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Rosetta 3 - General

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:16
0
5,064 by admin
Fri, 2015-09-04 16:17
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
13 by rmoretti
Wed, 2019-09-18 10:49
Normal topic protein surface design
by tatsiana.bylund » Sun, 2019-09-15 03:44
1
17 by vmulligan
Tue, 2019-09-17 13:08
Normal topic Ligand question - aromatic bonds not being enforced?
by Rick_Baker » Wed, 2019-09-11 09:08
1
50 by Rick_Baker
Wed, 2019-09-11 15:35
Normal topic AbinitioRelax of RCSB PDB structures
by ac.research » Tue, 2019-09-03 02:35
1
58 by danpf
Tue, 2019-09-03 10:39
Normal topic Fixing certain residues during refinement
by ckdenist » Thu, 2019-08-29 14:00
1
58 by jadolfbr
Thu, 2019-08-29 14:29
Normal topic Disulfidize mover
by karenjgonzalez » Wed, 2019-07-31 12:35
0
65 by karenjgonzalez
Wed, 2019-07-31 12:35
Normal topic MakeRotLib
by yinasun » Sun, 2019-07-28 20:08
1
67 by rmoretti
Mon, 2019-08-26 15:00
Normal topic IS there any source code about protein structure prediction with only sequences information?
by ylwang » Mon, 2019-07-08 02:36
1
68 by rmoretti
Mon, 2019-07-08 08:05
Normal topic MakeRotLib
by yinasun » Fri, 2019-07-26 02:17
0
69 by yinasun
Fri, 2019-07-26 02:17
Closed topic MakeRotLib
by yinasun » Fri, 2019-07-26 02:20
1
70 by rmoretti
Mon, 2019-08-26 15:01
Normal topic Flag to not use PDB ligands
by matteoferla » Wed, 2019-08-21 10:14
2
78 by matteoferla
Wed, 2019-08-21 11:58
Normal topic Error in Loop Modeling
by sayan500 » Tue, 2019-07-30 22:20
0
80 by sayan500
Tue, 2019-07-30 22:20
Normal topic Unable to create col_complex.pdb file
by sayan500 » Tue, 2019-07-30 22:08
1
80 by rmoretti
Mon, 2019-08-26 14:52
Normal topic MakeRotLib
by yinasun » Fri, 2019-07-26 02:18
1
86 by vmulligan
Fri, 2019-07-26 15:00
Normal topic Design with non-canonical amino acids (NCAA)
by yinasun » Mon, 2019-08-05 00:34
2
91 by matteoferla
Thu, 2019-08-22 05:39
Normal topic Ab initio structure prediction for long amino acid sequence
by maruhuang » Fri, 2019-08-02 03:38
3
92 by rmoretti
Tue, 2019-09-10 14:17
Normal topic Where to find old version of Rosetta with git version number
by mao_x » Wed, 2019-08-07 01:22
2
102 by mao_x
Thu, 2019-08-08 01:37
Normal topic problem parsing a THR residue
by decrSTL » Wed, 2019-08-21 12:25
4
112 by decrSTL
Tue, 2019-08-27 10:24
Normal topic RosettaDesign
by ac.research » Sun, 2019-07-21 01:20
2
116 by ac.research
Sat, 2019-08-03 08:12
Normal topic File specification of binary part of silent file (especially PDB section)
by m.ebert » Wed, 2019-05-29 01:52
1
120 by smlewis
Wed, 2019-05-29 13:21
Normal topic How to determine the value size in block of *.cst files?
by weifulei » Sun, 2019-05-05 19:56
1
131 by rmoretti
Tue, 2019-07-09 15:59
Normal topic Mutations are ignored (fixbb) when using -auto_setup_metals option
by hdelrisco » Wed, 2019-06-19 15:43
1
134 by smlewis
Fri, 2019-06-28 13:56
Normal topic How to determine the value size in block of *.cst files?
