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Rosetta 3 - Applications

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Normal topic FlexPepDocking
by jlawrie » Tue, 2020-09-15 12:52
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164 by jlawrie
Tue, 2020-09-15 12:52
Normal topic Secondary Matching build_sets Error
by enmirts » Wed, 2018-03-28 10:33
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489 by enmirts
Wed, 2018-03-28 10:34
Normal topic rosetta remodel and designing helix extension
by dhirajks » Thu, 2018-12-13 19:34
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497 by dhirajks
Thu, 2018-12-13 19:34
Normal topic constraints in Rosetta ligand docking (AddorRemoveMatchCsts, Addconstraints Mover, and ConstraintSetMover)
by rohi » Mon, 2021-01-11 13:32
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71 by rohi
Mon, 2021-01-11 13:58
Normal topic FloppyTail as a rosettascripts file
by tiagogomes89 » Mon, 2015-01-19 02:45
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886 by tiagogomes89
Mon, 2015-01-19 02:45
Normal topic Fewer than expected structures in clustering output
by fabiotrovato » Thu, 2020-08-20 00:59
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164 by fabiotrovato
Thu, 2020-08-20 00:59
Normal topic Ligand docking with constraint
by Alison_Yajie » Wed, 2020-06-24 12:34
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204 by Alison_Yajie
Wed, 2020-06-24 12:34
Normal topic The problems on pdb renumbering
by Sunyp_IM » Sun, 2017-08-20 06:39
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1,246 by Sunyp_IM
Sun, 2017-08-20 06:39
Normal topic application for affinity optimization
by wentlewi » Fri, 2020-03-13 03:24
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318 by wentlewi
Fri, 2020-03-13 03:24
Normal topic Rosetta Remodel - Error in core::conformation::Conformation::residue(): The sequence position requested was 0.
by daniloboskovic » Fri, 2019-11-08 08:24
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841 by daniloboskovic
Fri, 2019-11-08 08:27
Normal topic Does antibody_numbering_converter support camelid antibody?
by mxp » Tue, 2020-07-07 01:21
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167 by mxp
Tue, 2020-07-07 01:21
Normal topic How many iterations of remodel is enough?
by daniloboskovic » Thu, 2020-07-16 08:07
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193 by daniloboskovic
Thu, 2020-07-16 08:14
Normal topic extract docking pose from ligand docking silent file
by Ruska322 » Sat, 2019-09-07 05:21
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380 by Ruska322
Sat, 2019-09-07 05:21
Normal topic backrub application, resfile, and pivot_residues
by tylerborrman » Tue, 2016-12-06 14:46
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655 by tylerborrman
Tue, 2016-12-06 14:46
Normal topic Dock two domains using topology broker
by sn » Thu, 2017-10-05 17:07
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555 by sn
Thu, 2017-10-05 17:07
Normal topic "Residue 7 was disulfide bonded but had no partner" with antibody.linuxgccrelease
by Sunyp_IM » Thu, 2020-06-04 05:53
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201 by Sunyp_IM
Thu, 2020-06-04 05:54
Normal topic FlexPepDock Multi chain receptor
by evo_umich » Mon, 2018-04-02 12:13
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591 by evo_umich
Mon, 2018-04-02 12:13
Normal topic RNP structure prediction flags
by daniloboskovic » Fri, 2019-08-16 11:10
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377 by daniloboskovic
Fri, 2019-08-16 11:17
Normal topic Robetta ab initio - TrRosetta for membrane proteins
by benhardy » Wed, 2020-09-30 08:42
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258 by benhardy
Wed, 2020-09-30 08:42
Normal topic Pepspec options
by shaunmk » Mon, 2015-04-27 02:33
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1,078 by shaunmk
Mon, 2015-04-27 02:33
Normal topic RosettaAntibody3 - How can I model an extended H3?
by brspurri » Fri, 2020-08-28 09:11
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221 by brspurri
Fri, 2020-08-28 09:11
Normal topic Scoring after HBNet
by HHL_SIUC » Wed, 2020-07-01 10:49
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203 by HHL_SIUC
Wed, 2020-07-01 10:49
Normal topic fold and dock protocol not working
by ytao » Mon, 2012-11-26 15:33
1
1,691 by smlewis
Mon, 2014-04-21 06:47
Normal topic submit_NGK.py not creating output files
by nkato2 » Wed, 2013-08-28 23:37
1
1,760 by rmoretti
Mon, 2014-04-21 06:48
Normal topic why is talaris2014 scoring fuction not used with ligand docking?
