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Rosetta 3 - Applications

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:18
0
7,798 by admin
Fri, 2015-09-04 16:17
Normal topic charge grid in rosetta ligand docking using rosetta script
by syntekabio2019 » Mon, 2022-01-17 23:53
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8 by syntekabio2019
Mon, 2022-01-17 23:53
Normal topic I need help with cst file the paper: De Novo Computational Design of Retro-Aldol Enzymes
by Wenithor » Thu, 2022-01-06 12:20
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59 by Wenithor
Thu, 2022-01-06 12:20
Normal topic Protein design: Ligand binding between two units of a homodimer
by chemotaxis_123 » Sun, 2022-01-02 16:01
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43 by chemotaxis_123
Sun, 2022-01-02 16:01
Normal topic [LoopModelerMover] ERROR: Can't build a fold tree from a loop with an unspecified cut point.
by dgm3 » Sun, 2021-12-26 18:32
1
82 by dgm3
Fri, 2021-12-31 17:42
Normal topic ERROR: APBS failed to generate the result file.
by bhavranek » Sat, 2021-12-18 11:01
1
78 by bhavranek
Sun, 2021-12-26 21:05
Normal topic Question about running scallo
by danbo » Mon, 2021-11-29 23:25
8
309 by danbo
Wed, 2021-12-22 23:51
Normal topic getting a3m files
by alonwenger » Wed, 2021-12-15 02:38
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123 by alonwenger
Sat, 2021-12-18 12:32
Normal topic simple_cycpep_predict with N-term acetylation
by Ken » Fri, 2021-12-17 09:49
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67 by Ken
Fri, 2021-12-17 09:49
Normal topic Segfault error while running MR Rosetta in Phenix
by memilton » Thu, 2021-12-16 09:09
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79 by memilton
Thu, 2021-12-16 09:09
Normal topic Remodel's problem in treatment with non-protein residues
by Corvin » Mon, 2021-12-13 09:07
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68 by Corvin
Mon, 2021-12-13 09:07
Normal topic Relaxed proteins show higher clash score in molprobity results.
by Wang Zhe » Fri, 2021-12-03 04:32
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235 by smlewis
Wed, 2021-12-08 13:02
Normal topic How to apply cartesian_ddg to multi-metric enzyme?
by Wang Zhe » Wed, 2021-12-08 10:07
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86 by Wang Zhe
Wed, 2021-12-08 10:07
Normal topic SecundaryStructure Filter
by Soler » Sun, 2021-11-21 22:20
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151 by Soler
Sun, 2021-11-21 22:20
Normal topic ERROR: Unable to fill in missing atoms.
by mieczyslaw » Tue, 2020-10-20 09:43
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2,259 by rayyoung
Thu, 2021-11-18 10:13
Normal topic constraining different chains together in rosetta_cm
by y_atsmonraz » Thu, 2021-11-18 02:59
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163 by y_atsmonraz
Thu, 2021-11-18 03:01
Normal topic Problems with waters in CoupledMoves application
by Corvin » Tue, 2021-11-16 07:16
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165 by Corvin
Tue, 2021-11-16 07:22
Normal topic The energy terms in InterfaceAnalyzer
by Sunyp_IM » Tue, 2021-11-02 18:43
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174 by zivben
Sat, 2021-11-13 04:49
Normal topic C-termini remodelling of dimeric structure removes second chain
by LeonhardJS » Wed, 2021-10-13 06:23
1
177 by LeonhardJS
Fri, 2021-11-12 01:20
Normal topic connecting rna strands together
by y_atsmonraz » Tue, 2021-11-09 05:42
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125 by y_atsmonraz
Thu, 2021-11-11 04:51
Normal topic building a protein-dna homology model via cm_rosetta
by y_atsmonraz » Wed, 2021-10-20 23:11
4
249 by y_atsmonraz
Tue, 2021-11-02 01:47
Normal topic Strong bias in sampling observed in RosettaDock
by chenna » Thu, 2020-08-27 22:23
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702 by chenna
Tue, 2021-10-12 20:51
Normal topic Rosetta DARc suboptimal dockings
by ddhoyo » Mon, 2021-10-11 06:18
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125 by ddhoyo
Mon, 2021-10-11 06:18
Normal topic Linker Building in scFv
by sam_dc » Sat, 2021-10-09 05:38
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135 by sam_dc
Sat, 2021-10-09 05:38
Normal topic RoseTTaFold
by ozsolomon » Thu, 2021-10-07 05:27
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372 by ozsolomon
Thu, 2021-10-07 14:25
Normal topic trRosetta - Nan occuring in Hbond calculation
by y_atsmonraz » Mon, 2021-10-04 09:16
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119 by y_atsmonraz
Mon, 2021-10-04 09:16
Normal topic Symmetry definition file versions
by Jeff Qu » Tue, 2021-09-28 09:53
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141 by Jeff Qu
Tue, 2021-09-28 09:53
Normal topic antibody - sequence position requested was 0
by jremmel » Mon, 2021-09-27 12:26
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178 by nannemdp
Mon, 2021-09-27 14:22
Normal topic Error reading in/out glycosylated silent file - "Can't create a polymer bond after residue due to incompatible type"
by amorin » Mon, 2021-09-27 12:16
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167 by amorin
Mon, 2021-09-27 12:16
Normal topic Python2 script in Rosetta3.13
by ddhoyo » Wed, 2021-09-15 04:05
1
272 by matteoferla
Wed, 2021-09-15 06:04
Normal topic Missing atoms and cannot find atom pose when refining ligand position with EM density
by BuddySphinx » Mon, 2018-12-31 16:22
2
1,891 by e3lm
Tue, 2021-09-14 10:02
Normal topic Rosetta Ligand Ensemble
by malfonsoprieto » Wed, 2021-05-26 10:21
3
601 by vizcarra
Thu, 2021-08-26 10:16
Normal topic duplex RNA
by amir_tagh » Thu, 2021-08-05 06:34
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278 by everyday847
Mon, 2021-08-16 10:43
Normal topic Topobuilder segmentation fault
by tatsiana.bylund » Mon, 2021-08-09 07:10
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296 by tatsiana.bylund
Mon, 2021-08-09 07:10
Normal topic clashes created with enzdes
by listofdina » Mon, 2021-08-02 06:51
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214 by listofdina
Mon, 2021-08-02 06:51
Normal topic Stepwise Monte Carlo - errors with ResidueTypeSet and Disulfides
by user42 » Wed, 2021-07-21 20:34
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272 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
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202 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
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169 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
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3,625 by matteoferla
Mon, 2021-07-19 06:13
Normal topic rosetta_cm segfault
by browns02 » Fri, 2021-07-09 13:35
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335 by rmoretti
Fri, 2021-07-09 15:05
Normal topic D-amino acids tripeptide docking.