by weifulei » Sun, 2019-05-05 19:56
1
139 by rmoretti
Tue, 2019-07-09 15:48
Normal topic How to use the <CavityVolume> filter in the released version of Rosetta
by BioPython » Sun, 2019-05-12 20:07
0
144 by BioPython
Sun, 2019-05-12 20:07
Normal topic Error with simple_cycpep_predict protocol while using a native pdb file
by Florent Langenfeld » Tue, 2019-03-26 10:05
1
146 by vmulligan
Tue, 2019-03-26 11:23
Normal topic Searching density map using real space correlation
by ahmadkhalifa » Fri, 2018-12-28 00:28
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158 by ahmadkhalifa
Fri, 2018-12-28 00:28
Normal topic intrensic disrodered proteins
by ac.research » Thu, 2019-04-04 07:20
1
158 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
162 by rmoretti
Sat, 2019-03-30 12:10
Normal topic alignblast.pl truncated file
by rlwoltz » Mon, 2019-03-11 18:32
0
164 by rlwoltz
Mon, 2019-03-11 18:32
Normal topic Rosetta params for taxol
by ahmadkhalifa » Sat, 2019-03-30 22:37
1
165 by rmoretti
Wed, 2019-04-03 10:03
Normal topic Multi-state design with the error "unable to locate database file"
by yifeili1983 » Sun, 2019-03-31 18:30
1
166 by rmoretti
Wed, 2019-04-03 09:31
Normal topic Rosetta job distribution error
by ss » Thu, 2019-08-01 09:26
7
166 by rmoretti
Mon, 2019-08-26 14:11
Normal topic problems with implementing NOE constraints
by connyyu » Thu, 2019-04-11 12:37
1
169 by connyyu
Thu, 2019-04-18 03:26
Normal topic LHOC script problem in Rosetta Antibody
by ziheng@mit.edu » Thu, 2019-04-25 14:19
1
178 by ziheng@mit.edu
Thu, 2019-04-25 14:31
Normal topic How to define a theozyme from the .pdb crystal structure without ligand?
by weifulei » Mon, 2019-05-20 21:18
1
183 by rmoretti
Tue, 2019-07-09 12:31
Normal topic The question about FavorNativeResidue
by asbelx » Fri, 2019-04-12 20:02
1
183 by rmoretti
Tue, 2019-07-09 15:57
Normal topic How to define the surface (???.surf) for surface_docking?
by Anpu » Thu, 2018-09-27 07:34
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190 by Anpu
Thu, 2018-09-27 23:36
Normal topic InterfaceAnalyzer total score = 0.000
by vmc99 » Wed, 2019-06-12 14:06
3
190 by jadolfbr
Wed, 2019-06-12 20:17
Normal topic Rosetta Antibody cuts off light chain?
by ziheng@mit.edu » Thu, 2019-05-02 15:17
1
197 by jeliazkov
Fri, 2019-05-03 07:00
Normal topic How to specify residue numbers in a resfile for a batch of pdbs, while some of them have missing residue numbers?
by johnnytam100 » Wed, 2019-05-08 02:30
2
203 by johnnytam100
Wed, 2019-05-15 18:45
Normal topic Relax output mmCIF file to a particular path
by AJVincelli » Sun, 2018-11-25 11:04
1
209 by AJVincelli
Sun, 2018-11-25 11:09
Normal topic crashed when loading RDC data
by yangshen12 » Fri, 2018-10-26 12:34
0
222 by yangshen12
Fri, 2018-10-26 12:34
Normal topic Errors in Interface_design_demo
by zhoubin » Fri, 2019-01-04 13:14
0
224 by zhoubin
Fri, 2019-01-04 13:14
Normal topic Constraints use in RosettaCM
by a.book » Wed, 2018-10-03 12:11
0
225 by a.book
Wed, 2018-10-03 15:56
Normal topic Misleading error message
by renedominik » Tue, 2019-03-12 01:19
1
226 by vmulligan
Tue, 2019-03-26 11:30
Normal topic MSDMover error in RECON protocol
by yifeili1983 » Mon, 2019-04-01 00:44
2
