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Rosetta 3 - Applications

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Normal topic latest version of rosetta unable to build models
by pramod » Mon, 2014-11-03 11:31
1
2,945 by rmoretti
Tue, 2014-11-04 10:33
Normal topic RosettaRemodel: ERROR: 'Replacing' an atom which doesn't currently exist.
by kamau » Fri, 2017-12-01 08:42
1
1,783 by kamau
Wed, 2017-12-13 14:31
Normal topic ERROR: ResidueType::add_ring: Requested atoms don't exist in this ResidueType!
by walidabualafia » Thu, 2023-07-20 09:44
1
493 by rmoretti
Thu, 2023-07-20 10:08
Normal topic relax VS. backrub
by jiongzhang » Mon, 2012-07-02 14:52
1
2,664 by smlewis
Mon, 2014-04-21 06:47
Normal topic Loopmodel with DNA has no energy score
by Nicky_Learning_... » Sun, 2015-05-10 19:31
1
2,359 by rmoretti
Mon, 2015-05-25 12:30
Normal topic Surface accessible residue as a constraint.
by arthuc01 » Fri, 2012-03-09 23:27
1
2,361 by smlewis
Mon, 2014-04-21 06:47
Normal topic modeling 4 linkers between 2 domains
by pdbb » Thu, 2013-05-16 08:23
1
2,519 by smlewis
Mon, 2014-04-21 06:47
Normal topic VH-VL Orientation in antibody
by sujigeorge1979 » Mon, 2019-06-17 01:23
1
1,833 by jeliazkov
Mon, 2019-06-17 06:03
Normal topic hybrid approach - comparative and ab initio modelling
by eprates » Wed, 2019-03-20 11:58
1
1,560 by rmoretti
Fri, 2019-03-29 09:45
Normal topic Rosetta Remodel - Error in core::conformation::Conformation::residue(): The sequence position requested was 0.
by daniloboskovic » Fri, 2019-11-08 08:24
1
3,381 by Payne
Tue, 2022-06-21 07:25
Normal topic Instructing design scripts to use noncanonical AA instead of canonical
by zcrook » Tue, 2014-11-25 10:43
1
2,197 by rmoretti
Wed, 2014-11-26 07:51
Normal topic Modeling the structure of camel single domain antibody
by Sunyp_IM » Mon, 2018-01-08 00:34
1
2,354 by Sunyp_IM
Mon, 2018-01-08 00:55
Normal topic Usage of the TaskOperations "RestrictToCDRsAndNeighbors"
by johnnytam100 » Wed, 2019-04-10 02:58
1
1,682 by rmoretti
Wed, 2019-07-10 10:10
Normal topic Remodel: the pose does not have residue with chain=H, PDBnum=114
by lanselibai » Wed, 2019-12-25 13:35
1
2,302 by lanselibai
Fri, 2019-12-27 09:38
Normal topic Should I be stripping water molecules from my input structure for Rosetta Design?
