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Rosetta 3 - Applications

Topic / Topic startersort descending Replies Views Last post
Normal topic ddg with ligands
by bhaines1 » Mon, 2011-12-05 14:32
4
4,269 by rmoretti
Mon, 2014-04-21 06:47
Normal topic ddG_monomer
by cott1117 » Thu, 2014-06-12 09:53
3
3,971 by rmoretti
Wed, 2014-07-02 16:55
Normal topic DDG_monomer ΔΔG question
by asbelx » Fri, 2018-04-20 03:31
0
837 by asbelx
Fri, 2018-04-20 03:33
Normal topic ddg_monomer "ERROR: seqpos >= 1"
by cossio » Fri, 2015-10-02 12:20
1
1,798 by rmoretti
Fri, 2015-10-02 12:30
Normal topic ddg_monomer and membrane proteins
by afmo » Tue, 2014-05-20 02:37
4
4,748 by afmo
Thu, 2014-05-22 01:19
Normal topic DDG_monomer application
by shadrinams » Mon, 2018-02-12 12:14
2
2,232 by shadrinams
Wed, 2018-03-14 07:46
Normal topic ddg_monomer conformational search...
by yperez » Wed, 2012-05-09 11:10
5
3,964 by yperez
Mon, 2014-04-21 06:47
Normal topic ddg_monomer consumes massive RAM
by cossio » Fri, 2018-03-09 17:02
7
4,350 by rmoretti
Mon, 2018-03-19 12:12
Normal topic ddg_monomer mutations list: How to specify chain ID?
by cossio » Tue, 2014-12-09 14:26
13
12,795 by rmoretti
Thu, 2016-04-28 16:43
Normal topic ddg_monomer problem
by deltag » Wed, 2012-04-04 07:53
11
9,878 by smlewis
Mon, 2014-04-21 06:47
Normal topic ddg_monomer with -ddg::local_opt_only true, will it affect other chains that are close?
by cossio » Fri, 2014-12-26 13:11
1
1,662 by rmoretti
Tue, 2015-01-13 07:44
Normal topic ddg_monomer.mpi
by gw » Thu, 2011-10-27 16:45
3
3,335 by smlewis
Mon, 2014-04-21 06:47
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
5,118 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
1,296 by lanselibai
Sun, 2015-01-11 10:50
Normal topic Ddg_monomer: implementing disulfides
by kabol » Wed, 2016-11-30 02:39
1
1,767 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
5,563 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
3,031 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
2,758 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
1,327 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
1,196 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
973 by neelamraju.srid...
Wed, 2020-11-18 05:47
Normal topic deltaG calculations
by Prasanth Kumar » Wed, 2013-05-15 07:06
3
5,345 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
9,391 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
932 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
683 by ylwang
Sun, 2018-11-18 17:51
Normal topic density scoring
by Tianyang89 » Sat, 2020-08-29 04:54
1
914 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
2,033 by rmoretti
Wed, 2015-03-25 12:39
Normal topic Design of multimeric protein
by ldlamini » Mon, 2021-01-11 07:23
0
406 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
1,442 by smlewis
Thu, 2016-12-08 15:50
Normal topic Destination of score.fsc file
by anirbanzz » Wed, 2011-04-20 23:30
1
2,388 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
1,693 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
2,342 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
2,964 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
1
525 by CameronJA
Tue, 2021-06-15 20:02
Normal topic dihedral_between_bonded_children: atoms are not both my children!
by pdbb » Fri, 2013-04-05 06:40
3
2,648 by smlewis
Mon, 2014-04-21 06:47
Normal topic Dimer of dimers
by smiruthi » Fri, 2011-04-15 10:41
4
5,950 by IAndre
Mon, 2014-04-21 06:47
Normal topic Dimeric interface redesign
by kjs1728 » Mon, 2022-05-02 21:57
0
69 by kjs1728
Mon, 2022-05-02 21:57
Normal topic Discrepancy between the total pose energy and sum of per residue energies
by vijayan » Tue, 2013-07-02 07:24
3
3,731 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Distinctions between InterfaceAnalyzer and RosettaScript
by achambe » Wed, 2015-06-17 10:14
6
6,437 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
699 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
4,162 by zcrook
Tue, 2014-11-25 10:27
Normal topic Disulfidize- "Extra content at the end of the document"
by ldlamini » Tue, 2022-05-17 02:37
1
72 by rmoretti
Tue, 2022-05-17 07:29
Normal topic DNA Interface design
by zadie1118 » Wed, 2011-06-22 07:05
0
1,838 by zadie1118
Mon, 2014-04-21 06:47
Normal topic DNA-protein docking
by ksteczk » Sat, 2020-04-11 11:23
0
811 by ksteczk
Sat, 2020-04-11 11:23
Normal topic do mpi apps share memory?