230 by yifeili1983
Mon, 2019-04-15 22:34
Normal topic perturb_temp flag
by Loki01 » Tue, 2018-11-27 05:06
2
232 by rmoretti
Wed, 2019-04-03 09:58
Normal topic incomparable ddG values
by ela » Fri, 2018-08-31 02:53
0
236 by ela
Fri, 2018-08-31 02:53
Normal topic env energy term
by bazzoli » Wed, 2018-10-10 01:59
0
239 by bazzoli
Wed, 2018-10-10 01:59
Normal topic Ab Initio large threshold for clustering
by Swillard » Mon, 2018-11-12 14:14
1
243 by rmoretti
Wed, 2018-11-21 14:01
Normal topic Hydrogen bond detection and shape complementarity
by sujigeorge1979 » Fri, 2019-06-14 02:39
3
243 by sujigeorge1979
Thu, 2019-06-27 01:30
Normal topic restrict PackRotamersMover
by pmit » Thu, 2018-05-03 01:48
0
249 by pmit
Thu, 2018-05-03 01:48
Normal topic Denovo density excess map input and segmentation
by ahmadkhalifa » Mon, 2018-04-30 07:28
0
249 by ahmadkhalifa
Fri, 2018-05-04 07:50
Normal topic RosettaDesign improvements
by ac.research » Mon, 2018-05-14 08:27
0
251 by ac.research
Mon, 2018-05-14 08:27
Normal topic Params file for Methane
by dasdevashishdas » Sun, 2018-10-07 21:34
1
260 by rmoretti
Mon, 2018-10-08 11:20
Normal topic FARFAR and RNA_Tools: problem executing the command helix_preassemble_setup.py
by obdulia » Wed, 2018-04-18 00:45
0
261 by obdulia
Wed, 2018-04-18 00:45
Normal topic Mutate multidomain protein
by frankfurter1 » Wed, 2018-05-09 04:40
0
269 by frankfurter1
Wed, 2018-05-09 04:40
Normal topic Rosetta script to relax a neighborhood only
by matteoferla » Mon, 2018-10-29 03:34
1
274 by jadolfbr
Fri, 2018-11-09 09:17
Normal topic Calibur not listing cluster members
by Swillard » Sun, 2018-07-01 13:07
0
275 by Swillard
Sun, 2018-07-01 13:07
Normal topic Add hemes to cytochrome structures
by BuddySphinx » Sun, 2018-12-16 13:46
2
278 by rmoretti
Fri, 2019-03-29 14:43
Normal topic Error in enzyme_design.default.linuxgccrelease: corrupted size vs. prev_size
by dasdevashishdas » Fri, 2018-10-12 00:55
0
279 by dasdevashishdas
Fri, 2018-10-12 00:55
Normal topic RosettaMatch Problem
by David » Tue, 2019-01-22 12:23
0
281 by David
Tue, 2019-01-22 12:23
Normal topic De novo density assembly weights don't add up to a 100
by ahmadkhalifa » Fri, 2018-08-03 12:07
1
283 by rmoretti
Fri, 2018-08-03 12:37
Normal topic Consistent XYZvector length() zero failure in EnzDes
by mwfranklin » Thu, 2018-11-01 12:44
1
286 by rmoretti
Wed, 2018-11-21 14:14
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
289 by ziqi1234
Thu, 2018-05-24 02:18
Normal topic What is the expected behaviour when minimizing a jump edge?
by bio_james » Wed, 2017-12-13 09:13
0
295 by bio_james
Wed, 2017-12-13 09:13
Normal topic make_fragments.pl
by rlwoltz » Fri, 2019-02-01 10:31
0
298 by rlwoltz
Fri, 2019-02-01 10:31
Normal topic Question about FlexPepDock score
by aelatico » Thu, 2018-07-19 20:39
1
300 by rmoretti
Wed, 2018-08-01 16:04
Normal topic lDDT: local Distance Difference Test implemented?
by ipetrik_ambry » Wed, 2017-12-06 13:11
0
307 by ipetrik_ambry
Wed, 2017-12-06 13:11
Normal topic DockingProtocol mover ensemble error
by dfcoelho » Tue, 2018-10-16 08:32
1
311 by dfcoelho
Tue, 2018-10-16 08:35
Normal topic [dev] examples for implementing setup_for_packing, prepare_rotamers_for_packing?
