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Rosetta 3 - Applications

Topic / Topic startersort descending Replies Views Last post
Normal topic ddg_monomer: How the ddG is actually calculated based on the 50 trajectories? What scorefunction is used?
by lanselibai » Tue, 2015-02-24 02:38
4
4,395 by lanselibai
Sun, 2015-03-01 15:00
Normal topic ddg_monomer: if MPI executable is reproducible and efficient?
by lanselibai » Sun, 2015-01-11 09:48
0
1,103 by lanselibai
Sun, 2015-01-11 10:50
Normal topic Ddg_monomer: implementing disulfides
by kabol » Wed, 2016-11-30 02:39
1
1,405 by rmoretti
Wed, 2016-11-30 07:46
Normal topic ddg_monomer: what is the meaning of "total score" and "score"?
by lanselibai » Tue, 2015-01-13 14:49
4
4,777 by rmoretti
Thu, 2015-04-16 11:23
Normal topic ddg_monomer: what is the theoretical solution condition for the scoring?
by lanselibai » Sat, 2016-04-30 03:26
3
2,525 by smlewis
Mon, 2016-05-02 08:20
Normal topic De novo model-building guided by exprimental density data
by dee2711453 » Thu, 2016-03-10 17:28
3
2,215 by dee2711453
Fri, 2016-03-11 21:32
Normal topic De novo structure building with medium resolution map
by BuddySphinx » Tue, 2019-07-02 09:07
2
820 by BuddySphinx
Tue, 2019-07-02 12:03
Normal topic De novo water predictions using SPaDES
by MNP1986 » Mon, 2019-03-25 07:53
1
758 by matteoferla
Tue, 2020-08-04 09:30
Normal topic debug rosetta_scripts FunFolDes run
by tatsiana.bylund » Sun, 2019-08-18 23:17
1
578 by neelamraju.srid...
Wed, 2020-11-18 05:47
Normal topic deltaG calculations
by Prasanth Kumar » Wed, 2013-05-15 07:06
3
4,676 by rmoretti
Mon, 2014-04-21 06:47
Normal topic demo of molecular replacement with rosetta (mr_rosetta)
by wenchangyu2008 » Sun, 2011-03-20 05:23
8
8,136 by astrofunk12
Mon, 2014-04-21 06:47
Normal topic denovo modelling on a virus-coat protein dimer
by aseem121 » Wed, 2019-10-16 06:55
1
575 by danpf
Wed, 2019-10-16 13:03
Normal topic denovo_density don't output a pdb file
by ylwang » Sun, 2018-11-18 17:51
0
479 by ylwang
Sun, 2018-11-18 17:51
Normal topic density scoring
by Tianyang89 » Sat, 2020-08-29 04:54
1
430 by danpf
Sun, 2020-08-30 22:23
Normal topic Design a peptide linked to small molecule ligand
by shaunmk » Mon, 2015-03-02 09:05
1
1,770 by rmoretti
Wed, 2015-03-25 12:39
Normal topic Design of multimeric protein
by ldlamini » Mon, 2021-01-11 07:23
0
118 by ldlamini
Mon, 2021-01-11 07:23
Normal topic Design with limited number of aminoacids at given position
by sdh_h » Sun, 2016-12-04 03:44
1
1,136 by smlewis
Thu, 2016-12-08 15:50
Normal topic Destination of score.fsc file
by anirbanzz » Wed, 2011-04-20 23:30
1
2,116 by smlewis
Mon, 2014-04-21 06:47
Normal topic Difference between movemap and -pivot_residues
by aloshbau » Wed, 2016-02-24 13:21
1
1,395 by rmoretti
Wed, 2016-02-24 14:39
Normal topic Difference between relax and mimimize_with_cst
by basvandenberg » Thu, 2012-02-09 00:16
1
2,005 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Different scoring applications (score vs score_aln vs score_jd2, etc.)?
by cossio » Fri, 2014-12-26 07:19
2
2,514 by cossio
Tue, 2015-01-20 06:40
Normal topic different value of score from rna_denovo and rna_score?
by yikanzhang » Wed, 2021-02-03 07:17
0
98 by yikanzhang
Wed, 2021-02-03 07:17
Normal topic dihedral_between_bonded_children: atoms are not both my children!
