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Rosetta 3 - Applications

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:18
0
8,130 by admin
Fri, 2015-09-04 16:17
Normal topic Symmetry definition question
by mrconde96 » Sun, 2022-10-02 05:34
0
7 by mrconde96
Sun, 2022-10-02 05:34
Normal topic Old Knotfind algorithm
by Martin Floor » Thu, 2022-09-22 07:28
1
59 by rmoretti
Fri, 2022-09-23 09:38
Normal topic ReplicaDock2.0 demo fails with MPIFileBufJobDistributor: (1) [ ERROR ]
by erpannec » Tue, 2022-08-09 05:42
4
264 by erpannec
Thu, 2022-09-15 05:17
Normal topic Prepacking a macrocycle for docking / preserving cyclization
by almeida85 » Thu, 2022-09-08 06:54
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81 by almeida85
Thu, 2022-09-08 06:54
Normal topic Trehalose
by jpfuenzalidawx » Thu, 2022-09-08 00:49
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61 by jpfuenzalidawx
Thu, 2022-09-08 00:49
Normal topic Macrocycle from a C-terminal amidated peptide
by almeida85 » Thu, 2022-08-18 07:53
0
90 by almeida85
Thu, 2022-08-18 07:53
Normal topic Docking HeparinSulfate to proteins using GlycanDock
by GebauerJ » Tue, 2022-08-16 07:44
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88 by GebauerJ
Tue, 2022-08-16 07:44
Normal topic RIFdocking:Unable to locate database file chemical/residue_type_sets/fa_standard/residue_types/
by sia » Tue, 2022-08-02 20:06
2
166 by SeongRyeong Go
Mon, 2022-08-15 18:31
Normal topic simple_cycpep_predict - Design mode - The base name "ARG" was added more than once
by almeida85 » Thu, 2022-08-04 02:57
4
230 by almeida85
Thu, 2022-08-11 00:58
Normal topic Urgent issue: Error with submitting a new Rosetta-Vienna RNP-ddG job
by eyaaaan » Sun, 2022-08-07 22:03
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100 by eyaaaan
Tue, 2022-08-09 21:59
Normal topic Nanobody design
by chandana » Tue, 2022-08-09 20:36
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94 by chandana
Tue, 2022-08-09 20:36
Normal topic How to choose designed antibody
by Sunyp_IM » Wed, 2020-06-24 10:06
6
2,151 by chandana
Tue, 2022-08-09 20:27
Normal topic Unknown Element "SE" when generating NCAA params file containing selenium
by liuwenxi » Thu, 2022-08-04 16:24
2
172 by liuwenxi
Fri, 2022-08-05 09:50
Normal topic Include MHC alpha helices in loop modelling protocol for pMHC complex
by Roberto » Thu, 2022-08-04 07:22
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90 by Roberto
Thu, 2022-08-04 07:22
Normal topic pMHC modelling
by Roberto » Thu, 2022-08-04 07:11
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95 by Roberto
Thu, 2022-08-04 07:11
Normal topic CS-Rosetta cofactor
by martongadanecz » Wed, 2022-08-03 01:05
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85 by martongadanecz
Wed, 2022-08-03 01:05
Normal topic errors about RIFdocking
by sia » Sun, 2022-07-24 20:45
6
339 by sia
Tue, 2022-08-02 20:08
Normal topic Benchmarking Rosetta DDG Methods
by sareeves96 » Fri, 2022-07-29 09:55
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101 by sareeves96
Fri, 2022-07-29 09:55
Normal topic ERROR: Assertion `static_cast< size_type >( i - l_ ) < super::size()` failed. ERROR:: Exit from: src/utility/vectorL.hh line: 42
by yliang20 » Wed, 2022-06-15 22:22
1
202 by adriancmf25
Thu, 2022-07-28 02:09
Normal topic Expected density
by GabrielDucrocq » Thu, 2022-07-14 06:38
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170 by matteoferla
Wed, 2022-07-20 10:50
Normal topic shape complementarity
by holdenj » Fri, 2022-07-15 13:24
1
145 by rmoretti
Fri, 2022-07-15 13:50
Normal topic Error with RNA_denovo
by zmfowler » Thu, 2022-07-14 05:34
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114 by zmfowler
Thu, 2022-07-14 05:34
Normal topic Error with RoseTTAFold
by sc19 » Thu, 2022-07-14 03:40
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124 by sc19
Thu, 2022-07-14 03:40
Normal topic Ligand Docking with ROSETTA
by sc19 » Thu, 2022-07-14 01:32
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121 by sc19
Thu, 2022-07-14 01:34
Normal topic Per residue total score
by johnnytam100 » Wed, 2022-07-13 21:57
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102 by johnnytam100
Wed, 2022-07-13 21:57
Normal topic SnugDock Partners parameter
by tyang39 » Fri, 2022-07-08 10:02
1
132 by rmoretti
Fri, 2022-07-08 10:27
Normal topic Pepspec - sequence sampling
by almeida85 » Thu, 2022-06-23 04:05
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133 by almeida85
Thu, 2022-06-23 05:50
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
1,737 by Payne
Tue, 2022-06-21 07:25
Normal topic Could not open file /Rosetta/rosetta_bin_linux_2020.08.61146_bundle/main/database/citations/rosetta_citations
by yliang20 » Wed, 2022-06-15 11:26
2
243 by yliang20
Wed, 2022-06-15 13:46
Normal topic Segmentation Fault in Rosetta CM Hybridize
by yliang20 » Mon, 2022-06-06 17:25
2
269 by yliang20
Tue, 2022-06-07 08:36
Normal topic Local docking- should I use KIC?
