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Rosetta 3 - General

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Sticky topic Sticky: FAQ
by admin » Mon, 2010-08-30 04:16
0
4,974 by admin
Fri, 2015-09-04 16:17
Normal topic How to define a theozyme from the .pdb crystal structure without ligand?
by weifulei » Mon, 2019-05-20 21:18
0
25 by weifulei
Mon, 2019-05-20 21:18
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
65 by johnnytam100
Wed, 2019-05-15 18:45
Normal topic how to design binding interface?
by Lindsay » Mon, 2013-12-02 19:06
7
5,001 by Negarsardar
Wed, 2019-05-15 13:18
Normal topic Memory leak when PDB preparation
by Jacky010 » Mon, 2019-05-06 01:28
6
93 by Jacky010
Tue, 2019-05-14 01:24
Normal topic How to use the <CavityVolume> filter in the released version of Rosetta
by BioPython » Sun, 2019-05-12 20:07
0
44 by BioPython
Sun, 2019-05-12 20:07
Normal topic How to determine the value size in block of *.cst files?
by weifulei » Sun, 2019-05-05 19:56
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40 by weifulei
Sun, 2019-05-05 19:56
Normal topic How to determine the value size in block of *.cst files?
by weifulei » Sun, 2019-05-05 19:56
0
40 by weifulei
Sun, 2019-05-05 19:56
Normal topic Rosetta Antibody cuts off light chain?
by ziheng@mit.edu » Thu, 2019-05-02 15:17
1
66 by jeliazkov
Fri, 2019-05-03 07:00
Normal topic LHOC script problem in Rosetta Antibody
by ziheng@mit.edu » Thu, 2019-04-25 14:19
1
60 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
71 by connyyu
Thu, 2019-04-18 03:26
Normal topic protocols.jd2.JobDistributor: [ ERROR ]
by johnnytam100 » Thu, 2019-04-11 09:30
5
138 by jadolfbr
Tue, 2019-04-16 09:15
Normal topic MSDMover error in RECON protocol
by yifeili1983 » Mon, 2019-04-01 00:44
2
98 by yifeili1983
Mon, 2019-04-15 22:34
Normal topic The question about FavorNativeResidue
by asbelx » Fri, 2019-04-12 20:02
0
77 by asbelx
Sat, 2019-04-13 01:13
Normal topic intrensic disrodered proteins
by ac.research » Thu, 2019-04-04 07:20
1
76 by vmulligan
Mon, 2019-04-08 14:49
Normal topic Rosetta params for taxol
by ahmadkhalifa » Sat, 2019-03-30 22:37
1
73 by rmoretti
Wed, 2019-04-03 10:03
Normal topic perturb_temp flag
by Loki01 » Tue, 2018-11-27 05:06
2
126 by rmoretti
Wed, 2019-04-03 09:58
Normal topic Multi-state design with the error "unable to locate database file"
by yifeili1983 » Sun, 2019-03-31 18:30
1
66 by rmoretti
Wed, 2019-04-03 09:31
Normal topic Clarify ProteinInterfaceDesign “randomness”
by tsztain » Wed, 2019-02-27 09:41
3
162 by rmoretti
Sat, 2019-03-30 12:12
Normal topic Denovo prediction from multiple fragment lengths
by ahmadkhalifa » Sun, 2019-03-24 03:55
1
68 by rmoretti
Sat, 2019-03-30 12:10
Normal topic Add hemes to cytochrome structures
by BuddySphinx » Sun, 2018-12-16 13:46
2
153 by rmoretti
Fri, 2019-03-29 14:43
Normal topic Misleading error message
by renedominik » Tue, 2019-03-12 01:19
1
111 by vmulligan
Tue, 2019-03-26 11:30
Normal topic Error with simple_cycpep_predict protocol while using a native pdb file
by Florent Langenfeld » Tue, 2019-03-26 10:05
1
57 by vmulligan
Tue, 2019-03-26 11:23
Normal topic alignblast.pl truncated file
by rlwoltz » Mon, 2019-03-11 18:32
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78 by rlwoltz
Mon, 2019-03-11 18:32
Hot topic protein design question
by bo » Fri, 2012-08-24 10:41
33
14,242 by jyy
Wed, 2019-02-20 00:30
Normal topic make_fragments.pl
by rlwoltz » Fri, 2019-02-01 10:31
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174 by rlwoltz
Fri, 2019-02-01 10:31
Normal topic Error when using RabD with a nanobody.
