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Rosetta 3 - General

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:16
0
4,759 by admin
Fri, 2015-09-04 16:17
Normal topic Question about FlexPepDock score
by aelatico » Thu, 2018-07-19 20:39
0
22 by aelatico
Thu, 2018-07-19 20:39
Normal topic Why I_sc of Rosetta 2016.02 and 2018.21 are so different?
by eminegenetics » Mon, 2018-07-16 12:51
2
42 by eminegenetics
Wed, 2018-07-18 13:48
Normal topic Docking tree issues
by salvatta » Tue, 2018-07-17 05:57
0
12 by salvatta
Tue, 2018-07-17 05:57
Normal topic Undocumented changes in BackrubDD
by abhi_pe_acharya » Mon, 2018-07-16 00:24
0
20 by abhi_pe_acharya
Mon, 2018-07-16 00:25
Normal topic which make_fragments.pl
by renedominik » Mon, 2018-06-04 08:58
2
86 by renedominik
Sat, 2018-07-07 03:03
Normal topic Efficient implementation of MPI with protein design programs
by zachdebruine » Thu, 2018-06-28 10:41
5
97 by smlewis
Tue, 2018-07-03 11:22
Normal topic Calibur not listing cluster members
by Swillard » Sun, 2018-07-01 13:07
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39 by Swillard
Sun, 2018-07-01 13:07
Normal topic Free FSC score for validating refinement
by ahmadkhalifa » Thu, 2018-05-10 05:53
2
86 by ahmadkhalifa
Fri, 2018-06-29 07:54
Normal topic lysine-aspartate isopeptide bond
by matteoferla » Tue, 2016-11-01 10:54
9
2,188 by drwalker
Fri, 2018-06-29 06:03
Normal topic Total Rama Score
by jcminerlanl » Thu, 2018-05-10 07:19
1
76 by rmoretti
Thu, 2018-06-28 14:28
Normal topic Docking a ligand to two movable domains of a protein
by brspurri » Wed, 2018-05-16 08:27
1
97 by rmoretti
Thu, 2018-06-28 14:22
Normal topic Rosetta CM round_thread.pdb doesn't exist and can't find pose (id = round)
by ahmadkhalifa » Wed, 2018-05-23 09:51
2
153 by rmoretti
Thu, 2018-06-28 14:09
Normal topic Questions regarding fragmentation using Robetta
by ahmadkhalifa » Thu, 2018-06-28 13:24
1
29 by smlewis
Thu, 2018-06-28 13:34
Normal topic Amino acid post-translational modifications
by aelatico » Tue, 2018-06-19 03:29
1
59 by smlewis
Tue, 2018-06-19 10:31
Normal topic ERROR: Unused "free" argument specified: GDP.fa.tors
by ahmadkhalifa » Fri, 2018-06-15 11:27
10
149 by smlewis
Tue, 2018-06-19 09:28
Normal topic Rosetta CM - Ignore Sporadic Errors
by Swillard » Wed, 2018-06-13 05:47
6
111 by rmoretti
Fri, 2018-06-15 07:12
Normal topic Cannot use SimpleMetrics
by Vedasheersh » Sun, 2018-06-10 23:38
5
119 by smlewis
Tue, 2018-06-12 10:54
Normal topic Fragments for short peptides using Robetta
by renedominik » Wed, 2018-05-16 14:21
3
160 by renedominik
Mon, 2018-06-04 00:04
Normal topic "caught exception" for PDB with membrane "DUM" residues
by nitroamos » Wed, 2018-05-30 08:35
1
80 by smlewis
Wed, 2018-05-30 11:15
Normal topic solution of the length of peptide candidates is larger than substrate with FlexPepDock and Flexpepbind
by ziqi1234 » Thu, 2018-05-24 02:18
0
86 by ziqi1234
Thu, 2018-05-24 02:18
Normal topic Problems with "pdb_renumber.py" in tutorial Advanced Protein-Protein Docking
by Sunyp_IM » Sun, 2017-06-25 02:40
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1,096 by ac.research
Mon, 2018-05-14 10:20
Normal topic RosettaDesign improvements
by ac.research » Mon, 2018-05-14 08:27
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78 by ac.research
Mon, 2018-05-14 08:27
Normal topic Mutate multidomain protein
by frankfurter1 » Wed, 2018-05-09 04:40
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80 by frankfurter1
Wed, 2018-05-09 04:40
Normal topic Denovo density excess map input and segmentation
by ahmadkhalifa » Mon, 2018-04-30 07:28
0
77 by ahmadkhalifa