by sam_dc » Sat, 2021-07-03 08:48
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361 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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167 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
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1,351 by happycaapi
Tue, 2021-06-29 15:35
Normal topic setup_RosettaCM.py
by browns02 » Mon, 2021-06-28 07:13
2
302 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
257 by vmulligan
Thu, 2021-06-24 13:23
Normal topic NCAA attached at two points
by tsztain » Wed, 2021-06-16 15:20
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438 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
355 by CameronJA
Tue, 2021-06-15 20:02
Normal topic Fastsaxs
by Pernille » Mon, 2013-07-22 07:29
14
33,426 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
275 by taylorjones
Wed, 2021-06-09 16:38
Normal topic FastRelax Refinement severe clashes
by Victor Tobiasson » Thu, 2021-05-20 06:55
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243 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
344 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
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239 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
449 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
768 by nc-ring
Tue, 2021-05-04 12:26
Normal topic Thread target sequence
by duz » Thu, 2021-04-01 10:09
4
685 by duz
Mon, 2021-05-03 07:50
Normal topic Score Functions for Ligand-protein Docking
by ziruiw » Sun, 2021-04-25 13:41
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802 by ziruiw
Fri, 2021-04-30 12:01
Normal topic Help with enzyme design files
by Wenithor » Thu, 2021-04-29 10:33
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328 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
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276 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
686 by DGR95
Wed, 2021-04-28 16:13
Normal topic RosettaCM/hybridize
by kywei » Wed, 2021-04-28 09:56
1
326 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
420 by chenna
Wed, 2021-04-28 07:18
Normal topic Filling the missing loops
by code_Monkey » Tue, 2021-04-27 07:44
2
392 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
449 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
442 by rmoretti
Tue, 2021-04-20 13:27
Normal topic multi ligand docking using rosetta script
by syntekabio2019 » Tue, 2021-04-13 19:31
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271 by syntekabio2019
Tue, 2021-04-13 19:31
Normal topic r_frag_quality
by ii_cnr » Mon, 2021-04-12 03:06
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422 by ii_cnr
Mon, 2021-04-12 23:44
Normal topic GeneralizedKIC loop closure error
by chenna » Sat, 2021-04-10 00:21
2
456 by chenna
Mon, 2021-04-12 22:08
Normal topic What is an SS0 predictor?
by ojmel » Fri, 2021-04-02 14:25
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248 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
525 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
962 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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253 by georg
Thu, 2021-04-08 09:31
Normal topic Loop modeling with constraints
by agctomer » Sat, 2021-03-20 03:53
3
720 by agctomer
Thu, 2021-04-08 07:37
Normal topic PDB Clustering
by code_Monkey » Mon, 2021-04-05 10:40
0
280 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
377 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
981 by yels
Wed, 2021-03-31 18:31
Normal topic Protein Ensemble RosettaLigand Docking
by sam_dc » Fri, 2021-03-26 10:18
2
517 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
382 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
1,017 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
283 by jseco
Mon, 2021-03-08 03:40
Normal topic Comparative Modeling Tutorial
by code_Monkey » Thu, 2021-03-04 12:35
1
397 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
491 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
662 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
1,247 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
494 by AlfredoKCL
Mon, 2021-03-01 04:07
Hot topic CoupledMoves not altering backbone coordinates?
by amorin » Wed, 2021-01-20 11:38
15
2,448 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
822 by amorin
Fri, 2021-02-12 08:53
Normal topic Segfault with Pepspec
by almeida85 » Thu, 2021-02-11 02:56
0
271 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
362 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
718 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
785 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
860 by agctomer
Sun, 2021-01-31 01:06
Normal topic Modelling humanized camelid like antibody
by terabithia2011 » Tue, 2021-01-26 10:12
0
319 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
309 by Poladu
Tue, 2021-01-26 07:50
Normal topic Question with rosetta AbPredict tutorial
by terabithia2011 » Mon, 2021-01-25 09:24
0
292 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
439 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
607 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
335 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
536 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
8,281 by egecav
Mon, 2021-01-18 05:41
Normal topic relax.linuxgccrelease in multiple processors
by jpfuenzalidawx » Thu, 2021-01-14 14:07
5
1,019 by jadolfbr
Fri, 2021-01-15 08:06

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