by fred » Thu, 2014-01-23 11:49
2
2,747 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
848 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
789 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
749 by rmoretti
Tue, 2021-04-20 13:27
Normal topic docking energies - deltadeltaG calculation
by ast » Fri, 2013-07-19 07:30
5
8,430 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Docking flags
by AmelieH » Thu, 2014-11-13 08:46
5
4,197 by AmelieH
Wed, 2014-11-19 11:26
Normal topic docking in rosetta 3.3
by Ammu » Thu, 2012-03-15 12:03
6
4,830 by smlewis
Mon, 2014-04-21 06:47
Normal topic Docking membrane ions and water
by jrcf » Tue, 2017-02-07 15:47
3
2,401 by smlewis
Wed, 2017-02-15 07:43
Normal topic Docking of multichain oligomers
by sdh_h » Wed, 2020-03-25 12:43
0
653 by sdh_h
Wed, 2020-03-25 12:43
Normal topic Docking on mpi.
by Pernille » Mon, 2014-07-28 08:40
1
2,446 by rmoretti
Mon, 2014-08-04 14:51
Normal topic docking parse error
by dave » Tue, 2018-12-04 08:41
1
1,367 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
2,848 by MJG
Tue, 2017-04-04 23:59
Normal topic Docking prepack vs. relax
by David Weis » Tue, 2017-02-21 05:37
1
1,474 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
1,187 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
3,061 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
4,001 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
615 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
2,131 by renedominik
Tue, 2020-02-18 01:36
Normal topic docking with capping groups
by xavierfradera » Sun, 2018-11-04 16:17
1
1,031 by maral.adeli-kou...
Wed, 2020-01-22 12:41
Normal topic Docking with constraint
by Hongtham » Sat, 2014-12-27 09:56
2
2,178 by rmoretti
Fri, 2015-01-02 09:43
Normal topic docking with constraints
by talavera » Tue, 2013-05-07 01:50
1
3,559 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Docking with constraints
by ytao » Tue, 2013-04-02 09:45
6
6,760 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
2,453 by mintseris
Wed, 2015-06-24 22:04
Normal topic Docking with loop rebuilding
by kxiao » Sun, 2015-06-28 19:37
1
1,717 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
1,012 by jlawrie
Wed, 2020-08-12 08:57
Normal topic Docking-RMS value nan
by jlawrie » Wed, 2020-08-12 07:03
2
946 by jlawrie
Wed, 2020-08-12 07:27
Normal topic DockingProtocol
by Soler » Fri, 2022-02-11 00:12
3
445 by gezmi
Tue, 2022-02-15 21:47
Normal topic Does antibody_numbering_converter support camelid antibody?
by mxp » Tue, 2020-07-07 01:21
0
499 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
1,500 by johnnytam100
Fri, 2019-08-16 00:20
Normal topic Does linker modeling exist?
by aroop » Wed, 2012-02-22 07:34
5
4,343 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
2,876 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
1,998 by smlewis
Mon, 2014-04-21 06:47
Normal topic Domain insertion with Non-CAA
by mwfranklin » Mon, 2017-01-16 12:30
0
1,370 by mwfranklin
Mon, 2017-01-16 12:30
Normal topic domain:domain fusion
by felipet » Thu, 2017-06-15 13:13
5
3,963 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
8,102 by smlewis
Mon, 2014-04-21 06:47
Normal topic dssp
by MA » Thu, 2017-10-05 09:34
1
1,305 by rmoretti
Tue, 2017-10-10 09:54
Normal topic duplex RNA
by amir_tagh » Thu, 2021-08-05 06:34
1
463 by everyday847
Mon, 2021-08-16 10:43
Normal topic Element 'trRosettaProtocol': This element is not expected.
by csaylan » Tue, 2021-04-20 14:21
2
673 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
807 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
2,189 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
6,875 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
3,015 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
5,842 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
2,089 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
4,904 by rmoretti
Fri, 2015-04-24 12:02
Normal topic Enzyme Design - Score File
by nwhoppe » Thu, 2016-04-07 15:11
1
1,640 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
4,146 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
1,363 by rmoretti
Mon, 2019-06-24 13:46
Normal topic Enzyme Design Not Editing Structure
by liuwenxi » Wed, 2022-05-18 10:12
0
63 by liuwenxi
Wed, 2022-05-18 10:12
Normal topic Enzyme design output silent file and score file
by deltag » Fri, 2012-09-28 13:07
1
1,971 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
1,932 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
5,864 by petrikigor
Mon, 2014-04-21 06:47
Normal topic Error during single state design
by sujigeorge1979 » Sat, 2020-01-18 00:37
5
2,841 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
2,981 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
1,719 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
700 by code_Monkey
Thu, 2021-03-04 12:14
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