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Rosetta 3 - Applications

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:18
0
7,396 by admin
Fri, 2015-09-04 16:17
Normal topic Comparative Modeling Tutorial
by code_Monkey » Thu, 2021-03-04 12:35
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8 by code_Monkey
Thu, 2021-03-04 12:35
Normal topic Error from clean_pdb.py
by code_Monkey » Mon, 2021-03-01 17:00
2
28 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
294 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
159 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
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33 by AlfredoKCL
Mon, 2021-03-01 04:07
Hot topic CoupledMoves not altering backbone coordinates?
by amorin » Wed, 2021-01-20 11:38
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354 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
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366 by amorin
Fri, 2021-02-12 08:53
Normal topic Segfault with Pepspec
by almeida85 » Thu, 2021-02-11 02:56
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51 by almeida85
Thu, 2021-02-11 02:56
Normal topic core.optimization.LineMinimizer: [ ERROR ] Inaccurate G!
by aralz » Thu, 2021-02-11 00:46
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56 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
257 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
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124 by nannemdp
Wed, 2021-02-03 08:52
Normal topic different value of score from rna_denovo and rna_score?
by yikanzhang » Wed, 2021-02-03 07:17
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49 by yikanzhang
Wed, 2021-02-03 07:17
Normal topic antibody.linuxgccrelease- output models don't have the same sequence as the input fasta
by agctomer » Thu, 2021-01-21 15:35
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157 by agctomer
Sun, 2021-01-31 01:06
Normal topic Modelling humanized camelid like antibody
by terabithia2011 » Tue, 2021-01-26 10:12
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71 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
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78 by Poladu
Tue, 2021-01-26 07:50
Normal topic Question with rosetta AbPredict tutorial
by terabithia2011 » Mon, 2021-01-25 09:24
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56 by terabithia2011
Mon, 2021-01-25 09:24
Normal topic [Solved] Resetting a pose with RigidBodyTransMover
by bjharris » Wed, 2021-01-13 14:01
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118 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
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296 by brspurri
Wed, 2021-01-20 08:11
Normal topic RosettaAntibody - No matching templates for CDR1
by agctomer » Tue, 2021-01-19 22:45
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69 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
126 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
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6,875 by egecav
Mon, 2021-01-18 05:41
Normal topic relax.linuxgccrelease in multiple processors
by jpfuenzalidawx » Thu, 2021-01-14 14:07
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202 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
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63 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
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120 by rohi
Mon, 2021-01-11 13:58
Normal topic Design of multimeric protein
by ldlamini » Mon, 2021-01-11 07:23
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56 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
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129 by Corvin
Wed, 2020-12-30 09:21
Normal topic RemodelMover and Input Pose
by ozyo » Tue, 2020-12-29 09:41
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104 by ozyo
Tue, 2020-12-29 09:41
Normal topic issues about cstfile in RosettaMatch
by Nicole Deng » Fri, 2020-12-18 05:44
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228 by Nicole Deng
Mon, 2020-12-28 17:55
Normal topic protein-ligand docking rescoring with interfaceAnalyzer
by syntekabio2019 » Sat, 2020-12-19 03:59
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196 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
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101 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
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255 by Nicole Deng
Fri, 2020-12-18 00:28
Normal topic pepspec anchor dock
by Astghik » Tue, 2020-10-20 05:31
6
537 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
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133 by Pappmaschee
Wed, 2020-12-16 09:23
Normal topic RosettaScripts filter BuriedUnsatHbonds2 missing still
by zdaw » Fri, 2020-12-11 12:39
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240 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
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243 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
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461 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
222 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
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160 by rmoretti
Wed, 2020-12-02 07:27
Normal topic polymer docking using rosetta scripts
by syntekabio2019 » Fri, 2020-11-27 01:51
1
155 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
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344 by Corvin
Wed, 2020-11-25 02:58
Normal topic RosettaMP: issue with generating .lips4 file
by ksy141 » Mon, 2019-01-21 17:17
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1,037 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
439 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
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497 by neelamraju.srid...