Fri, 2018-05-04 07:50
Normal topic restrict PackRotamersMover
by pmit » Thu, 2018-05-03 01:48
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70 by pmit
Thu, 2018-05-03 01:48
Normal topic Question about CartesianMD
by orionshih » Sun, 2018-04-29 21:07
2
105 by orionshih
Tue, 2018-05-01 21:16
Normal topic Structure refinement guided by Cryo-EM density maps
by ahmadkhalifa » Thu, 2018-03-08 08:22
7
420 by ahmadkhalifa
Tue, 2018-05-01 09:04
Normal topic Issue with Loop Analyzer Mover ouput
by abhi_pe_acharya » Mon, 2018-04-30 09:55
2
95 by abhi_pe_acharya
Mon, 2018-04-30 22:54
Normal topic Denovo density corrupted silent file
by ahmadkhalifa » Mon, 2018-04-23 07:30
4
162 by ahmadkhalifa
Thu, 2018-04-26 09:11
Normal topic The concept of unsatisfied hydrogen bond
by asbelx » Wed, 2018-04-25 01:32
2
105 by asbelx
Thu, 2018-04-26 00:23
Normal topic Encouraging better packing in enzyme_design
by linucks » Thu, 2018-03-01 07:05
5
431 by linucks
Wed, 2018-04-25 08:50
Normal topic Molfile to Params File Issue
by jferrie » Mon, 2018-04-23 15:25
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76 by jferrie
Mon, 2018-04-23 15:25
Normal topic Error running GenericMonteCarlo mover within MultipleOutputWrapper mover
by abhi_pe_acharya » Mon, 2018-04-16 04:58
1
131 by abhi_pe_acharya
Thu, 2018-04-19 03:49
Normal topic Refinement of a PDB structure containing multiple models
by ahmadkhalifa » Wed, 2018-04-18 07:44
3
149 by smlewis
Wed, 2018-04-18 19:03
Normal topic FARFAR and RNA_Tools: problem executing the command helix_preassemble_setup.py
by obdulia » Wed, 2018-04-18 00:45
0
67 by obdulia
Wed, 2018-04-18 00:45
Normal topic Segmentation fault (core dumped) denovo_density.linuxgccrelease
by ahmadkhalifa » Sun, 2018-04-15 17:52
1
100 by smlewis
Mon, 2018-04-16 16:32
Normal topic Modeling transmembrane and intracellular domain
by Sunyp_IM » Sun, 2018-04-08 06:44
1
124 by jkleman
Sat, 2018-04-14 10:55
Normal topic segmentation fault when using design_hpatch scoring function
by rbjacob » Mon, 2018-04-09 11:05
5
204 by smlewis
Wed, 2018-04-11 11:45
Normal topic Multiprocessing and running jobs on server using slurm
by ahmadkhalifa » Mon, 2018-04-09 10:59
1
209 by rmoretti
Tue, 2018-04-10 16:00
Normal topic Abinitio isolated
by ac.research » Wed, 2018-04-04 07:36
3
156 by smlewis
Wed, 2018-04-04 10:42
Normal topic build local user guide
by coomteng@gmail.com » Wed, 2018-03-28 13:55
3
166 by coomteng@gmail.com
Wed, 2018-03-28 14:58
Normal topic Secondary Structure Relax
by ac.research » Sat, 2018-03-17 10:50
5
292 by smlewis
Wed, 2018-03-21 08:42
Normal topic Running a ReportFSC mover between two .mrc maps
by ahmadkhalifa » Mon, 2018-03-12 07:52
9
430 by brandon.frenz
Tue, 2018-03-20 10:28
Normal topic Calling a Rosetta xml script in a Python script gives fail to validate error
by ahmadkhalifa » Tue, 2018-03-06 08:00
3
203 by rmoretti
Mon, 2018-03-19 12:35
Normal topic hbnet
by mintseris » Mon, 2018-03-19 09:02
1
110 by rmoretti
Mon, 2018-03-19 09:08
Normal topic The algorithm of adding missing Hydrogen to a backbone
by ac.research » Tue, 2018-03-06 03:48
1
124 by rmoretti
Sat, 2018-03-17 10:43
Normal topic Rosetta matching error
by purvi24 » Mon, 2018-03-12 02:38
1
129 by smlewis
Mon, 2018-03-12 09:57
Normal topic ERROR: Assertion Fdensity.u2 and Fdensity.u3 failed
by ahmadkhalifa » Wed, 2017-12-06 07:38
13
770 by brandon.frenz
Thu, 2018-03-08 09:28
Normal topic demos/public/ideal_proteins Segmentation fault
by coomteng@gmail.com » Wed, 2018-03-07 00:15
5
265 by rmoretti
Thu, 2018-03-08 07:46
Normal topic Rosetta relax application for generating ensemble of structures.