by seayoung lee » Fri, 2022-05-27 02:45
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167 by seayoung lee
Fri, 2022-05-27 02:45
Normal topic Params for a stapled helix peptide
by e3lm » Thu, 2022-05-26 12:55
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163 by e3lm
Thu, 2022-05-26 12:55
Normal topic Noncanonical amino acids
by wsgosal » Tue, 2014-03-18 05:29
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5,369 by e3lm
Thu, 2022-05-26 12:51
Normal topic IL-2 gets better binding with beta / gamma
by tonycheng1688 » Wed, 2022-05-25 10:23
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167 by tonycheng1688
Wed, 2022-05-25 10:23
Normal topic Relax evaluates protein-DNA complexes?
by pablogalazdavison » Thu, 2022-05-12 12:05
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312 by pablogalazdavison
Fri, 2022-05-20 12:27
Normal topic Enzyme Design Not Editing Structure
by liuwenxi » Wed, 2022-05-18 10:12
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153 by liuwenxi
Wed, 2022-05-18 10:12
Normal topic minimize_ppi.mpi.linuxgccrelease doesn't use jd2?
by e3lm » Tue, 2022-05-17 11:58
0
160 by e3lm
Tue, 2022-05-17 11:58
Normal topic Disulfidize- "Extra content at the end of the document"
by ldlamini » Tue, 2022-05-17 02:37
1
192 by rmoretti
Tue, 2022-05-17 07:29
Normal topic Flex_ddG突变设计
by wangtao » Thu, 2022-05-05 02:46
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215 by wangtao
Thu, 2022-05-05 02:46
Normal topic Dimeric interface redesign
by kjs1728 » Mon, 2022-05-02 21:57
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151 by kjs1728
Mon, 2022-05-02 21:57
Normal topic Pepspec error
by almeida85 » Mon, 2022-05-02 04:07
1
215 by almeida85
Mon, 2022-05-02 05:05
Normal topic about “protein mimic designer”
by sia » Wed, 2022-04-27 19:59
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164 by sia
Wed, 2022-04-27 19:59
Normal topic How to Perform point mutations with NCAA
by Subhrodeep Saha » Tue, 2021-06-22 02:05
2
709 by dnamkr
Fri, 2022-04-22 17:00
Normal topic Ways to improve AbRelax performance?
by Corvin » Tue, 2022-04-19 06:10
2
358 by Corvin
Thu, 2022-04-21 00:50
Normal topic trRosetta - Nan occuring in Hbond calculation
by y_atsmonraz » Mon, 2021-10-04 09:16
1
395 by shivarawat115
Mon, 2022-04-11 16:10
Normal topic problem in using "zinc_site_redesign" tool
by Isomerase » Mon, 2022-03-28 01:19
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176 by Isomerase
Mon, 2022-03-28 01:19
Normal topic snugdock run error: Sequence for partner1 does not match first member of ensemble1
by pagumaaaaa » Fri, 2022-03-25 01:21
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198 by pagumaaaaa
Fri, 2022-03-25 01:21
Normal topic How do I change the default Compiler for Rosetta?
by pagumaaaaa » Wed, 2022-03-16 00:23
2
421 by pagumaaaaa
Thu, 2022-03-24 22:40
Normal topic Modelling at defined pH - for pmutscan - pH:mode not working
by cagfa1 » Tue, 2022-03-15 04:05
1
311 by Rituparna_Saman...
