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Rosetta 3 - General

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:16
0
5,359 by admin
Fri, 2015-09-04 16:17
Normal topic selecting pivot_residue in Backrub for ensemble generation
by rohi » Fri, 2020-08-07 15:41
6
43 by matteoferla
Tue, 2020-08-11 10:00
Normal topic I made a params file generation webpage
by matteoferla » Wed, 2020-07-22 03:08
0
43 by matteoferla
Wed, 2020-07-22 03:08
Normal topic Quick mysql output question
by pedro.guillem » Thu, 2020-07-23 03:45
0
52 by pedro.guillem
Thu, 2020-07-23 03:45
Normal topic Controlling Input in the Tutorial
by Smbat » Wed, 2020-07-29 22:41
2
63 by Smbat
Thu, 2020-07-30 03:07
Normal topic "Rosetta predictions of density, heat of vaporization (∆Hvap) and heat capacity (Cp(l))"
by matteoferla » Tue, 2020-07-14 01:51
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63 by matteoferla
Tue, 2020-07-14 01:51
Normal topic Gaussian Constraint For Dihedrals
by jinli711 » Thu, 2020-07-23 10:47
1
64 by matteoferla
Fri, 2020-07-24 03:06
Normal topic Make fragments
by jeanramos » Mon, 2020-07-13 00:56
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64 by jeanramos
Mon, 2020-07-13 00:56
Normal topic Questions about alanine scanning in Rosetta
by LTJ » Mon, 2020-07-06 14:13
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68 by LTJ
Mon, 2020-07-06 14:13
Normal topic Clustering error - Help, please
by karolcia1010 » Wed, 2020-06-17 11:19
0
68 by karolcia1010
Wed, 2020-06-17 11:19
Normal topic reading of AtomPair failed in relax with constraint
by hajar » Wed, 2020-06-10 10:02
0
80 by hajar
Wed, 2020-06-10 11:17
Normal topic Unrecognized atom parameter with denovo_density
by kalabharath » Mon, 2020-06-29 06:59
0
81 by kalabharath
Mon, 2020-06-29 06:59
Normal topic error when using script best_ifaceE.py
by windmill » Thu, 2020-06-18 21:30
1
83 by windmill
Thu, 2020-06-18 21:32
Normal topic How to create a native file for Protein-Protein docking
by Kotimedidhi » Mon, 2020-06-22 08:10
0
87 by Kotimedidhi
Mon, 2020-06-22 08:10
Normal topic Structure refinement for helical assembles using Rosetta
by xiaoyanzi » Thu, 2020-06-18 00:34
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87 by xiaoyanzi
Thu, 2020-06-18 00:36
Normal topic Finding affinity-reducing mutants towards a ligand in Ligand-based interface design protocol
by adityapadhi » Wed, 2020-06-24 01:29
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94 by adityapadhi
Wed, 2020-06-24 01:29
Normal topic Ligand docking: how to generate the crystal_complex.pdb with hydrogens added
by nhinguyen26 » Wed, 2020-06-17 15:03
1
97 by matteoferla
Sat, 2020-06-20 03:56
Normal topic simple_cycpep_predict issue modifying terminal residue
by JEaston » Thu, 2020-06-25 13:15
1
98 by vmulligan
Mon, 2020-06-29 13:09
Normal topic patch file modification for ser_phosphorylated.txt
by hajar » Sun, 2020-06-21 00:49
1
106 by matteoferla
Tue, 2020-06-23 10:58
Normal topic where is PyIgClassfiy.py ?
by mxp » Tue, 2020-07-07 23:57
2
106 by mxp
Wed, 2020-07-08 23:25
Normal topic Error with filter in rosseta_scripts
by Osmany Guirola » Mon, 2020-05-11 04:52
0
112 by Osmany Guirola
Mon, 2020-05-11 04:52
Normal topic BUG REPORT: MySql column protocol.protocol_id must have the AUTO_INCREMENT flag set
by pedro.guillem » Wed, 2020-05-13 18:31
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112 by pedro.guillem
Wed, 2020-06-24 04:42
Normal topic Correct way to force a specific histidine tautomer
by matteoferla » Fri, 2020-04-10 02:40
0
112 by matteoferla
Fri, 2020-04-10 02:40
Normal topic str::out_of_range with mpiexec and relax
by pedro.guillem » Fri, 2020-06-19 10:39
1
116 by pedro.guillem
Wed, 2020-06-24 04:49
Normal topic Difference between interface_delta_X and dG_separated?