by pdbb » Fri, 2013-04-05 06:40
3
2,196 by smlewis
Mon, 2014-04-21 06:47
Normal topic Dimer of dimers
by smiruthi » Fri, 2011-04-15 10:41
4
5,119 by IAndre
Mon, 2014-04-21 06:47
Normal topic Discrepancy between the total pose energy and sum of per residue energies
by vijayan » Tue, 2013-07-02 07:24
3
3,220 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Distinctions between InterfaceAnalyzer and RosettaScript
by achambe » Wed, 2015-06-17 10:14
6
5,316 by rmoretti
Wed, 2015-09-02 12:43
Normal topic Disulfide Bonds in Loop Modeling
by code_Monkey » Mon, 2021-05-03 08:27
2
55 by code_Monkey
Thu, 2021-05-06 07:14
Normal topic Disulfide prediction from primary sequence
by zcrook » Wed, 2014-11-12 14:44
2
3,645 by zcrook
Tue, 2014-11-25 10:27
Normal topic DNA Interface design
by zadie1118 » Wed, 2011-06-22 07:05
0
1,665 by zadie1118
Mon, 2014-04-21 06:47
Normal topic DNA-protein docking
by ksteczk » Sat, 2020-04-11 11:23
0
413 by ksteczk
Sat, 2020-04-11 11:23
Normal topic do mpi apps share memory?
by fred » Thu, 2014-01-23 11:49
2
2,356 by fred
Mon, 2014-04-21 06:48
Normal topic Do partner1 and partner2 in mover BackrubDD mean chain1 and chain2 respectively?
by johnnytam100 » Fri, 2019-08-23 21:10
1
537 by rmoretti
Mon, 2019-08-26 12:03
Normal topic Dock two domains using topology broker
by sn » Thu, 2017-10-05 17:07
0
603 by sn
Thu, 2017-10-05 17:07
Normal topic Docking Analysis and Metrics in RosettaLigand.
by sam_dc » Tue, 2021-04-20 03:54
1
114 by rmoretti
Tue, 2021-04-20 13:27
Normal topic docking energies - deltadeltaG calculation
by ast » Fri, 2013-07-19 07:30
5
7,488 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Docking flags
by AmelieH » Thu, 2014-11-13 08:46
5
3,440 by AmelieH
Wed, 2014-11-19 11:26
Normal topic docking in rosetta 3.3
by Ammu » Thu, 2012-03-15 12:03
6
4,020 by smlewis
Mon, 2014-04-21 06:47
Normal topic Docking membrane ions and water
by jrcf » Tue, 2017-02-07 15:47
3
1,845 by smlewis
Wed, 2017-02-15 07:43
Normal topic Docking of multichain oligomers
by sdh_h » Wed, 2020-03-25 12:43
0
414 by sdh_h
Wed, 2020-03-25 12:43
Normal topic Docking on mpi.
by Pernille » Mon, 2014-07-28 08:40
1
2,132 by rmoretti
Mon, 2014-08-04 14:51
Normal topic docking parse error
by dave » Tue, 2018-12-04 08:41
1
931 by rmoretti
Tue, 2018-12-04 08:55
Normal topic Docking Prepack protocol working or not ?
by MJG » Mon, 2017-04-03 08:02
4
2,179 by MJG
Tue, 2017-04-04 23:59
Normal topic Docking prepack vs. relax
by David Weis » Tue, 2017-02-21 05:37
1
1,108 by smlewis
Tue, 2017-02-21 07:58
Normal topic Docking protein complexes when constrained by oligomer symmetry
by msk » Tue, 2014-06-03 11:09
0
1,019 by msk
Tue, 2014-06-03 11:09
Normal topic Docking seems to not parse the -nstruct flag
by rosend » Tue, 2015-11-17 12:01
2
2,637 by rosend
Tue, 2015-11-17 12:12
Normal topic Docking structures with ligands in cryo-EM maps
by galushin » Wed, 2012-07-11 12:40
1
3,602 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Docking the border segments of coiled coils in parallel orientation
by Corvin » Mon, 2019-12-02 02:00
0
390 by Corvin
Mon, 2019-12-02 02:00
Normal topic Docking to TM protein plus lipid bilayer
by renedominik » Tue, 2019-03-12 06:58
3
1,440 by renedominik
Tue, 2020-02-18 01:36
Normal topic docking with capping groups
by xavierfradera » Sun, 2018-11-04 16:17
1
684 by maral.adeli-kou...