Wed, 2022-03-23 11:21
Normal topic RosettaDock 4.0 ambiguous ERROR
by sam_dc » Fri, 2022-03-18 09:36
3
567 by rmoretti
Tue, 2022-03-22 09:10
Normal topic Error in a new docking
by jrcf » Wed, 2017-05-17 19:26
2
3,007 by tingting
Tue, 2022-03-15 23:55
Normal topic simple_cycpep_predict thioether_lariat option
by Ken » Mon, 2022-03-14 15:14
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219 by Ken
Mon, 2022-03-14 15:14
Normal topic small ligand docking in Ubuntu 20.04, please help
by guowuchen » Sun, 2022-03-06 18:12
2
491 by guowuchen
Mon, 2022-03-07 23:34
Normal topic Rosetta Matcher not recognizing protonation forms of CST files like CYZ, HIS_D, etc
by Hirbond » Tue, 2022-03-01 13:16
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256 by Hirbond
Tue, 2022-03-01 13:16
Normal topic Using GlycanDock and the Antibody Affinity Maturation protocol.
by tbelec » Mon, 2022-02-28 12:37
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293 by tbelec
Mon, 2022-02-28 12:37
Normal topic DockingProtocol
by Soler » Fri, 2022-02-11 00:12
3
672 by gezmi
Tue, 2022-02-15 21:47
Normal topic RAbD with N-term,Proline-like ncaa returns segmentation fault during CCDEndsGraftMover
by CordycepsLin » Sun, 2022-02-06 19:09
9
1,271 by CordycepsLin
Wed, 2022-02-09 19:39
Normal topic Generating the 3-mer and 9-mer fragments
by Prasoon » Wed, 2022-02-09 09:04
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360 by Prasoon
Wed, 2022-02-09 09:04
Normal topic FastRelaxMover parameters for antibody-antigen interaction analysis
by samuel_k » Thu, 2022-01-27 01:08
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349 by samuel_k
Thu, 2022-01-27 01:08
Normal topic Relax in membrane pull my protein out of the membrane
by Martin Floor » Wed, 2022-01-26 07:46
0
367 by Martin Floor
Wed, 2022-01-26 07:46
Normal topic Can anybody suggests some flags to run Rifdock?
by Hyunmi Song » Sun, 2022-01-23 16:45
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416 by Hyunmi Song
Sun, 2022-01-23 16:45
Normal topic ligand dock into HEM containg pdb
by syntekabio2019 » Thu, 2022-01-20 03:05
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330 by syntekabio2019
Thu, 2022-01-20 03:05
Normal topic charge grid in rosetta ligand docking using rosetta script
by syntekabio2019 » Mon, 2022-01-17 23:53
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305 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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305 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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280 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
417 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
410 by bhavranek
Sun, 2021-12-26 21:05
Normal topic Question about running scallo
by danbo » Mon, 2021-11-29 23:25
8
1,340 by danbo
Wed, 2021-12-22 23:51
Normal topic getting a3m files
by alonwenger » Wed, 2021-12-15 02:38
2
868 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
0
274 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
0
319 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
0
280 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
4
940 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
0
277 by Wang Zhe
Wed, 2021-12-08 10:07
Normal topic SecundaryStructure Filter
by Soler » Sun, 2021-11-21 22:20
0
337 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
7
3,585 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
0
344 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
0
357 by Corvin
Tue, 2021-11-16 07:22
Normal topic The energy terms in InterfaceAnalyzer
by Sunyp_IM » Tue, 2021-11-02 18:43
2
600 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
462 by LeonhardJS
Fri, 2021-11-12 01:20
Normal topic connecting rna strands together
by y_atsmonraz » Tue, 2021-11-09 05:42
1
395 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
832 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
2
1,061 by chenna
Tue, 2021-10-12 20:51
Normal topic Rosetta DARc suboptimal dockings
by ddhoyo » Mon, 2021-10-11 06:18
0
285 by ddhoyo
Mon, 2021-10-11 06:18
Normal topic Linker Building in scFv
by sam_dc » Sat, 2021-10-09 05:38
0
332 by sam_dc
Sat, 2021-10-09 05:38
Normal topic RoseTTaFold
by ozsolomon » Thu, 2021-10-07 05:27
2
943 by ozsolomon
Thu, 2021-10-07 14:25
Normal topic Symmetry definition file versions
by Jeff Qu » Tue, 2021-09-28 09:53
0
322 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
1
510 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
0
394 by amorin
Mon, 2021-09-27 12:16
Normal topic Python2 script in Rosetta3.13
by ddhoyo » Wed, 2021-09-15 04:05
1
615 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
2,426 by e3lm
Tue, 2021-09-14 10:02
Normal topic Rosetta Ligand Ensemble
by malfonsoprieto » Wed, 2021-05-26 10:21
3
1,151 by vizcarra
Thu, 2021-08-26 10:16
Normal topic duplex RNA
by amir_tagh » Thu, 2021-08-05 06:34
1
563 by everyday847
Mon, 2021-08-16 10:43
Normal topic Topobuilder segmentation fault
by tatsiana.bylund » Mon, 2021-08-09 07:10
0
601 by tatsiana.bylund
Mon, 2021-08-09 07:10
Normal topic clashes created with enzdes
by listofdina » Mon, 2021-08-02 06:51
0
414 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
1
557 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
391 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
345 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
4,677 by matteoferla
Mon, 2021-07-19 06:13

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