by chrisHKL » Wed, 2021-03-24 14:22
1
1,200 by smlewis
Wed, 2021-03-24 14:59
Normal topic Disulfidize- "Extra content at the end of the document"
by ldlamini » Tue, 2022-05-17 02:37
1
1,180 by rmoretti
Tue, 2022-05-17 07:29
Normal topic FlexPepDock in RosettaScripts keeps running
by gw » Tue, 2012-08-21 12:31
1
2,690 by smlewis
Mon, 2014-04-21 06:47
Normal topic Loop modeling: KIC with fragments producing unusual models
by kamau » Mon, 2015-06-01 12:06
1
2,318 by rmoretti
Sat, 2015-06-20 20:07
Normal topic RosettaMatch outputs
by mwfranklin » Tue, 2016-10-11 11:46
1
2,325 by rmoretti
Fri, 2016-10-14 08:56
Normal topic Problem passing a list of PDB files to minimize_with_cst
by dolevrahat » Sun, 2018-11-18 16:13
1
1,939 by rmoretti
Wed, 2018-11-21 15:31
Normal topic FloppyTail vs. Remodel for linkers
by attesor » Mon, 2014-07-07 08:36
1
2,372 by smlewis
Mon, 2014-07-07 11:58
Normal topic Error in Loop modeling and other queries
by ashu4487 » Wed, 2016-05-11 18:23
1
2,305 by rmoretti
Fri, 2016-06-17 10:15
Normal topic "Angle constraint: 0-length bonds" error
by purvi24 » Sun, 2019-07-28 10:09
1
1,694 by rmoretti
Mon, 2019-08-26 12:49
Normal topic score application
by Hongtham » Tue, 2014-12-23 06:38
1
2,096 by rmoretti
Fri, 2015-01-02 11:06
Normal topic Membrane Abinitio modeling
by bharat_46010 » Mon, 2017-03-13 22:39
1
1,806 by benhardy
Wed, 2020-09-30 04:24
Normal topic missing atom number 5 atom name CB
by ajaniharesh » Fri, 2019-04-26 12:08
1
1,945 by rmoretti
Fri, 2019-04-26 12:13
Normal topic fixing sequence during grafting in antibody_designer
by COM » Fri, 2020-01-24 11:38
1
1,463 by jadolfbr
Tue, 2020-01-28 09:13
Normal topic the results obtained after docking using RosettaDock and ZDOCK
by aha » Thu, 2024-01-04 21:13
1
377 by rmoretti
Thu, 2024-01-11 14:39
Normal topic Flexible peptide docking with flexible receptor backbone
by tevang » Fri, 2012-09-14 11:18
1
2,809 by smlewis
Mon, 2014-04-21 06:47
Normal topic molfile_to_params script error
by pablogalazdavison » Tue, 2015-07-07 21:22
1
2,561 by rmoretti
Tue, 2015-07-14 14:59
Normal topic Threading with Ligand
by ekwan » Thu, 2018-12-06 15:10
1
1,645 by rmoretti
Fri, 2019-03-29 13:21
Normal topic Error with RosettaAntibodyDesign when running antibody_designer.linuxgccrelease
by bdzhh » Tue, 2019-09-17 17:02
1
1,535 by jadolfbr
Thu, 2019-09-19 08:53
Normal topic interface_delta ligand_docking
by Prasanth Kumar » Tue, 2013-06-18 08:37
1
2,731 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Ligand docking at specific orientation
by ShiranBZ » Mon, 2020-04-13 20:46
1
1,283 by matteoferla
Mon, 2020-05-04 02:02
Normal topic Old Knotfind algorithm
by Martin Floor » Thu, 2022-09-22 07:28
1
1,212 by rmoretti
Fri, 2022-09-23 09:38
Normal topic Docking on mpi.
by Pernille » Mon, 2014-07-28 08:40
1
3,048 by rmoretti
Mon, 2014-08-04 14:51
Normal topic membrane modeling error
by benniu2004 » Mon, 2013-07-01 17:59
1
2,566 by smlewis
Mon, 2014-04-21 06:48
Normal topic Ligand Docking with ARLS
by cam11 » Thu, 2016-06-23 09:34
1
2,229 by rmoretti
Thu, 2016-06-23 10:55
Normal topic Error Interface analyser
by jrcf » Thu, 2017-06-22 12:55
1
1,937 by smlewis
Thu, 2017-06-22 13:31
Normal topic Relaxing protein-RNA complexes
by rkirchdo » Fri, 2018-08-03 08:50
1
1,700 by rmoretti
Fri, 2018-08-24 11:28
Normal topic contents of span file
by tevang » Mon, 2013-04-15 05:01
1
2,593 by smlewis
Mon, 2014-04-21 06:47
Normal topic ROSETTALIGAND: How to prepare data to plot ROC curves using rosettaligand docking result???