by zhangying1990 » Mon, 2018-12-17 04:40
5
373 by jadolfbr
Mon, 2019-01-28 08:46
Normal topic RosettaMatch Problem
by David » Tue, 2019-01-22 12:23
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161 by David
Tue, 2019-01-22 12:23
Normal topic Errors in Interface_design_demo
by zhoubin » Fri, 2019-01-04 13:14
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157 by zhoubin
Fri, 2019-01-04 13:14
Normal topic protein ligand docking
by patrickchirdon » Sun, 2018-12-30 15:07
4
287 by smlewis
Mon, 2018-12-31 08:58
Normal topic Searching density map using real space correlation
by ahmadkhalifa » Fri, 2018-12-28 00:28
0
108 by ahmadkhalifa
Fri, 2018-12-28 00:28
Normal topic InterfaceAnalyzer packstat score = 0.000
by vmc99 » Fri, 2018-11-16 11:30
11
644 by SenyorDrew
Tue, 2018-12-11 06:04
Normal topic Relax output mmCIF file to a particular path
by AJVincelli » Sun, 2018-11-25 11:04
1
131 by AJVincelli
Sun, 2018-11-25 11:09
Normal topic Consistent XYZvector length() zero failure in EnzDes
by mwfranklin » Thu, 2018-11-01 12:44
1
177 by rmoretti
Wed, 2018-11-21 14:14
Normal topic Iterative local rebuilding vs automated structure refinement
by ahmadkhalifa » Fri, 2018-09-14 07:44
4
446 by rmoretti
Wed, 2018-11-21 14:11
Normal topic Ab Initio large threshold for clustering
by Swillard » Mon, 2018-11-12 14:14
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150 by rmoretti
Wed, 2018-11-21 14:01
Normal topic Rosetta lack of necessary application
by ylwang » Wed, 2018-11-07 01:13
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314 by rmoretti
Wed, 2018-11-21 13:50
Normal topic Is it better to have smaller nstruct but many runs?
by Loki01 » Mon, 2018-11-19 11:50
3
257 by smlewis
Mon, 2018-11-19 13:20
Normal topic Denovo density didn't output a structure
by ahmadkhalifa » Mon, 2018-02-12 08:10
3
553 by ylwang
Wed, 2018-11-14 03:03
Normal topic How to minimize only a few key residues' orientation
by Ronghai Cheng » Mon, 2018-11-05 18:37
2
224 by Ronghai Cheng
Tue, 2018-11-13 21:56
Normal topic Rosetta CM - Ignore Sporadic Errors
by Swillard » Wed, 2018-06-13 05:47
6
661 by rmoretti
Mon, 2018-11-12 14:29
Normal topic Rosetta-based projects using and licensing
by SergeyP » Fri, 2018-10-26 15:45
3
354 by SergeyP
Mon, 2018-11-12 09:19
Normal topic Incorporating Rosetta Binary and Database to a Web Server Pipeline
by smkim » Fri, 2018-09-28 20:35
1
349 by rmoretti
Fri, 2018-11-09 12:22
Normal topic Rosetta script to relax a neighborhood only
by matteoferla » Mon, 2018-10-29 03:34
1
174 by jadolfbr
Fri, 2018-11-09 09:17
Normal topic crashed when loading RDC data
by yangshen12 » Fri, 2018-10-26 12:34
0
166 by yangshen12
Fri, 2018-10-26 12:34
Normal topic DockingProtocol mover ensemble error
by dfcoelho » Tue, 2018-10-16 08:32
1
205 by dfcoelho
Tue, 2018-10-16 08:35
Normal topic Error in enzyme_design.default.linuxgccrelease: corrupted size vs. prev_size
by dasdevashishdas » Fri, 2018-10-12 00:55
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203 by dasdevashishdas
Fri, 2018-10-12 00:55
Normal topic env energy term
by bazzoli » Wed, 2018-10-10 01:59
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185 by bazzoli
Wed, 2018-10-10 01:59
Normal topic Params file for Methane
by dasdevashishdas » Sun, 2018-10-07 21:34
1
175 by rmoretti
Mon, 2018-10-08 11:20
Normal topic Peripheral membrane protein modeling
by Fukiishi » Tue, 2018-10-02 02:09
3
324 by matteoferla
Thu, 2018-10-04 01:30
Normal topic Constraints use in RosettaCM
by a.book » Wed, 2018-10-03 12:11
0
162 by a.book
Wed, 2018-10-03 15:56
Normal topic How to define the surface (???.surf) for surface_docking?
by Anpu » Thu, 2018-09-27 07:34
0
142 by Anpu
Thu, 2018-09-27 23:36
Normal topic Is CST_Design required for enzdes protocol?
by dasdevashishdas » Mon, 2018-09-03 00:51
2
355 by dasdevashishdas
Thu, 2018-09-27 03:35
Normal topic Fluctuations in I_sc
by eminegenetics » Thu, 2018-09-13 12:07
4
385 by eminegenetics
Fri, 2018-09-21 07:42
Normal topic lysine-aspartate isopeptide bond
by matteoferla » Tue, 2016-11-01 10:54
11
3,285 by matteoferla
Tue, 2018-09-18 15:36
Normal topic known disulfides in Remodel sequence
by matteoferla » Mon, 2018-09-10 06:43
1
256 by matteoferla
Thu, 2018-09-13 06:21
Normal topic Docking tree issues
by salvatta » Tue, 2018-07-17 05:57
5
517 by salvatta
Mon, 2018-09-10 10:04
Normal topic incomparable ddG values
by ela » Fri, 2018-08-31 02:53
0
180 by ela
Fri, 2018-08-31 02:53
Normal topic RosettaCM density guided rebuilding methodology
by ahmadkhalifa » Thu, 2018-08-30 06:45
4
395 by ahmadkhalifa
Thu, 2018-08-30 23:09
Normal topic Reading chloride anions
by Martin Floor » Mon, 2018-08-27 14:29
2
292 by Martin Floor
Tue, 2018-08-28 13:21
Normal topic Rosetta CM incorrect threading
by ahmadkhalifa » Mon, 2018-08-06 11:09
6
639 by rmoretti
Fri, 2018-08-24 11:59
Normal topic Do Rosetta support hydroxide(OH-) and oxide(O2-) params?