by Nicole Deng » Sat, 2020-06-06 06:31
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118 by Nicole Deng
Sat, 2020-06-06 06:40
Normal topic Side-chain grafting in fixed scaffold
by Kazu » Wed, 2020-05-20 08:45
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121 by Kazu
Wed, 2020-05-20 11:58
Normal topic Output "per-residue" energy score to database
by pedro.guillem » Thu, 2020-05-14 04:22
0
123 by pedro.guillem
Thu, 2020-05-14 04:22
Normal topic ligand docking error
by YuFei » Wed, 2020-04-22 17:27
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130 by YuFei
Wed, 2020-04-22 17:27
Normal topic Method for WebServer Fragment Generation
by Jacob_Verburgt » Tue, 2020-06-02 07:29
2
144 by Jacob_Verburgt
Tue, 2020-06-02 10:26
Normal topic Error when trying to thread target sequence over template pdbs, partial_thread.static.macosclangrelease not working properly
by DGR95 » Wed, 2020-04-15 14:42
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147 by DGR95
Fri, 2020-04-17 11:25
Normal topic Setting output values using a database (with relax app)
by pedro.guillem » Thu, 2020-05-14 04:33
1
151 by pedro.guillem
Wed, 2020-06-24 04:41
Normal topic Error in molfile_to_params_polymer.py for NCAA
by kkuo33 » Mon, 2020-05-18 16:41
1
152 by matteoferla
Sat, 2020-05-23 03:09
Normal topic Error in flex ddG tutorial
by wentlewi » Sat, 2020-05-16 08:06
0
152 by wentlewi
Sat, 2020-05-16 08:06
Normal topic Does it make sense to perform Docking on a complex?
by chrisHKL » Mon, 2020-02-17 09:12
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162 by chrisHKL
Mon, 2020-02-17 09:12
Normal topic Program frozen at "protocols.jobdist.JobDistributors: (0) Master Node -- Waiting for job request; tag_ = 1"
by Xinhang » Sat, 2020-04-11 14:30
1
162 by vmulligan
Sat, 2020-04-11 17:40
Normal topic error in mol2 to params conversion for GAliganddocking
by jalan » Wed, 2020-04-22 06:08
2
173 by jalan
Thu, 2020-04-23 05:19
Normal topic Protein Interface Design using PSSM
by ccruz » Sun, 2020-05-24 14:27
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175 by nannemdp
Tue, 2020-05-26 06:33
Normal topic I made a RDKit Chem.Mol to params converter — feedback welcome!
by matteoferla » Sun, 2020-05-03 10:14
1
180 by jadolfbr
Sun, 2020-05-03 19:38
Normal topic Rosetta changing Atom Name in PDB ATOM record?
by chrisHKL » Tue, 2020-03-03 20:50
1
181 by smlewis
Wed, 2020-03-04 07:40
Normal topic Is there other online server for generate fragment?
by ylwang » Wed, 2020-04-01 01:39
1
204 by rmoretti
Wed, 2020-04-01 10:10
Normal topic Are 100 structures the maximum generated when using homology_with_end_extension (broker protocol)?
by thaisarns » Fri, 2020-02-21 05:46
1
205 by sheehajh
Fri, 2020-02-21 12:41
Normal topic How to specify constraints during fold-and-dock?
by sarah_b » Tue, 2020-05-12 01:55
3
207 by matteoferla
Thu, 2020-05-14 07:01
Normal topic MotifGraft error: "Residue connection id changed when creating a new residue at seqpos"
by dfcoelho » Mon, 2020-02-03 11:09
1
218 by dfcoelho
Tue, 2020-02-04 07:45
Normal topic SARS-CoV-2: call for compound predictions against protease
by matteoferla » Sun, 2020-03-22 05:29
0
219 by matteoferla
Sun, 2020-03-22 05:29
Normal topic I got so many atoms in one residue
by ylwang » Tue, 2020-03-24 04:40
3
220 by ylwang
Tue, 2020-03-24 19:35
Normal topic Docking Metalloprotein-Protein
by fgomes » Fri, 2019-11-22 19:12
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221 by fgomes
Fri, 2019-11-22 19:12
Normal topic mpi + mp_mutate_relax
by decrSTL » Thu, 2020-01-16 10:47
1
222 by jkleman
Thu, 2020-01-16 11:05
Normal topic use_truncated_termini not working in combination with params files
by georg » Thu, 2020-03-26 13:14
1
226 by matteoferla
Tue, 2020-04-14 03:36
Normal topic Error in src/protocols/membrane/util.cc line: 1224
by renedominik » Tue, 2020-02-11 08:10
1
244 by renedominik
Wed, 2020-02-12 06:16
Normal topic Working through tutorials: expected output scorces differ from calculated results
by j.schmue » Sat, 2020-01-18 13:16
2
247 by j.schmue
Tue, 2020-01-28 13:31
Normal topic MakeRotLib
by yinasun » Fri, 2019-07-26 02:17
0
257 by yinasun
Fri, 2019-07-26 02:17
Normal topic What is the best protocol to predict the missing residues in X-ray crystallisation?