by Ryhon Wang » Mon, 2016-01-04 22:36
1
3,189 by rmoretti
Tue, 2016-01-05 08:35
Normal topic Mutating phosphorylated residues to "canonical" residues and vice versa
by ValentinaSora » Mon, 2019-05-20 05:58
1
2,293 by rmoretti
Wed, 2019-07-10 09:22
Normal topic remodel ERROR: unrecognized mm_atom_type_name RGU
by daniloboskovic » Sat, 2020-02-22 11:55
1
1,546 by daniloboskovic
Tue, 2020-02-25 08:28
Normal topic Symmetric docking with multiple chains as asymmetric unit
by sarah29 » Tue, 2013-11-05 20:24
1
3,282 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Constraint generator
by Alison_Yajie » Wed, 2020-06-17 20:14
1
1,235 by Alison_Yajie
Wed, 2020-06-17 20:35
Normal topic Unsatisfied interface H-bond in Ligand docking
by Prasanth Kumar » Thu, 2013-07-18 12:04
1
4,254 by rmoretti
Mon, 2014-04-21 06:48
Normal topic error--rosetta fragment‐based refinement protocol for refinement against EM density
by gsuchunli » Mon, 2016-07-25 13:35
1
2,452 by gsuchunli
Mon, 2016-07-25 13:56
Normal topic MPdocking I_sc
by jrcf » Mon, 2017-07-31 16:10
1
2,046 by rmoretti
Thu, 2017-08-03 09:29
Normal topic Membrane Abinitio modeling error
by jkyan007 » Thu, 2020-10-29 03:30
1
1,232 by noahC_noahDo
Tue, 2020-11-17 10:35
Normal topic Relax with a ligand is messing up the coordinates of the ligand
by brspurri » Sat, 2015-01-24 12:39
1
2,982 by rmoretti
Mon, 2015-01-26 12:15
Normal topic Difference between movemap and -pivot_residues
by aloshbau » Wed, 2016-02-24 13:21
1
2,239 by rmoretti
Wed, 2016-02-24 14:39
Normal topic weights for pH_protocol
by fmerino » Wed, 2017-04-26 07:14
1
2,205 by rmoretti
Thu, 2017-04-27 07:10
Normal topic broker domain insertion
by dhirajks » Sun, 2018-05-06 12:55
1
1,669 by rmoretti
Fri, 2018-05-18 12:28
Normal topic The relax qustion of Rosetta VIP
by asbelx » Mon, 2019-06-10 07:52
1
1,517 by rmoretti
Mon, 2019-06-24 14:42
Normal topic Help with enzyme design files
by Wenithor » Thu, 2021-04-29 10:33
1
1,087 by rmoretti
Thu, 2021-04-29 10:44
Normal topic problem when exact pdb from silent file
by wenchangyu2008 » Mon, 2011-04-18 00:42
1
3,255 by wenchangyu2008
Mon, 2014-04-21 06:47
Normal topic Antibody Docking application
by Maryam_tabasinezhad » Sat, 2015-09-05 09:58
1
2,444 by jadolfbr
Wed, 2015-09-09 12:35
Normal topic Modelling at defined pH - for pmutscan - pH:mode not working
by cagfa1 » Tue, 2022-03-15 04:05
1
1,529 by Rituparna_Saman...
Wed, 2022-03-23 11:21
Normal topic Rosetta Holes
by zsun12 » Wed, 2015-09-30 11:40
1
4,212 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
1,695 by danpf
Fri, 2020-02-21 18:37
Normal topic Problem with mpirun/mpiexec
by ahansel » Fri, 2020-07-10 08:37
1
3,828 by rmoretti
Fri, 2020-07-10 09:59
Normal topic Comparative Modeling Tutorial
by code_Monkey » Thu, 2021-03-04 12:35
1
1,106 by rmoretti
Fri, 2021-03-05 09:35
Normal topic Pepspec error
by almeida85 » Mon, 2022-05-02 04:07
1
1,324 by almeida85
Mon, 2022-05-02 05:05
Normal topic submit_NGK.py not creating output files
by nkato2 » Wed, 2013-08-28 23:37
1
2,570 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
2,209 by rmoretti
Fri, 2016-09-09 07:47
Normal topic Fastrelax problem
by Pernille » Tue, 2014-06-17 08:59
1
2,164 by Pernille
Fri, 2014-06-20 00:17
Normal topic 'standard.wts' does not exist
by almeida85 » Mon, 2020-09-14 02:26
1
1,381 by rmoretti
Mon, 2020-09-14 06:36
Normal topic Loop modeling/closure for many structures
by sn » Mon, 2017-03-06 11:25
1
1,775 by rmoretti
Mon, 2017-03-06 12:39