by dasdevashishdas » Thu, 2018-08-16 21:15
2
356 by dasdevashishdas
Thu, 2018-08-23 18:02
Normal topic recommended function type for cross links data
by meravb » Sun, 2018-08-05 06:57
2
282 by rmoretti
Mon, 2018-08-20 11:51
Normal topic Atomic refinement with fixed ligand
by ahmadkhalifa » Tue, 2018-07-24 10:41
6
628 by rmoretti
Mon, 2018-08-20 11:45
Normal topic ddG = dGmutant ‐ dGwildtype
by ela » Thu, 2018-07-26 09:17
3
474 by ela
Thu, 2018-08-09 08:04
Normal topic ab initio struction prediction
by Negarsardar » Mon, 2018-08-06 15:50
1
254 by smlewis
Tue, 2018-08-07 16:59
Normal topic Undocumented changes in BackrubDD
by abhi_pe_acharya » Mon, 2018-07-16 00:24
2
323 by abhi_pe_acharya
Sun, 2018-08-05 22:03
Normal topic De novo density assembly weights don't add up to a 100
by ahmadkhalifa » Fri, 2018-08-03 12:07
1
202 by rmoretti
Fri, 2018-08-03 12:37
Normal topic rosettaScore.py has a typo, I think. Can I fix it in my own copy?
by mdeklotz » Thu, 2018-08-02 15:15
4
431 by rmoretti
Fri, 2018-08-03 11:39
Normal topic Rosetta structure refinement alters bound ligand
by ahmadkhalifa » Mon, 2018-07-23 07:49
1
279 by rmoretti
Fri, 2018-08-03 08:59
Normal topic Propagating the same mutation over "different" chains
by mdeklotz » Thu, 2018-07-26 09:27
3
333 by rmoretti
Fri, 2018-08-03 08:42
Normal topic Question about FlexPepDock score
by aelatico » Thu, 2018-07-19 20:39
1
215 by rmoretti
Wed, 2018-08-01 16:04
Normal topic How did you begin to learn Rosetta?
by mdeklotz » Mon, 2018-07-30 10:08
1
249 by jkleman
Tue, 2018-07-31 13:19
Normal topic Why I_sc of Rosetta 2016.02 and 2018.21 are so different?
by eminegenetics » Mon, 2018-07-16 12:51
2
362 by eminegenetics
Wed, 2018-07-18 13:48
Normal topic which make_fragments.pl
by renedominik » Mon, 2018-06-04 08:58
2
466 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
570 by smlewis
Tue, 2018-07-03 11:22
Normal topic Calibur not listing cluster members
by Swillard » Sun, 2018-07-01 13:07
0
218 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
394 by ahmadkhalifa
Fri, 2018-06-29 07:54
Normal topic Total Rama Score
by jcminerlanl » Thu, 2018-05-10 07:19
1
357 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
284 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
588 by rmoretti
Thu, 2018-06-28 14:09
Normal topic Questions regarding fragmentation using Robetta
by ahmadkhalifa » Thu, 2018-06-28 13:24
1
231 by smlewis
Thu, 2018-06-28 13:34
Normal topic Amino acid post-translational modifications
by aelatico » Tue, 2018-06-19 03:29
1
261 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
957 by smlewis
Tue, 2018-06-19 09:28
Normal topic Cannot use SimpleMetrics
by Vedasheersh » Sun, 2018-06-10 23:38
5
581 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
569 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
400 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
227 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
9
2,049 by ac.research
Mon, 2018-05-14 10:20
Normal topic RosettaDesign improvements
by ac.research » Mon, 2018-05-14 08:27
0
199 by ac.research
Mon, 2018-05-14 08:27
Normal topic Mutate multidomain protein
by frankfurter1 » Wed, 2018-05-09 04:40
0
208 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
198 by ahmadkhalifa
Fri, 2018-05-04 07:50
Normal topic restrict PackRotamersMover
by pmit » Thu, 2018-05-03 01:48
0
203 by pmit
Thu, 2018-05-03 01:48
Normal topic Question about CartesianMD
by orionshih » Sun, 2018-04-29 21:07
2
343 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
1,370 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
341 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
566 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
450 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
1,066 by linucks
Wed, 2018-04-25 08:50
Normal topic Molfile to Params File Issue
by jferrie » Mon, 2018-04-23 15:25
0
260 by jferrie
Mon, 2018-04-23 15:25

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