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Rosetta 3 - Applications

Topic / Topic startersort descending Replies Views Last post
Normal topic scoring input pdbs as the same as docking score
by hamedkhakzad » Fri, 2016-07-01 07:15
3
3,412 by rmoretti
Tue, 2016-07-12 09:05
Normal topic scoring of beta sandwich protein
by attesor » Mon, 2014-11-17 08:24
6
5,620 by rmoretti
Thu, 2014-11-20 10:46
Normal topic Scoring residue vs. organic ligand
by almeida » Tue, 2014-04-08 12:18
12
13,013 by rmoretti
Thu, 2014-04-24 14:43
Normal topic Script for loop modeling: how to define loop sequence
by batch2k » Thu, 2014-10-30 12:58
1
2,112 by jadolfbr
Fri, 2014-10-31 08:45
Normal topic Secondary Matching build_sets Error
by enmirts » Wed, 2018-03-28 10:33
0
1,014 by enmirts
Wed, 2018-03-28 10:34
Normal topic SecundaryStructure Filter
by Soler » Sun, 2021-11-21 22:20
0
718 by Soler
Sun, 2021-11-21 22:20
Normal topic Segfault error while running MR Rosetta in Phenix
by memilton » Thu, 2021-12-16 09:09
0
821 by memilton
Thu, 2021-12-16 09:09
Normal topic Segfault with Pepspec
by almeida85 » Thu, 2021-02-11 02:56
0
576 by almeida85
Thu, 2021-02-11 02:56
Normal topic Segment File Gen - no ouput
by CATarr » Wed, 2019-10-09 19:05
0
804 by CATarr
Wed, 2019-10-09 19:05
Normal topic Segmentation Fault
by ajaniharesh » Fri, 2019-03-29 11:21
4
5,521 by ajaniharesh
Thu, 2019-04-04 07:07
Normal topic Segmentation fault (core dumped) in rosetta_scripts.default.linuxgccrelease after blueprint file reading
by Corvin » Tue, 2020-06-30 00:36
12
7,623 by Corvin
Tue, 2020-11-10 01:22
Normal topic segmentation fault after core.kinematics.FoldTree in homology modeling
by pdbb » Mon, 2012-10-08 14:27
7
7,164 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Segmentation Fault during prepacking
by Sunyp_IM » Fri, 2020-06-12 11:24
4
2,814 by Sunyp_IM
Thu, 2020-07-09 18:40
Normal topic Segmentation Fault in Fragment picking
by ashu4487 » Fri, 2018-07-06 20:47
2
3,001 by ashu4487
Mon, 2018-07-16 19:24
Normal topic Segmentation Fault in Rosetta CM Hybridize
by yliang20 » Mon, 2022-06-06 17:25
2
991 by yliang20
Tue, 2022-06-07 08:36
Normal topic Segmentation fault when running Abinito Relax
by Hongtham » Mon, 2014-12-15 07:16
1
2,994 by rmoretti
Fri, 2015-01-02 11:45
Normal topic select_best_unique_ligand_poses - Ligand docking
by subha » Thu, 2018-04-19 10:36
4
3,014 by subha
Fri, 2018-04-20 12:49
Normal topic select_best_unique_ligand_poses output
by ast » Thu, 2013-07-11 02:33
2
3,134 by ast
Mon, 2014-04-21 06:48
Normal topic sequence design to enhance Fc / Fc-g Receptor binding
by jarod » Tue, 2017-05-23 09:00
1
1,612 by jadolfbr
Thu, 2017-06-01 10:00
Normal topic Sequence design with mixed fixbb-relax protocol
by kszczepaniak » Thu, 2013-10-03 08:11
4
5,275 by fede
Wed, 2020-09-23 11:24
Normal topic Setting pivots points for GenKIC
by almeida85 » Tue, 2022-10-25 02:32
0
1,475 by almeida85
Tue, 2022-10-25 02:32
Normal topic setup_RosettaCM.py
by browns02 » Mon, 2021-06-28 07:13
2
1,095 by browns02
Tue, 2021-06-29 11:41
Normal topic SEWING and motif file generation
by rbjacob » Thu, 2018-07-12 07:28
10
6,139 by zhangying1990
Tue, 2019-06-04 18:04
Normal topic shape complementarity
by holdenj » Fri, 2022-07-15 13:24
1
736 by rmoretti
Fri, 2022-07-15 13:50
Normal topic Should FastRelax be commented out in Calculate_protein_protein_ddg demo?
by cossio » Mon, 2016-10-31 12:01
11
8,769 by cossio
Mon, 2016-11-21 07:56
Normal topic Should I be stripping water molecules from my input structure for Rosetta Design?