by lanselibai » Sun, 2019-12-29 04:44
1
264 by matteoferla
Wed, 2020-01-01 04:30
Normal topic how to perform model quality assessment of rosetta generated models?
by Danielsebas » Tue, 2019-09-24 05:03
0
272 by Danielsebas
Tue, 2019-09-24 05:03
Normal topic Error in Hybridize of Rosetta Comparative Modeling.
by Ivan » Fri, 2019-11-01 07:46
1
293 by rmoretti
Mon, 2019-11-04 12:54
Normal topic Job Distribution Error
by ac.research » Mon, 2020-02-10 08:22
2
293 by ac.research
Fri, 2020-02-14 23:33
Normal topic Rosetta Resfile header
by G Mustafa » Mon, 2020-01-20 06:45
2
299 by G Mustafa
Tue, 2020-01-21 06:04
Normal topic Searching density map using real space correlation
by ahmadkhalifa » Fri, 2018-12-28 00:28
0
300 by ahmadkhalifa
Fri, 2018-12-28 00:28
Normal topic Ddg calculation for a metalloprotein using APBS
by dfcoelho » Tue, 2019-11-19 10:06
2
302 by dfcoelho
Wed, 2019-11-20 05:39
Normal topic What is the best way to make a residue-specific SASA constraint?
by jmaly » Thu, 2020-01-23 16:40
2
310 by matteoferla
Wed, 2020-01-29 12:18
Normal topic Disulfidize mover
by karenjgonzalez » Wed, 2019-07-31 12:35
0
312 by karenjgonzalez
Wed, 2019-07-31 12:35
Normal topic Ligand question - aromatic bonds not being enforced?
by Rick_Baker » Wed, 2019-09-11 09:08
1
314 by Rick_Baker
Wed, 2019-09-11 15:35
Normal topic How to use the <CavityVolume> filter in the released version of Rosetta
by BioPython » Sun, 2019-05-12 20:07
0
326 by BioPython
Sun, 2019-05-12 20:07
Normal topic AbinitioRelax of RCSB PDB structures
by ac.research » Tue, 2019-09-03 02:35
1
331 by danpf
Tue, 2019-09-03 10:39
Normal topic How to determine the value size in block of *.cst files?
by weifulei » Sun, 2019-05-05 19:56
1
332 by rmoretti
Tue, 2019-07-09 15:59
Normal topic How to define the surface (???.surf) for surface_docking?
by Anpu » Thu, 2018-09-27 07:34
0
332 by Anpu
Thu, 2018-09-27 23:36
Normal topic How to get fragment library from robetta server for mre than 1000 residue sequence?
by Danielsebas » Wed, 2019-09-18 07:53
1
335 by rmoretti
Wed, 2019-09-18 10:49
Normal topic Unable to create col_complex.pdb file
by sayan500 » Tue, 2019-07-30 22:08
1
340 by rmoretti
Mon, 2019-08-26 14:52
Normal topic MakeRotLib
by yinasun » Sun, 2019-07-28 20:08
1
340 by rmoretti
Mon, 2019-08-26 15:00
Normal topic Fixing certain residues during refinement
by ckdenist » Thu, 2019-08-29 14:00
1
344 by jadolfbr
Thu, 2019-08-29 14:29
Normal topic Performace Benchmarking
by Tushar Kush » Wed, 2019-12-04 02:50
2
351 by smlewis
Wed, 2019-12-04 13:07
Normal topic Mutations are ignored (fixbb) when using -auto_setup_metals option
by hdelrisco » Wed, 2019-06-19 15:43
1
363 by smlewis
Fri, 2019-06-28 13:56
Normal topic IS there any source code about protein structure prediction with only sequences information?