by banshee » Fri, 2016-09-09 01:19
1
1,253 by rmoretti
Fri, 2016-09-09 07:47
Normal topic Fastrelax problem
by Pernille » Tue, 2014-06-17 08:59
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1,324 by Pernille
Fri, 2014-06-20 00:17
Normal topic Error in a new docking
by jrcf » Wed, 2017-05-17 19:26
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1,763 by everyday847
Wed, 2017-05-17 20:03
Normal topic 'standard.wts' does not exist
by almeida85 » Mon, 2020-09-14 02:26
1
219 by rmoretti
Mon, 2020-09-14 06:36
Normal topic protein-protein docking
by cbala » Mon, 2011-04-18 09:15
1
1,799 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta Holes
by zsun12 » Wed, 2015-09-30 11:40
1
2,445 by rmoretti
Mon, 2015-10-12 15:20
Normal topic Rosetta scripts crash in CM workflow
by jlburkhead » Tue, 2019-12-03 22:55
1
562 by danpf
Fri, 2020-02-21 18:37
Normal topic Problem with mpirun/mpiexec
by ahansel » Fri, 2020-07-10 08:37
1
388 by rmoretti
Fri, 2020-07-10 09:59
Normal topic Loop modeling/closure for many structures
by sn » Mon, 2017-03-06 11:25
1
887 by rmoretti
Mon, 2017-03-06 12:39
Normal topic input file for loop modeling
by Negarsardar » Tue, 2019-04-16 10:21
1
579 by rmoretti
Tue, 2019-04-16 11:07
Normal topic Place ligand in a pocket
by sn » Fri, 2017-09-15 12:53
1
932 by rmoretti
Fri, 2017-09-15 13:11
Normal topic How to analyse multiple silent files from "Abinitiorelax" output to find best models?
by Danielsebas » Tue, 2019-09-10 10:01
1
416 by smlewis
Mon, 2019-09-16 12:22
Normal topic creating a model using a base pdb and extending a chain
by rlwoltz » Fri, 2013-07-12 15:35
1
1,898 by nawsad
Mon, 2014-04-21 06:48
Normal topic rosetta 3.3 - antibody
by ron amon » Mon, 2014-07-21 00:44
1
1,559 by rmoretti
Mon, 2014-07-21 10:51
Normal topic References where Rosetta is used to compute ddG of binding after mutation?
by cossio » Tue, 2015-03-17 05:13
1
1,796 by rmoretti
Wed, 2015-03-25 11:33
Normal topic modeling missing linker in a protein
by Isaure de Beauchene » Fri, 2012-05-11 10:13
1
2,559 by smlewis
Mon, 2014-04-21 06:47
Normal topic Fixing part of a ligand in dock-design
by hssnzdh2 » Mon, 2015-11-23 17:14
1
1,321 by rmoretti
Tue, 2015-11-24 16:16
Normal topic loopmodel issue
by chiendarret » Fri, 2012-01-27 00:51
1
2,253 by smlewis
Mon, 2014-04-21 06:47
Normal topic Relax with RDC data gives segmentation fault
by sn » Mon, 2018-07-23 11:39
1
684 by rmoretti
Fri, 2018-08-03 07:54
Normal topic I need some help for using pHDock applications(histidine protonation / pH-dependent binding)
by leygkn » Tue, 2020-09-22 18:40
1
204 by leygkn
Tue, 2020-09-22 22:46
Normal topic Incorporating iron-sulfur cluster into ROSETTA applications
by Derek Smith » Thu, 2014-08-14 23:12
1
1,710 by rmoretti
Fri, 2014-08-15 08:06
Normal topic Packstat application output
by Vedasheersh » Mon, 2017-07-03 02:45
1
1,014 by rmoretti
Mon, 2017-07-03 09:17
Normal topic hbond_sr_bb and hbond_lr_bb for different chains
by tylerborrman » Tue, 2020-10-13 13:41
1
190 by rmoretti
Wed, 2020-10-14 08:25
Normal topic ambiguous constraints
by shrutikhare » Mon, 2014-05-12 04:42
1
2,272 by rmoretti
Mon, 2014-05-12 08:25
Normal topic How to build disulfide bond between two cysteine, i.e. change two "-SH" (sulfydryl) into "-S-S-"?