Wed, 2020-11-18 05:47
Normal topic Membrane Abinitio modeling error
by jkyan007 » Thu, 2020-10-29 03:30
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224 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
1,755 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
171 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
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211 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
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281 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
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879 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
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184 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
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632 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
406 by xinmiaohe
Mon, 2020-10-19 13:18
Normal topic Scoring functions: talaris2013 incompatible versions
by Smbat » Tue, 2020-10-13 06:18
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539 by Astghik
Thu, 2020-10-15 00:48
Normal topic neutral N-term and C-term
by nawsad » Sun, 2013-06-09 10:20
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5,842 by helenah
Thu, 2020-10-08 05:29
Normal topic Modelling of multi-component symmetrical structures
by LanMei » Wed, 2020-10-07 09:58
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236 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
354 by Kharlamov1317a
Wed, 2020-10-07 08:26
Normal topic Robetta ab initio - TrRosetta for membrane proteins
by benhardy » Wed, 2020-09-30 08:42
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318 by benhardy
Wed, 2020-09-30 08:42
Normal topic Membrane Abinitio modeling
by bharat_46010 » Mon, 2017-03-13 22:39
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899 by benhardy
Wed, 2020-09-30 04:24
Normal topic Input structure
by Soler » Mon, 2020-09-28 13:18
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251 by ssrb
Tue, 2020-09-29 12:37
Normal topic NCAA Rotamers for Cyclosporin
by marinok » Mon, 2020-09-28 14:11
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202 by marinok
Mon, 2020-09-28 14:11
Normal topic Trouble running MPI docking protocol, please help!
by Rob_Barringer » Tue, 2020-08-18 06:40
2
510 by Rob_Barringer
Fri, 2020-09-25 05:45
Normal topic RosettaCM or FastRelax?
by Tianyang89 » Wed, 2020-09-23 07:46
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439 by danpf
Thu, 2020-09-24 13:44
Normal topic Sequence design with mixed fixbb-relax protocol
by kszczepaniak » Thu, 2013-10-03 08:11
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3,622 by fede
Wed, 2020-09-23 11:24
Normal topic I need some help for using pHDock applications(histidine protonation / pH-dependent binding)
by leygkn » Tue, 2020-09-22 18:40
1
245 by leygkn
Tue, 2020-09-22 22:46
Normal topic When using "screening job files" in small molecule-docking I get: Residue type already exists in the cache Error
by Martin Floor » Thu, 2020-09-17 06:01
4
561 by Martin Floor
Tue, 2020-09-22 00:48
Normal topic Strong bias in sampling observed in RosettaDock
by chenna » Thu, 2020-08-27 22:23
1
316 by ssrb
Sun, 2020-09-20 15:50
Normal topic Building loop extensions in a membrane protein with Remodel
by benhardy » Tue, 2020-06-02 08:21
2
590 by benhardy
Sun, 2020-09-20 11:15
Normal topic Pepspec Anchor Dock
by Soler » Fri, 2020-09-18 08:09
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253 by Soler
Fri, 2020-09-18 08:09
Normal topic FASTA for Octopus
by Smbat » Wed, 2020-09-16 05:40
1
309 by rmoretti
Wed, 2020-09-16 22:11
Normal topic Pepspec Anchor Dock
by Soler » Wed, 2020-09-16 19:08
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176 by Soler
Wed, 2020-09-16 19:08
Normal topic FlexPepDocking
by jlawrie » Tue, 2020-09-15 12:52
0
194 by jlawrie
Tue, 2020-09-15 12:52
Normal topic 'standard.wts' does not exist
by almeida85 » Mon, 2020-09-14 02:26
1
267 by rmoretti
Mon, 2020-09-14 06:36
Normal topic Scoring docking error
by almeida85 » Wed, 2020-09-02 01:32
2
410 by almeida85
Wed, 2020-09-02 06:14
Normal topic make_fragments.pl error
by almeida85 » Mon, 2020-08-31 04:39
2
418 by almeida85
Tue, 2020-09-01 01:29
Normal topic Extracting top score PIPER models
by almeida85 » Mon, 2020-08-31 07:17
0
214 by almeida85
Mon, 2020-08-31 07:17
Normal topic density scoring
by Tianyang89 » Sat, 2020-08-29 04:54
1
341 by danpf
Sun, 2020-08-30 22:23
Normal topic RosettaAntibody3 - How can I model an extended H3?