by chrisHKL » Wed, 2021-03-24 14:22
1
940 by smlewis
Wed, 2021-03-24 14:59
Normal topic Should I trust the score output from relax used with a protein complex?
by cossio » Thu, 2015-05-07 06:08
1
2,029 by rmoretti
Mon, 2015-05-25 12:37
Normal topic side chain repacking error
by malkeet.singh » Thu, 2017-12-07 04:49
4
3,626 by smlewis
Wed, 2017-12-13 09:54
Normal topic Side-chain grafting at the fixed protein and position
by Kazu » Wed, 2020-05-20 08:49
0
698 by Kazu
Wed, 2020-05-20 08:49
Normal topic Silent File Scores Missing: RNA Protein Complex Predition
by axio23 » Fri, 2023-06-16 05:45
0
150 by axio23
Fri, 2023-06-16 05:45
Normal topic Simple comparative modeling (threading) example is failing with "unknown atom name: CA CB"
by brspurri » Fri, 2017-03-24 10:52
3
3,459 by brspurri
Fri, 2017-03-24 11:35
Normal topic simple_cycpep_predict - Design mode - The base name "ARG" was added more than once
by almeida85 » Thu, 2022-08-04 02:57
4
1,143 by almeida85
Thu, 2022-08-11 00:58
Normal topic simple_cycpep_predict thioether_lariat option
by Ken » Mon, 2022-03-14 15:14
0
661 by Ken
Mon, 2022-03-14 15:14
Normal topic Simple_cycpep_predict with crosslinker BBMB
by Ken » Tue, 2023-05-09 08:52
0
180 by Ken
Tue, 2023-05-09 08:52
Normal topic simple_cycpep_predict with N-term acetylation
by Ken » Fri, 2021-12-17 09:49
0
766 by Ken
Fri, 2021-12-17 09:49
Normal topic Single Strand DNA (ssDNA) 3D structure prediction
by mkoohim » Fri, 2012-04-06 00:52
4
14,156 by smlewis
Mon, 2014-04-21 06:47
Normal topic small ligand docking in Ubuntu 20.04, please help
by guowuchen » Sun, 2022-03-06 18:12
2
1,205 by guowuchen
Mon, 2022-03-07 23:34
Normal topic Small molecule dimer/trimer/etc docking
by lukasz » Tue, 2022-10-04 06:49
1
1,408 by rmoretti
Tue, 2022-10-04 07:57
Normal topic SnugDock - What protocol should I use?
by dfcoelho » Tue, 2018-11-27 07:32
8
6,656 by dfcoelho
Wed, 2018-11-28 08:07
Normal topic Snugdock Error: The sequence position requested was greater than the number of residues
by stannowitz » Tue, 2023-01-17 07:37
0
872 by stannowitz
Tue, 2023-01-17 23:48
Normal topic SnugDock Partners parameter
by tyang39 » Fri, 2022-07-08 10:02
1
702 by rmoretti
Fri, 2022-07-08 10:27
Normal topic snugdock run error: Sequence for partner1 does not match first member of ensemble1
by pagumaaaaa » Fri, 2022-03-25 01:21
0
710 by pagumaaaaa
Fri, 2022-03-25 01:21
Normal topic snugdock(sequence position requested was greater than the number of residues in the pose)
by lei » Thu, 2023-01-12 01:40
5
1,894 by lei
Fri, 2023-01-20 08:11
Normal topic Snugdock+ensembledock usage
by Anouk » Mon, 2014-09-22 08:09
1
2,902 by jadolfbr
Mon, 2014-10-20 13:42
Normal topic snugdock: constrained backbone
by mahendra » Mon, 2022-11-14 02:51
0
1,506 by mahendra
Mon, 2022-11-14 02:51
Normal topic SnugDocking a VHH:antigen complex possible?
by David Weis » Thu, 2017-02-16 05:57
7
5,572 by rmoretti
Thu, 2017-07-06 13:00
Normal topic Snugdock_error
by luicui » Thu, 2017-02-09 21:06
1
1,617 by smlewis
Thu, 2017-02-09 21:50
Normal topic Snugdock_input
by luicui » Wed, 2017-01-18 16:48
5
3,989 by smlewis
Fri, 2017-01-20 08:14
Hot topic some application troubles when using resfile flag
by chenchaozhao » Tue, 2011-04-05 00:05
24
25,225 by smlewis
Mon, 2014-04-21 06:47
Normal topic Some wrong with the flag "-l" for score_jd2.linuxgccrelease
by lanselibai » Mon, 2014-09-29 02:29
2
4,123 by lanselibai
Tue, 2014-09-30 02:28
Normal topic Space Swap!!!