Wed, 2020-01-22 12:41
Normal topic Docking with constraint
by Hongtham » Sat, 2014-12-27 09:56
2
1,830 by rmoretti
Fri, 2015-01-02 09:43
Normal topic docking with constraints
by talavera » Tue, 2013-05-07 01:50
1
3,129 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Docking with constraints
by ytao » Tue, 2013-04-02 09:45
6
5,668 by smlewis
Mon, 2014-04-21 06:47
Normal topic docking with constraints and flexible bb
by mintseris » Mon, 2015-06-22 09:07
2
2,009 by mintseris
Wed, 2015-06-24 22:04
Normal topic Docking with loop rebuilding
by kxiao » Sun, 2015-06-28 19:37
1
1,432 by rmoretti
Fri, 2015-07-03 14:41
Normal topic Docking-I_sc values do not correlate
by jlawrie » Wed, 2020-08-12 08:08
2
487 by jlawrie
Wed, 2020-08-12 08:57
Normal topic Docking-RMS value nan
by jlawrie » Wed, 2020-08-12 07:03
2
477 by jlawrie
Wed, 2020-08-12 07:27
Normal topic Does antibody_numbering_converter support camelid antibody?
by mxp » Tue, 2020-07-07 01:21
0
243 by mxp
Tue, 2020-07-07 01:21
Normal topic Does it make sense if I do backrub after sequence design?
by johnnytam100 » Thu, 2019-08-15 05:15
3
969 by johnnytam100
Fri, 2019-08-16 00:20
Normal topic Does linker modeling exist?
by aroop » Wed, 2012-02-22 07:34
5
3,718 by smlewis
Mon, 2014-04-21 06:47
Normal topic Does relax.linuxgccrelease fully relax the structure compared to ddg_monomer.linuxgccrelease?
by lanselibai » Thu, 2015-01-08 03:23
3
2,419 by lanselibai
Tue, 2015-01-13 14:25
Normal topic does the loop kinetic support MPI now?
by albumns » Fri, 2012-10-26 06:31
2
1,665 by smlewis
Mon, 2014-04-21 06:47
Normal topic Domain insertion with Non-CAA
by mwfranklin » Mon, 2017-01-16 12:30
0
1,144 by mwfranklin
Mon, 2017-01-16 12:30
Normal topic domain:domain fusion
by felipet » Thu, 2017-06-15 13:13
5
3,006 by felipet
Fri, 2017-06-16 11:42
Normal topic Don't know how to extract scores from a RNA de novo silent file.
by Basantab » Wed, 2011-11-23 17:27
10
6,760 by smlewis
Mon, 2014-04-21 06:47
Normal topic dssp
by MA » Thu, 2017-10-05 09:34
1
980 by rmoretti
Tue, 2017-10-10 09:54
Normal topic Element 'trRosettaProtocol': This element is not expected.
by csaylan » Tue, 2021-04-20 14:21
2
101 by csaylan
Tue, 2021-04-20 16:13
Normal topic Energy function and iteration script files
by michelleqyh » Fri, 2019-09-27 09:06
1
510 by smlewis
Fri, 2019-09-27 11:54
Normal topic Ensemble docking causes segmentation fault 11
by David Weis » Mon, 2017-03-06 14:30
2
1,758 by David Weis
Mon, 2017-03-13 06:40
Normal topic Ensemble Docking in Rosetta3.5?
by protos_heis » Fri, 2015-05-22 06:42
7
5,759 by protos_heis
Mon, 2015-06-08 07:00
Normal topic Enzdes constraint file not defined correctly
by eyong123 » Fri, 2015-03-27 07:16
3
2,466 by rmoretti
Thu, 2015-04-16 10:38
Normal topic Enzdes score file discrepancy between generated pdb and scores.out
by eyong123 » Wed, 2015-03-25 08:52
6
4,857 by eyong123
Mon, 2015-06-29 04:44
Normal topic Enzdes scorefile lost, can I recreate it
by eyong123 » Wed, 2015-04-15 05:55
2
1,722 by eyong123
Wed, 2015-04-22 11:33
Normal topic Enzdes: increase weight of energy term for steric clashes with ligand
by eyong123 » Wed, 2015-03-25 09:12
5
4,206 by rmoretti
Fri, 2015-04-24 12:02
Normal topic Enzyme Design - Score File
by nwhoppe » Thu, 2016-04-07 15:11
1
1,336 by rmoretti
Fri, 2016-04-08 07:39
Normal topic enzyme design and output_matchres_only
by petrikigor » Wed, 2012-10-24 18:45
6
3,379 by petrikigor
Mon, 2014-04-21 06:47
Normal topic Enzyme Design FlexBB Protocol Bug: DNA/RNA handling
by kettner » Fri, 2019-06-14 14:16
1
1,028 by rmoretti
Mon, 2019-06-24 13:46
Normal topic Enzyme design output silent file and score file
by deltag » Fri, 2012-09-28 13:07
1
1,709 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Enzyme Design with additional covalent backbone bonds
by mwfranklin » Wed, 2016-08-03 10:23
1
1,616 by rmoretti
Mon, 2016-09-05 11:29
Normal topic Enzyme design with variable CST blocks possible?