by brspurri » Fri, 2020-08-28 09:11
0
247 by brspurri
Fri, 2020-08-28 09:11
Normal topic Rosetta_CM error unrecognized atom 'CS' this atom is not in PDB
by rlwoltz » Thu, 2019-01-24 19:43
3
1,608 by bjharris
Sun, 2020-08-23 14:03
Normal topic Global Docking with carbohydrates
by ChiauShu » Sat, 2020-08-22 20:16
0
213 by ChiauShu
Sat, 2020-08-22 20:16
Normal topic Successful RosettaCM?
by jlawrie » Wed, 2020-08-19 06:53
2
381 by jlawrie
Thu, 2020-08-20 11:00
Normal topic Fewer than expected structures in clustering output
by fabiotrovato » Thu, 2020-08-20 00:59
0
190 by fabiotrovato
Thu, 2020-08-20 00:59
Normal topic RosettaAntibody3 is failing with "Error: no input sequences were specified!"
by brspurri » Sun, 2020-08-16 16:16
4
628 by brspurri
Tue, 2020-08-18 09:57
Normal topic clustering output file has few structures
by fabiotrovato » Mon, 2020-08-17 11:37
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189 by fabiotrovato
Mon, 2020-08-17 11:37
Normal topic RosettaCM
by jlawrie » Fri, 2020-08-14 14:09
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308 by jlawrie
Fri, 2020-08-14 14:09
Normal topic mpirun docking_protocol
by NanB » Mon, 2020-08-03 11:38
1
456 by ssrb
Fri, 2020-08-14 09:18
Normal topic Docking-I_sc values do not correlate
by jlawrie » Wed, 2020-08-12 08:08
2
384 by jlawrie
Wed, 2020-08-12 08:57
Normal topic Homology Modeling-no PDB output
by jlawrie » Wed, 2020-08-12 06:30
2
394 by jlawrie
Wed, 2020-08-12 08:56
Normal topic Modeling-Using RosettaCM
by jlawrie » Wed, 2020-08-12 08:46
1
250 by jlawrie
Wed, 2020-08-12 08:47
Normal topic Docking-RMS value nan
by jlawrie » Wed, 2020-08-12 07:03
2
389 by jlawrie
Wed, 2020-08-12 07:27
Normal topic Error when trying docking protocol with different ligand
by scyphs » Wed, 2020-08-05 04:37
2
410 by scyphs
Mon, 2020-08-10 08:09
Normal topic how to know the precedure of solving a actural bio problem? like interface design?
by qq7678500549 » Thu, 2020-08-06 18:45
2
377 by qq7678500549
Sun, 2020-08-09 18:59
Normal topic De novo water predictions using SPaDES
by MNP1986 » Mon, 2019-03-25 07:53
1
677 by matteoferla
Tue, 2020-08-04 09:30
Normal topic Bug Report - Encoding issue
by daniloboskovic » Tue, 2020-08-04 07:02
0
162 by daniloboskovic
Tue, 2020-08-04 07:02
Normal topic pepspec anchor dock
by Andre Serobian » Tue, 2020-07-28 05:51
1
317 by Andre Serobian
Tue, 2020-07-28 23:26
Normal topic Zero residues error in docking
by cjy318 » Tue, 2020-07-28 19:47
0
222 by cjy318
Tue, 2020-07-28 19:47
Normal topic RosettaAntibody3 core.pose.util error
by linhhoang157 » Tue, 2020-07-28 12:40
0
263 by linhhoang157
Tue, 2020-07-28 12:40
Normal topic clean_pdb not working
by Andre Serobian » Thu, 2020-07-23 04:48
3
579 by rmoretti
Tue, 2020-07-28 08:24
Normal topic Comparative modeling of metalloproteins
by ctqwong » Sun, 2020-07-12 13:51
3
573 by ctqwong
Mon, 2020-07-27 01:48
Normal topic How to choose designed antibody
by Sunyp_IM » Wed, 2020-06-24 10:06
5
814 by jadolfbr
Fri, 2020-07-24 07:24

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