by abhi_pe_acharya » Mon, 2018-02-26 09:08
3
236 by ssrb
Tue, 2018-03-06 14:15
Normal topic RestrictToRepackingRLT and PreventRepackingRLT
by coomteng@gmail.com » Mon, 2018-03-05 11:19
2
142 by coomteng@gmail.com
Tue, 2018-03-06 02:31
Normal topic Molecular oxygen
by matteoferla » Sat, 2018-02-24 06:05
3
245 by matteoferla
Mon, 2018-02-26 02:05
Normal topic Unrecognised resiudues when rescoring PDB files generated by enzyme_design under MPI
by linucks » Tue, 2018-02-13 03:41
4
299 by linucks
Fri, 2018-02-23 08:08
Normal topic How to specify a specific rotamer
by Lior_UCSF » Wed, 2018-02-21 20:35
1
136 by rmoretti
Thu, 2018-02-22 09:29
Normal topic Denovo density didn't output a structure
by ahmadkhalifa » Mon, 2018-02-12 08:10
2
231 by ahmadkhalifa
Fri, 2018-02-16 09:17
Normal topic log files
by shadrinams » Fri, 2018-01-26 07:29
7
455 by shadrinams
Mon, 2018-02-12 11:47
Normal topic Icouldnot find DDMI protocol for design protein
by ladimafakher » Mon, 2018-02-12 09:22
1
121 by rmoretti
Mon, 2018-02-12 09:39
Normal topic Repeating sequence in Rosetta de novo protein folding
by orionshih » Wed, 2018-02-07 20:52
2
189 by sheehajh
Thu, 2018-02-08 21:18
Normal topic Calculate ddG in mutation scan of a homodimer
by zachdebruine » Thu, 2018-02-01 10:02
1
179 by rmoretti
Mon, 2018-02-05 15:44
Normal topic Using NCAAs in protocols with native heme proteins
by htorres » Wed, 2018-01-24 08:32
2
214 by htorres
Mon, 2018-02-05 06:53
Normal topic ERROR: FragmentIO: could not open file
by ahmadkhalifa » Wed, 2018-01-31 13:30
1
144 by rmoretti
Wed, 2018-01-31 14:57
Normal topic Structure refinement with RDC constraint
by shushunur » Thu, 2018-01-18 00:44
1
339 by rmoretti
Tue, 2018-01-30 09:08
Normal topic [dev] quickest way to determine bond distance between polymeric-bonded residues in Pose/Conformation
by ipetrik_ambry » Thu, 2018-01-18 12:26
1
189 by rmoretti
Tue, 2018-01-30 08:29
Normal topic changing the chain id
by aneamtu » Tue, 2018-01-09 00:08
2
289 by aneamtu
Thu, 2018-01-18 00:56
Normal topic Histidine protonation
by DmitriiN » Mon, 2016-09-26 13:15
11
4,734 by rmoretti
Mon, 2018-01-15 15:37
Normal topic The question about  protonation of Rosetta
by asbelx » Tue, 2017-12-19 05:44
3
356 by rmoretti
Mon, 2018-01-15 15:34
Normal topic RosettaCM rename or swap the order of sequences in your alignment file
by ahmadkhalifa » Fri, 2017-12-22 08:42
4
359 by rmoretti
Mon, 2018-01-15 15:24
Normal topic Expanding the silent file
by jharamesh » Fri, 2018-01-12 09:15
2
176 by rmoretti
Mon, 2018-01-15 14:35
Normal topic Can I thread a two chained structure in RosettaCM?
by ahmadkhalifa » Mon, 2018-01-08 09:41
2
195 by rmoretti
Mon, 2018-01-15 14:23
Normal topic H3 modelling scoring function
by aneamtu » Wed, 2017-12-27 23:10
2
212 by aneamtu
Mon, 2018-01-08 23:49
Normal topic Converting charmm parameter files (.par)
by ajasja » Mon, 2014-09-29 07:19
3
1,251 by jcminerlanl
Tue, 2017-12-19 14:03
Normal topic error for the pose reading:TRP:NtermProteinFull:triazolamerC missing: C1
by wyb » Fri, 2017-12-01 17:50
3
297 by rmoretti
Sat, 2017-12-16 12:19
Normal topic Problems with disulphide bonds during KIC
by Loki01 » Tue, 2017-11-28 03:11
5
419 by Loki01
Thu, 2017-12-14 06:20
Normal topic What is the expected behaviour when minimizing a jump edge?
by bio_james » Wed, 2017-12-13 09:13
0
135 by bio_james
Wed, 2017-12-13 09:13
Normal topic Can I use next generation KIC with fragments?