by lanselibai » Sat, 2015-01-17 11:19
1
2,093 by lanselibai
Wed, 2015-01-21 02:40
Normal topic Coding denovo prediction from density maps in PyRosetta
by ahmadkhalifa » Tue, 2018-04-10 11:43
1
704 by rmoretti
Tue, 2018-04-10 15:29
Normal topic ProteinInterfaceDesign algorithm questions
by tsztain » Mon, 2019-02-18 14:10
1
713 by rmoretti
Sun, 2019-08-25 19:15
Normal topic denovo modelling on a virus-coat protein dimer
by aseem121 » Wed, 2019-10-16 06:55
1
477 by danpf
Wed, 2019-10-16 13:03
Normal topic Fragment Files
by nkemjika » Fri, 2011-07-22 15:11
1
2,137 by dgront
Mon, 2014-04-21 06:47
Normal topic Add missing residues in loop modeling
by exchhattu » Thu, 2013-06-20 17:38
1
2,647 by smlewis
Mon, 2014-04-21 06:48
Normal topic Output structures from docking_prepack_protocol: initial__*.pdb vs prepack__*.pdb, which one should I send to docking_protocol?
by cossio » Thu, 2015-02-05 07:10
1
1,476 by rmoretti
Mon, 2015-02-09 12:33
Normal topic Enzyme Design FlexBB Protocol Bug: DNA/RNA handling
by kettner » Fri, 2019-06-14 14:16
1
924 by rmoretti
Mon, 2019-06-24 13:46
Normal topic Snugdock_error
by luicui » Thu, 2017-02-09 21:06
1
889 by smlewis
Thu, 2017-02-09 21:50
Normal topic Interface Analyzer Segmentation Fault
by h_trasatti » Tue, 2017-02-21 12:48
1
1,300 by smlewis
Tue, 2017-02-21 14:10
Normal topic Warning: Fold tree is not set properly for density scoring
by ahansel » Mon, 2020-07-13 10:50
1
286 by danpf
Tue, 2020-07-14 10:27
Normal topic Using different number of 9-mers (UPDATED)
by JadAbbass » Mon, 2017-08-28 07:20
1
993 by rmoretti
Mon, 2017-09-04 10:33
Normal topic docking with capping groups
by xavierfradera » Sun, 2018-11-04 16:17
1
597 by maral.adeli-kou...
Wed, 2020-01-22 12:41
Normal topic Undesirable behaviour of PoseFromSFRBuilder regarding Hydrogen atoms
by Corvin » Wed, 2020-12-02 04:00
1
112 by rmoretti
Wed, 2020-12-02 07:27
Normal topic Question on restraining receptor symmetry when docking ligand
by subha » Fri, 2018-07-06 21:59
1
636 by rmoretti
Fri, 2018-08-03 08:16
Normal topic RosettaMatch
by xingqing326 » Mon, 2019-07-22 13:14
1
635 by rmoretti
Mon, 2019-08-26 12:57
Normal topic ERROR: unrecognized residue name 'GLY_p:RepulsiveOnly'
by smiruthi » Mon, 2011-12-12 14:27
1
1,994 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Design with limited number of aminoacids at given position
by sdh_h » Sun, 2016-12-04 03:44
1
1,048 by smlewis
Thu, 2016-12-08 15:50
Normal topic dssp
by MA » Thu, 2017-10-05 09:34
1
891 by rmoretti
Tue, 2017-10-10 09:54
Normal topic Flexible docking using rosetta density-fitting for DNA
by helm » Thu, 2012-06-14 23:43
1
1,921 by smlewis
Mon, 2014-04-21 06:47
Normal topic No interface for protein - Interface Analyzer
by aloshbau » Tue, 2013-05-21 21:00
1
2,067 by jarod
Mon, 2014-04-21 06:47
Normal topic splitfile.py
by saladi » Fri, 2018-03-30 10:31
1
814 by rmoretti
Tue, 2018-04-10 15:34
Normal topic How can I model ligands in comparative modeling
by Morrian_Lynn » Thu, 2020-02-20 09:57
1
379 by danpf
Fri, 2020-02-21 17:05
Normal topic problem with modelling of protein (140 and 150 residues respectively)
by krlitros87 » Wed, 2014-10-22 09:39
1
1,342 by rmoretti
Thu, 2014-10-23 13:55
Normal topic Homology modelling applies alignment wrong
by bernhardcl » Thu, 2015-08-06 09:39
1
1,286 by bernhardcl
Tue, 2015-08-11 09:11
Normal topic comparative modeling of a homodimer
by banshee » Mon, 2017-01-09 18:34
1
1,314 by rmoretti
Wed, 2017-01-11 13:00
Normal topic Missing atoms and cannot find atom pose when refining ligand position with EM density
by BuddySphinx » Mon, 2018-12-31 16:22
1
1,086 by rmoretti
Fri, 2019-03-29 13:06
Normal topic [Solved] Resetting a pose with RigidBodyTransMover
by bjharris » Wed, 2021-01-13 14:01
1
57 by bjharris
Fri, 2021-01-22 17:34
Normal topic Enzyme design output silent file and score file
by deltag » Fri, 2012-09-28 13:07
1
1,623 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Ligand creation
by Prasanth Kumar » Fri, 2013-08-02 09:48
1
1,725 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Ligand docking: ERROR: set_atom_base: atoms must be bonded!