Normal topic input file for loop modeling
by Negarsardar » Tue, 2019-04-16 10:21
1
1,550 by rmoretti
Tue, 2019-04-16 11:07
Normal topic analyze_flex_ddG.py
by valebut » Tue, 2023-11-28 04:30
1
463 by Aleksandra Panfilova
Tue, 2023-11-28 05:34
Normal topic Place ligand in a pocket
by sn » Fri, 2017-09-15 12:53
1
2,077 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
1,524 by smlewis
Mon, 2019-09-16 12:22
Normal topic Standalone alanine scanning protocol
by exchhattu » Thu, 2011-10-13 19:40
1
5,513 by smlewis
Mon, 2014-04-21 06:47
Normal topic Segmentation fault (core dumped) in rosettaDNA.static.linuxgccrelease
by intomybioverse » Sun, 2024-04-28 04:51
1
265 by rmoretti
Mon, 2024-04-29 10:04
Normal topic rosetta 3.3 - antibody
by ron amon » Mon, 2014-07-21 00:44
1
2,543 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
3,004 by rmoretti
Wed, 2015-03-25 11:33
Normal topic Incorporating iron-sulfur cluster into ROSETTA applications
by Derek Smith » Thu, 2014-08-14 23:12
1
2,779 by rmoretti
Fri, 2014-08-15 08:06
Normal topic Fixing part of a ligand in dock-design
by hssnzdh2 » Mon, 2015-11-23 17:14
1
2,369 by rmoretti
Tue, 2015-11-24 16:16
Normal topic SnugDock Partners parameter
by tyang39 » Fri, 2022-07-08 10:02
1
1,093 by rmoretti
Fri, 2022-07-08 10:27
Normal topic Relax with RDC data gives segmentation fault
by sn » Mon, 2018-07-23 11:39
1
1,673 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
1,359 by leygkn
Tue, 2020-09-22 22:46
Normal topic Packstat application output
by Vedasheersh » Mon, 2017-07-03 02:45
1
2,174 by rmoretti
Mon, 2017-07-03 09:17
Normal topic antibody - sequence position requested was 0
by jremmel » Mon, 2021-09-27 12:26
1
1,358 by nannemdp
Mon, 2021-09-27 14:22
Normal topic unable to generate the span file with "mp_span_from_pdb.default.linuxgccrelease" from a PDB file
by Sajjad » Wed, 2022-11-30 11:40
1
4,267 by FJOM
Wed, 2023-05-03 07:21
Normal topic ambiguous constraints
by shrutikhare » Mon, 2014-05-12 04:42
1
3,474 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
3,219 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
1,676 by rmoretti
Tue, 2018-04-10 15:29
Normal topic placing a constraint during structure prediction
by cbala » Thu, 2011-04-07 08:54
1
3,273 by ic3reyes
Mon, 2014-04-21 06:47
Normal topic ProteinInterfaceDesign algorithm questions
by tsztain » Mon, 2019-02-18 14:10
1
1,888 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
1,517 by danpf
Wed, 2019-10-16 13:03
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
2,387 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
2,000 by rmoretti
Mon, 2019-06-24 13:46
Normal topic residue_energy_breakdown of a protein-ligand complex.
by sam_dc » Tue, 2021-05-18 04:45
1
1,371 by rmoretti
Tue, 2021-05-18 07:21
Normal topic Destination of score.fsc file
by anirbanzz » Wed, 2011-04-20 23:30
1
2,911 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to calculate dG?
by yperez » Mon, 2012-10-22 07:28
1
3,186 by smlewis
Mon, 2014-04-21 06:47
Normal topic Snugdock_error
by luicui » Thu, 2017-02-09 21:06
1
1,818 by smlewis
Thu, 2017-02-09 21:50
Normal topic FixedBB design output no beta strands
by tkoh » Fri, 2023-08-25 01:02
1
491 by rmoretti
Tue, 2023-08-29 20:13
Normal topic Interface Analyzer Segmentation Fault
by h_trasatti » Tue, 2017-02-21 12:48
1
2,363 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
1,412 by danpf
Tue, 2020-07-14 10:27
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