by Loki01 » Thu, 2017-12-07 06:19
1
204 by Loki01
Wed, 2017-12-13 05:27
Normal topic lDDT: local Distance Difference Test implemented?
by ipetrik_ambry » Wed, 2017-12-06 13:11
0
134 by ipetrik_ambry
Wed, 2017-12-06 13:11
Normal topic Fitting a structure with an unrecognized residue to an EM density
by ahmadkhalifa » Tue, 2017-12-05 14:44
2
228 by ahmadkhalifa
Wed, 2017-12-06 12:30
Normal topic fastdesign with constraints in RosettaScripts
by staciekim » Wed, 2017-11-29 13:33
1
222 by rmoretti
Sat, 2017-12-02 10:22
Normal topic score_jd2.macosclangrelease No such file or directory
by ahmadkhalifa » Mon, 2017-11-27 09:26
3
351 by everyday847
Tue, 2017-11-28 13:07
Normal topic Method to keep ATP in the certain position in the prepack step
by ziqi1234 » Tue, 2017-11-21 05:55
0
151 by ziqi1234
Tue, 2017-11-21 05:55
Normal topic Docking Local Refine Not Moving Input
by SenyorDrew » Sat, 2017-10-21 08:26
1
204 by SenyorDrew
Mon, 2017-11-20 13:27
Normal topic MET, MSE, and fMET Amino Acids
by ac.research » Sat, 2017-11-18 06:33
1
351 by smlewis
Sun, 2017-11-19 20:08
Normal topic How to extract antibody from a set of pdb file may may contain antigen?
by Sunyp_IM » Mon, 2017-11-13 17:11
1
188 by ac.research
Sat, 2017-11-18 06:54
Normal topic Design constraints on pairs of residues
by SenyorDrew » Mon, 2017-10-02 07:25
3
493 by SenyorDrew
Mon, 2017-11-13 11:44
Normal topic keep ATP in the kinase-peptide structure while docking
by ziqi1234 » Fri, 2017-11-10 04:04
0
165 by ziqi1234
Fri, 2017-11-10 04:04
Normal topic How to make a resfile
by dflaher » Fri, 2017-11-03 10:26
3
349 by smlewis
Wed, 2017-11-08 12:08
Normal topic Rosetta/PyRosetta on GPU
by ac.research » Mon, 2017-11-06 05:18
1
341 by rmoretti
Mon, 2017-11-06 07:36
Normal topic Error running RosettaAntibodyDesign application
by SenyorDrew » Mon, 2017-10-30 08:13
1
217 by jadolfbr
Wed, 2017-11-01 10:11
Normal topic [dev] examples for implementing setup_for_packing, prepare_rotamers_for_packing?
by ipetrik_ambry » Mon, 2017-10-30 17:03
0
158 by ipetrik_ambry
Mon, 2017-10-30 17:03
Normal topic [dev] determine which score_type's enabled in create_energy_method?
by ipetrik_ambry » Fri, 2017-10-27 15:37
3
329 by rmoretti
Mon, 2017-10-30 12:02
Normal topic Comparative Modeling Tutorial Script not working
by Srinivas23 » Thu, 2017-09-21 12:00
4
474 by Srinivas23
Tue, 2017-10-24 10:58
Normal topic This element is not expected.
by ac.research » Fri, 2017-10-13 03:47
2
535 by rmoretti
Mon, 2017-10-16 12:17
Normal topic Helical symmetry for cryo-EM refinement
by fmerino » Mon, 2017-10-16 04:02
0
235 by fmerino
Mon, 2017-10-16 04:02
Normal topic Abinitio Video
by ac.research » Tue, 2017-09-12 04:00
3
430 by ac.research
Sun, 2017-09-24 11:25
Normal topic Produces a set of rotamers from a given residue
by a-eatemadi@razi... » Tue, 2017-08-15 08:05
5
739 by a-eatemadi@razi...
Fri, 2017-09-15 07:45
Normal topic extract pdbs segmentation fault
by Swillard » Fri, 2017-09-08 07:20
1
261 by rmoretti
Fri, 2017-09-08 15:15
Normal topic Ineffective Constraints
by Sandy » Tue, 2017-09-05 19:36
1
270 by smlewis
Fri, 2017-09-08 11:05
Normal topic Docking individual residue ussing RosettaDock
by a-eatemadi@razi... » Wed, 2017-09-06 05:50
1
245 by rmoretti
Wed, 2017-09-06 08:47
Normal topic The vall.jul19.2011.gz Database
by ac.research » Fri, 2017-09-01 02:29
4
652 by ac.research
Mon, 2017-09-04 16:43

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