by mengzhang » Mon, 2014-05-12 12:36
1
1,777 by rmoretti
Mon, 2014-05-12 15:08
Normal topic radius of gyration as constrain
by dhirajks » Sat, 2018-05-05 23:00
1
818 by smlewis
Mon, 2018-05-07 11:42
Normal topic Strong bias in sampling observed in RosettaDock
by chenna » Thu, 2020-08-27 22:23
1
270 by ssrb
Sun, 2020-09-20 15:50
Normal topic Antibody Modelling
by luicui » Mon, 2017-01-23 21:30
1
1,230 by smlewis
Mon, 2017-02-06 20:46
Normal topic blast database error
by jessye » Sun, 2017-12-03 23:59
1
890 by smlewis
Mon, 2017-12-04 12:18
Normal topic Comparative modeling
by MRH » Mon, 2013-08-19 23:08
1
1,731 by smlewis
Mon, 2014-04-21 06:48
Normal topic SymDock with constraints
by felipet » Thu, 2015-05-14 09:01
1
2,106 by rmoretti
Mon, 2015-05-25 11:49
Normal topic Predicting the part of protein strcutrue
by ksy141 » Tue, 2018-10-16 11:47
1
596 by jadolfbr
Fri, 2018-11-09 14:28
Normal topic /database folder after running "install_dependencies.pl" size 657 GB?
by Danielsebas » Tue, 2019-09-03 03:32
1
408 by danpf
Tue, 2019-09-03 10:15
Normal topic Changing rosetta scoring to favour less hydrophobic areas
by daniloboskovic » Thu, 2020-05-21 03:03
1
304 by vmulligan
Thu, 2020-05-21 18:33
Normal topic trouble in floppytail modelling
by ytao » Thu, 2013-06-27 13:15
1
1,683 by ytao
Mon, 2014-04-21 06:48
Normal topic Executing the clean_pdb.py script
by Rkfoury » Fri, 2015-02-20 10:16
1
2,516 by lanselibai
Tue, 2015-02-24 02:36
Normal topic Enzyme Design - Score File
by nwhoppe » Thu, 2016-04-07 15:11
1
1,251 by rmoretti
Fri, 2016-04-08 07:39
Normal topic Rosetta_cm Partial Threading Removing Parts of Sequence
by gszwabowski » Thu, 2019-06-20 12:30
1
569 by rmoretti
Mon, 2019-06-24 13:43
Normal topic Number of max allowed mutations from WT sequence
by mouung » Fri, 2020-09-04 02:33
1
302 by rmoretti
Sun, 2020-09-06 10:10
Normal topic problem when exact pdb from silent file
by wenchangyu2008 » Mon, 2011-04-18 00:42
1
2,285 by wenchangyu2008
Mon, 2014-04-21 06:47
Normal topic Comparative modeling using a two chained template for a one chain structure
by ahmadkhalifa » Mon, 2017-12-18 11:00
1
754 by rmoretti
Mon, 2018-01-15 16:14
Normal topic De novo water predictions using SPaDES
by MNP1986 » Mon, 2019-03-25 07:53
1
618 by matteoferla
Tue, 2020-08-04 09:30
Normal topic score and relax
by Prasanth Kumar » Thu, 2013-05-02 05:09
1
2,439 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic JD2 MPI
by jrcf » Wed, 2015-10-28 14:45
1
1,384 by rmoretti
Sat, 2015-10-31 08:57
Normal topic RosettaLigand Docking
by Dinesh Kumar » Mon, 2018-01-15 20:54
1
1,093 by rmoretti
Tue, 2018-01-16 07:24
Normal topic is it necessary to always run relax before any Rosetta
by mainzer » Fri, 2019-04-12 01:35
1
719 by rmoretti
Wed, 2019-07-10 09:47
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