by jrcf » Sun, 2016-02-14 11:43
2
2,470 by jrcf
Mon, 2016-02-15 17:59
Normal topic Specifying resfile in rosetta scripts
by johnnytam100 » Mon, 2019-03-18 02:19
4
3,476 by rmoretti
Fri, 2019-03-29 09:30
Normal topic Speed problem when running RosettaLigand ligand docking
by Nicole Deng » Tue, 2019-10-08 04:29
2
1,976 by Nicole Deng
Tue, 2020-11-03 19:07
Normal topic SPLINE EPR_DISTANCE Constraint Error
by mmw88 » Tue, 2018-09-18 14:39
2
2,216 by rmoretti
Thu, 2018-09-20 09:19
Normal topic splitfile.py
by saladi » Fri, 2018-03-30 10:31
1
1,606 by rmoretti
Tue, 2018-04-10 15:34
Normal topic St13runtime_error in Rosetta ligand docking
by syntekabio2019 » Thu, 2023-02-09 18:18
2
2,521 by syntekabio2019
Sun, 2023-02-19 18:39
Normal topic Standalone alanine scanning protocol
by exchhattu » Thu, 2011-10-13 19:40
1
5,282 by smlewis
Mon, 2014-04-21 06:47
Normal topic std::bad_alloc error after changing .xml script?
by chrisHKL » Wed, 2020-03-04 11:44
10
4,822 by jadolfbr
Thu, 2020-03-05 07:02
Normal topic Stepwise Monte Carlo - errors with ResidueTypeSet and Disulfides
by user42 » Wed, 2021-07-21 20:34
1
855 by everyday847
Fri, 2021-07-30 13:26
Normal topic Steric clashes in RNA minimization
by brianmlee » Tue, 2014-11-18 18:29
5
5,752 by brianmlee
Mon, 2014-11-24 19:40
Normal topic strange effect in: SymDock.linuxgccrelease
by ast » Tue, 2013-06-11 11:05
3
3,642 by ast
Mon, 2014-04-21 06:48
Normal topic Strong bias in sampling observed in RosettaDock
by chenna » Thu, 2020-08-27 22:23
2
1,607 by chenna
Tue, 2021-10-12 20:51
Normal topic Structure determination combining X-ray diffraction data and NMR chemical shift
by MajorID » Mon, 2011-10-17 19:55
2
3,614 by rmoretti
Mon, 2014-04-21 06:47
Normal topic structure prediction
by MA » Wed, 2018-09-05 00:50
0
875 by MA
Wed, 2018-09-05 00:50
Normal topic Structure prediction using true distance and angle constraint
by maruhuang » Wed, 2019-08-21 02:29
4
2,271 by maruhuang
Thu, 2019-09-26 18:52
Normal topic submit_NGK.py not creating output files
by nkato2 » Wed, 2013-08-28 23:37
1
2,397 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Successful RosettaCM?
by jlawrie » Wed, 2020-08-19 06:53
2
1,552 by jlawrie
Thu, 2020-08-20 11:00
Normal topic suppress pdb output from backrub
by attesor » Mon, 2014-10-27 11:16
7
6,631 by rmoretti
Mon, 2014-11-03 15:47
Normal topic Surface accessible residue as a constraint.
by arthuc01 » Fri, 2012-03-09 23:27
1
2,157 by smlewis
Mon, 2014-04-21 06:47
Normal topic Surface Docking Application Crash
by dkozuch » Sat, 2017-09-02 18:32
12
7,927 by Anpu
Tue, 2018-09-25 19:06
Normal topic Surface Docking Crash (continued)
by dkozuch » Tue, 2017-09-12 06:18
1
1,530 by rmoretti
Tue, 2017-10-10 10:08
Normal topic SymDock for docking only the ligand?