by ipetrik_ambry » Mon, 2017-10-30 17:03
0
314 by ipetrik_ambry
Mon, 2017-10-30 17:03
Normal topic Questions regarding fragmentation using Robetta
by ahmadkhalifa » Thu, 2018-06-28 13:24
1
315 by smlewis
Thu, 2018-06-28 13:34
Normal topic Method to keep ATP in the certain position in the prepack step
by ziqi1234 » Tue, 2017-11-21 05:55
0
319 by ziqi1234
Tue, 2017-11-21 05:55
Normal topic keep ATP in the kinase-peptide structure while docking
by ziqi1234 » Fri, 2017-11-10 04:04
0
321 by ziqi1234
Fri, 2017-11-10 04:04
Normal topic Molfile to Params File Issue
by jferrie » Mon, 2018-04-23 15:25
0
336 by jferrie
Mon, 2018-04-23 15:25
Normal topic Clarify ProteinInterfaceDesign “randomness”
by tsztain » Wed, 2019-02-27 09:41
3
337 by rmoretti
Sat, 2019-03-30 12:12
Normal topic Memory leak when PDB preparation
by Jacky010 » Mon, 2019-05-06 01:28
6
347 by Jacky010
Tue, 2019-05-14 01:24
Normal topic ab initio struction prediction
by Negarsardar » Mon, 2018-08-06 15:50
1
347 by smlewis
Tue, 2018-08-07 16:59
Normal topic Icouldnot find DDMI protocol for design protein
by ladimafakher » Mon, 2018-02-12 09:22
1
349 by rmoretti
Mon, 2018-02-12 09:39
Normal topic Amino acid post-translational modifications
by aelatico » Tue, 2018-06-19 03:29
1
360 by smlewis
Tue, 2018-06-19 10:31
Normal topic How did you begin to learn Rosetta?
by mdeklotz » Mon, 2018-07-30 10:08
1
364 by jkleman
Tue, 2018-07-31 13:19
Normal topic How to minimize only a few key residues' orientation
by Ronghai Cheng » Mon, 2018-11-05 18:37
2
370 by Ronghai Cheng
Tue, 2018-11-13 21:56
Normal topic hbnet
by mintseris » Mon, 2018-03-19 09:02
1
372 by rmoretti
Mon, 2018-03-19 09:08
Normal topic Docking a ligand to two movable domains of a protein
by brspurri » Wed, 2018-05-16 08:27
1
378 by rmoretti
Thu, 2018-06-28 14:22
Normal topic known disulfides in Remodel sequence
by matteoferla » Mon, 2018-09-10 06:43
1
378 by matteoferla
Thu, 2018-09-13 06:21
Normal topic protocols.jd2.JobDistributor: [ ERROR ]
by johnnytam100 » Thu, 2019-04-11 09:30
5
382 by jadolfbr
Tue, 2019-04-16 09:15
Normal topic Rosetta structure refinement alters bound ligand
by ahmadkhalifa » Mon, 2018-07-23 07:49
1
386 by rmoretti
Fri, 2018-08-03 08:59
Normal topic How to specify a specific rotamer
by Lior_UCSF » Wed, 2018-02-21 20:35
1
397 by rmoretti
Thu, 2018-02-22 09:29
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
402 by ac.research
Sat, 2017-11-18 06:54
Normal topic recommended function type for cross links data
by meravb » Sun, 2018-08-05 06:57
2
403 by rmoretti
Mon, 2018-08-20 11:51
Normal topic Is it better to have smaller nstruct but many runs?
by Loki01 » Mon, 2018-11-19 11:50
3
412 by smlewis
Mon, 2018-11-19 13:20
Normal topic Question about CartesianMD
by orionshih » Sun, 2018-04-29 21:07
2
428 by orionshih
Tue, 2018-05-01 21:16
Normal topic ERROR: FragmentIO: could not open file
by ahmadkhalifa » Wed, 2018-01-31 13:30
1
430 by rmoretti
Wed, 2018-01-31 14:57
Normal topic Reading chloride anions
by Martin Floor » Mon, 2018-08-27 14:29
2
436 by Martin Floor
Tue, 2018-08-28 13:21
Normal topic Error using FilterScan with rosettascripts
by SenyorDrew » Tue, 2016-12-13 14:29
0
439 by SenyorDrew
Tue, 2016-12-13 14:29
Normal topic Undocumented changes in BackrubDD
by abhi_pe_acharya » Mon, 2018-07-16 00:24
2
440 by abhi_pe_acharya
Sun, 2018-08-05 22:03
Normal topic Modeling transmembrane and intracellular domain
by Sunyp_IM » Sun, 2018-04-08 06:44
1
444 by jkleman
Sat, 2018-04-14 10:55
Normal topic Issue with Loop Analyzer Mover ouput
by abhi_pe_acharya » Mon, 2018-04-30 09:55
2
445 by abhi_pe_acharya
Mon, 2018-04-30 22:54
Normal topic Expanding the silent file
by jharamesh » Fri, 2018-01-12 09:15
2
447 by rmoretti
Mon, 2018-01-15 14:35

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