by petrikigor » Thu, 2011-10-06 11:24
6
4,893 by petrikigor
Mon, 2014-04-21 06:47
Normal topic Error during single state design
by sujigeorge1979 » Sat, 2020-01-18 00:37
5
1,406 by rmoretti
Thu, 2020-01-30 15:42
Normal topic Error encountered during Rosetta loop modeling
by max » Tue, 2014-11-25 02:17
3
2,543 by max
Thu, 2014-11-27 02:56
Normal topic error extracting PDB from silent from AbinitioRelax with constraints
by attesor » Wed, 2017-06-14 04:15
2
1,314 by smlewis
Fri, 2017-06-16 07:35
Normal topic Error from clean_pdb.py
by code_Monkey » Mon, 2021-03-01 17:00
2
166 by code_Monkey
Thu, 2021-03-04 12:14
Normal topic Error Implementing Match Style Constraints
by pwging13 » Thu, 2019-12-19 09:53
0
410 by pwging13
Thu, 2019-12-19 09:53
Normal topic Error in using “loopmodel” for selective rebuilding
by sushreet » Mon, 2014-07-14 11:57
2
1,921 by sushreet
Tue, 2014-08-26 13:02
Normal topic Error in a new docking
by jrcf » Wed, 2017-05-17 19:26
1
1,989 by everyday847
Wed, 2017-05-17 20:03
Normal topic Error in Loop modeling and other queries
by ashu4487 » Wed, 2016-05-11 18:23
1
1,486 by rmoretti
Fri, 2016-06-17 10:15
Normal topic Error Interface analyser
by jrcf » Thu, 2017-06-22 12:55
1
1,077 by smlewis
Thu, 2017-06-22 13:31
Normal topic error mesages from RosettaDock
by AlanZhao » Mon, 2011-03-21 11:42
1
1,811 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error src/core/scoring/MembraneTopology.cc line: 139
by Daniel Hall » Thu, 2017-07-13 04:58
6
3,226 by rmoretti
Tue, 2017-07-18 09:00
Normal topic Error when running cluster
by aloshbau » Wed, 2013-05-01 20:45
3
3,233 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Error when running Remodel with EnzDes constraint file
by aloshbau » Wed, 2013-04-17 22:23
2
2,939 by aloshbau
Mon, 2014-04-21 06:47
Normal topic Error when running Remodel with EnzDes constraint file to extend c-terminal
by Jeffrey_Chen » Thu, 2017-01-19 06:20
4
2,674 by dfcoelho
Tue, 2017-10-17 11:52
Normal topic Error when trying docking protocol with different ligand
by scyphs » Wed, 2020-08-05 04:37
2
488 by scyphs
Mon, 2020-08-10 08:09
Normal topic Error when using Remodel on a protein with a chemically bound ligand
by Pappmaschee » Wed, 2020-12-16 09:23
0
191 by Pappmaschee
Wed, 2020-12-16 09:23
Normal topic Error while reading in silent file
by rweisse » Mon, 2015-04-20 00:31
4
3,628 by rmoretti
Thu, 2015-04-30 16:46
Normal topic Error while running "make_fragments.pl".....[blastpgp] ERROR: Arguments must start with '-'
by AG88 » Thu, 2011-11-03 01:25
4
5,803 by weitzner
Mon, 2014-04-21 06:47
Normal topic Error while running Enzyme Design
by saxen » Fri, 2011-10-21 15:46
11
7,428 by akpole
Mon, 2014-04-21 06:47
Normal topic Error while running RosettaLigand
by Ryhon Wang » Tue, 2013-07-30 02:51
4
3,734 by Ryhon Wang
Mon, 2014-04-21 06:48
Normal topic Error with -patch_selectors
by subha » Tue, 2017-06-06 14:40
4
2,097 by subha
Fri, 2017-06-09 15:42
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