by ast » Mon, 2013-06-17 09:53
4
5,116 by rmoretti
Mon, 2014-04-21 06:48
Normal topic SymDock with constraints
by felipet » Thu, 2015-05-14 09:01
1
2,976 by rmoretti
Mon, 2015-05-25 11:49
Normal topic Symmetric assembly and output reconstruction
by felipet » Wed, 2014-07-02 10:23
0
1,359 by felipet
Wed, 2014-07-02 10:23
Normal topic symmetric design in the presence of a nonsymmetric ligand
by msardejani » Fri, 2016-09-30 15:17
6
5,698 by msardejani
Sat, 2016-10-01 12:55
Normal topic symmetric docking and constraints
by ytao » Thu, 2013-05-02 12:08
5
7,345 by attesor
Wed, 2015-10-21 13:53
Normal topic Symmetric docking with multiple chains as asymmetric unit
by sarah29 » Tue, 2013-11-05 20:24
1
3,089 by rmoretti
Mon, 2014-04-21 06:48
Normal topic symmetric fixbb design with design_hpatch
by sdh_h » Sat, 2013-02-02 01:48
2
2,755 by ronj
Mon, 2014-04-21 06:47
Normal topic Symmetric Minimization
by aroop » Mon, 2012-12-17 11:45
5
4,373 by aroop
Mon, 2014-04-21 06:47
Normal topic symmetrical membrane modeling
by rlwoltz » Tue, 2013-10-29 03:41
5
5,711 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic Symmetry definition file versions
by Jeff Qu » Tue, 2021-09-28 09:53
0
634 by Jeff Qu
Tue, 2021-09-28 09:53
Normal topic Symmetry definition for apolar helix
by vanrooyenjason » Tue, 2016-01-05 05:20
1
3,035 by rmoretti
Fri, 2016-04-29 09:21
Normal topic Symmetry definition for coiled-coil dimer and trimer
by kszczepaniak » Fri, 2013-10-11 05:33
2
5,546 by kszczepaniak
Mon, 2014-04-21 06:48
Normal topic Symmetry definition question
by mrconde96 » Sun, 2022-10-02 05:34
0
1,125 by mrconde96
Sun, 2022-10-02 05:34
Normal topic Symmetry Docking and Clustering with Ligands
by skovacs » Wed, 2012-03-07 16:46
9
11,154 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Symmetry mode in Remodel for N-terminal extension
by yvonne.chan2 » Mon, 2019-11-04 13:41
0
1,108 by yvonne.chan2
Mon, 2019-11-04 13:41
Normal topic Symmetry-aware Backrub?
by gamacy » Fri, 2014-11-14 02:18
1
2,050 by rmoretti
Tue, 2014-11-18 09:10
Normal topic Syntax for python-based (.py) command line on cluster
by lanselibai » Fri, 2014-11-14 09:32
2
4,957 by lanselibai
Thu, 2014-11-20 02:15
Hot topic Syntax for relax.linuxgccrelease
by lanselibai » Wed, 2014-09-24 04:34
18
22,882 by lanselibai
Tue, 2014-12-02 09:46
Normal topic Syntax for the alignment file in "minirosetta comparative modeling"
by lanselibai » Thu, 2014-10-16 15:29
3
4,323 by lanselibai
Thu, 2014-10-23 03:26
Normal topic Syntax to build a silent file
by lanselibai » Fri, 2014-09-26 09:13
8
9,340 by lanselibai
Tue, 2014-09-30 03:45
Normal topic Syntax to extract PDB files from a silent file
by lanselibai » Fri, 2014-09-26 13:48
1
3,765 by lanselibai
Fri, 2014-09-26 14:58
Normal topic Template/Input length mismatch error during RosettaCM
by marinok » Mon, 2020-05-04 13:12
4
2,378 by marinok
Mon, 2020-05-11 12:48
Normal topic terminal amino acids of gap has incomplete valency
by malkeet.singh » Wed, 2017-11-29 05:20
6
4,031 by rmoretti
Fri, 2017-12-01 12:05
Normal topic The confussion about an example in tutorial in Rosetta Virtual Workshop 2020
by ldx022 » Tue, 2022-11-29 04:58
3
3,899 by ldx022
Tue, 2022-11-29 08:38
Normal topic the ddg of mutant is same as the wt
by deepanshuiitb » Wed, 2015-03-04 11:56
6
6,288 by jadolfbr
Tue, 2015-04-07 10:50
Normal topic The difference between the H1 regions of modeled camelid antibody and the crystal structure.
by Sunyp_IM » Sun, 2020-06-07 02:34
1
1,166 by nannemdp
Sun, 2020-06-07 08:01
Normal topic The energy terms in InterfaceAnalyzer
by Sunyp_IM » Tue, 2021-11-02 18:43
2
1,190 by zivben
Sat, 2021-11-13 04:49
Normal topic the extracted pdb file
by benniu2004 » Fri, 2013-01-04 17:55
12
13,131 by benniu2004
Mon, 2014-04-21 06:47
Normal topic the flexpepdock refinement and ab-initio
by tfliu » Mon, 2013-12-23 19:17
6
6,065 by tfliu
Mon, 2014-04-21 06:48
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