiaohe
Mon, 2020-10-19 13:18
Normal topic Scoring functions: talaris2013 incompatible versions
by Smbat » Tue, 2020-10-13 06:18
5
983 by Astghik
Thu, 2020-10-15 00:48
Normal topic neutral N-term and C-term
by nawsad » Sun, 2013-06-09 10:20
7
6,423 by helenah
Thu, 2020-10-08 05:29
Normal topic Modelling of multi-component symmetrical structures
by LanMei » Wed, 2020-10-07 09:58
0
346 by LanMei
Wed, 2020-10-07 09:58
Normal topic minimize_with_cst and convert_to_cst_file for ddG_monomer issues/confusion
by Kharlamov1317a » Mon, 2020-09-21 08:46
1
567 by Kharlamov1317a
Wed, 2020-10-07 08:26

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