by ylwang » Mon, 2019-07-08 02:36
1
363 by rmoretti
Mon, 2019-07-08 08:05
Normal topic File specification of binary part of silent file (especially PDB section)
by m.ebert » Wed, 2019-05-29 01:52
1
364 by smlewis
Wed, 2019-05-29 13:21
Normal topic Denovo density excess map input and segmentation
by ahmadkhalifa » Mon, 2018-04-30 07:28
0
368 by ahmadkhalifa
Fri, 2018-05-04 07:50
Normal topic crashed when loading RDC data
by yangshen12 » Fri, 2018-10-26 12:34
0
371 by yangshen12
Fri, 2018-10-26 12:34
Normal topic alignblast.pl truncated file
by rlwoltz » Mon, 2019-03-11 18:32
0
374 by rlwoltz
Mon, 2019-03-11 18:32
Normal topic Error with simple_cycpep_predict protocol while using a native pdb file
by Florent Langenfeld » Tue, 2019-03-26 10:05
1
374 by vmulligan
Tue, 2019-03-26 11:23
Closed topic MakeRotLib
by yinasun » Fri, 2019-07-26 02:20
1
376 by rmoretti
Mon, 2019-08-26 15:01
Normal topic incomparable ddG values
by ela » Fri, 2018-08-31 02:53
0
379 by ela
Fri, 2018-08-31 02:53
Normal topic protein surface design
by tatsiana.bylund » Sun, 2019-09-15 03:44
2
382 by dfcoelho
Tue, 2019-11-19 10:16
Normal topic restrict PackRotamersMover
by pmit » Thu, 2018-05-03 01:48
0
386 by pmit
Thu, 2018-05-03 01:48
Normal topic type of docking
by rohi » Mon, 2020-07-06 06:55
11
386 by rohi
Sun, 2020-07-26 17:03
Normal topic Errors in Interface_design_demo
by zhoubin » Fri, 2019-01-04 13:14
0
387 by zhoubin
Fri, 2019-01-04 13:14
Normal topic env energy term
by bazzoli » Wed, 2018-10-10 01:59
0
389 by bazzoli
Wed, 2018-10-10 01:59
Normal topic FARFAR and RNA_Tools: problem executing the command helix_preassemble_setup.py
by obdulia » Wed, 2018-04-18 00:45
0
390 by obdulia
Wed, 2018-04-18 00:45
Normal topic How to determine the value size in block of *.cst files?
by weifulei » Sun, 2019-05-05 19:56
1
391 by rmoretti
Tue, 2019-07-09 15:48
Normal topic RosettaDesign improvements
by ac.research » Mon, 2018-05-14 08:27
0
399 by ac.research
Mon, 2018-05-14 08:27
Normal topic intrensic disrodered proteins
by ac.research » Thu, 2019-04-04 07:20
1
399 by vmulligan
Mon, 2019-04-08 14:49
Normal topic Denovo prediction from multiple fragment lengths
by ahmadkhalifa » Sun, 2019-03-24 03:55
1
403 by rmoretti
Sat, 2019-03-30 12:10
Normal topic Does Rosetta have a class diagram for each class in the source code?
by ylwang » Thu, 2019-11-21 04:24
3
404 by ylwang
Sat, 2019-11-23 06:26
Normal topic Rosetta params for taxol
by ahmadkhalifa » Sat, 2019-03-30 22:37
1
406 by rmoretti
Wed, 2019-04-03 10:03
Normal topic Error in Loop Modeling
by sayan500 » Tue, 2019-07-30 22:20
0
409 by sayan500
Tue, 2019-07-30 22:20
Normal topic Mutate multidomain protein
by frankfurter1 » Wed, 2018-05-09 04:40
0
417 by frankfurter1
Wed, 2018-05-09 04:40
Normal topic LHOC script problem in Rosetta Antibody
by ziheng@mit.edu » Thu, 2019-04-25 14:19
1
418 by ziheng@mit.edu
Thu, 2019-04-25 14:31
Normal topic problems with implementing NOE constraints
by connyyu » Thu, 2019-04-11 12:37
1
419 by connyyu
Thu, 2019-04-18 03:26
Normal topic What is the expected behaviour when minimizing a jump edge?
by bio_james » Wed, 2017-12-13 09:13
0
420 by bio_james
Wed, 2017-12-13 09:13
Normal topic MakeRotLib
by yinasun » Fri, 2019-07-26 02:18
2
421 by jalan
Sun, 2020-04-12 08:01
Normal topic DesignByCavityProximity: element not expected
by karenjgonzalez » Tue, 2020-01-28 05:16
4
422 by karenjgonzalez
Tue, 2020-02-11 08:44
Normal topic I generated a table of images & info of the premade NCAA params in the database
by matteoferla » Sun, 2020-02-16 06:27
4
428 by matteoferla
Sat, 2020-03-21 09:14
Normal topic lDDT: local Distance Difference Test implemented?
by ipetrik_ambry » Wed, 2017-12-06 13:11
0
440 by ipetrik_ambry
Wed, 2017-12-06 13:11

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