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Rosetta 3 - Applications

Topic / Topic startersort descending Replies Views Last post
Normal topic setup_RosettaCM.py
by browns02 » Mon, 2021-06-28 07:13
2
857 by browns02
Tue, 2021-06-29 11:41
Normal topic SEWING and motif file generation
by rbjacob » Thu, 2018-07-12 07:28
10
5,495 by zhangying1990
Tue, 2019-06-04 18:04
Normal topic shape complementarity
by holdenj » Fri, 2022-07-15 13:24
1
493 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
8,054 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
783 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
1,881 by rmoretti
Mon, 2015-05-25 12:37
Normal topic side chain repacking error
by malkeet.singh » Thu, 2017-12-07 04:49
4
3,279 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
604 by Kazu
Wed, 2020-05-20 08:49
Normal topic Simple comparative modeling (threading) example is failing with "unknown atom name: CA CB"
by brspurri » Fri, 2017-03-24 10:52
3
3,178 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
746 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
531 by Ken
Mon, 2022-03-14 15:14
Normal topic simple_cycpep_predict with N-term acetylation
by Ken » Fri, 2021-12-17 09:49
0
610 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
13,630 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
932 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
1,204 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
5,929 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
710 by stannowitz
Tue, 2023-01-17 23:48
Normal topic SnugDock Partners parameter
by tyang39 » Fri, 2022-07-08 10:02
1
505 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
519 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
1,435 by lei
Fri, 2023-01-20 08:11
Normal topic Snugdock+ensembledock usage
by Anouk » Mon, 2014-09-22 08:09
1
2,714 by jadolfbr
Mon, 2014-10-20 13:42
Normal topic snugdock: constrained backbone
by mahendra » Mon, 2022-11-14 02:51
0
1,376 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
5,112 by rmoretti
Thu, 2017-07-06 13:00
Normal topic Snugdock_error
by luicui » Thu, 2017-02-09 21:06
1
1,469 by smlewis
Thu, 2017-02-09 21:50
Normal topic Snugdock_input
by luicui » Wed, 2017-01-18 16:48
5
3,660 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
23,797 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
3,946 by lanselibai
Tue, 2014-09-30 02:28
Normal topic Space Swap!!!
by jrcf » Sun, 2016-02-14 11:43
2
2,275 by jrcf
Mon, 2016-02-15 17:59
Normal topic Specifying resfile in rosetta scripts
by johnnytam100 » Mon, 2019-03-18 02:19
4
3,101 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
1,770 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
2,012 by rmoretti
Thu, 2018-09-20 09:19
Normal topic splitfile.py
by saladi » Fri, 2018-03-30 10:31
1
1,465 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
2,249 by syntekabio2019
Sun, 2023-02-19 18:39
Normal topic Standalone alanine scanning protocol
by exchhattu » Thu, 2011-10-13 19:40
1
5,130 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
4,178 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
712 by everyday847
Fri, 2021-07-30 13:26
Normal topic Steric clashes in RNA minimization
by brianmlee » Tue, 2014-11-18 18:29
5
5,360 by brianmlee
Mon, 2014-11-24 19:40
Normal topic strange effect in: SymDock.linuxgccrelease
by ast » Tue, 2013-06-11 11:05
3
3,432 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
1,390 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
3,417 by rmoretti
Mon, 2014-04-21 06:47
Normal topic structure prediction
by MA » Wed, 2018-09-05 00:50
0
790 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
1,983 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
2,278 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Successful RosettaCM?
by jlawrie » Wed, 2020-08-19 06:53
2
1,288 by jlawrie
Thu, 2020-08-20 11:00
Normal topic suppress pdb output from backrub
by attesor » Mon, 2014-10-27 11:16
7
6,166 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
2,028 by smlewis
Mon, 2014-04-21 06:47
Normal topic Surface Docking Application Crash
by dkozuch » Sat, 2017-09-02 18:32
12
7,234 by Anpu
Tue, 2018-09-25 19:06
Normal topic Surface Docking Crash (continued)
by dkozuch » Tue, 2017-09-12 06:18
1
1,389 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
4,838 by rmoretti
Mon, 2014-04-21 06:48
Normal topic SymDock with constraints
by felipet » Thu, 2015-05-14 09:01
1
2,817 by rmoretti
Mon, 2015-05-25 11:49
Normal topic Symmetric assembly and output reconstruction
by felipet » Wed, 2014-07-02 10:23
0
1,240 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
5,287 by msardejani
Sat, 2016-10-01 12:55
Normal topic symmetric docking and constraints
by ytao » Thu, 2013-05-02 12:08
5
7,029 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
2,948 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
2,588 by ronj
Mon, 2014-04-21 06:47
Normal topic Symmetric Minimization
by aroop » Mon, 2012-12-17 11:45
5
4,069 by aroop
Mon, 2014-04-21 06:47
Normal topic symmetrical membrane modeling
by rlwoltz » Tue, 2013-10-29 03:41
5
5,419 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic Symmetry definition file versions
by Jeff Qu » Tue, 2021-09-28 09:53
0
537 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
2,863 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
5,337 by kszczepaniak
Mon, 2014-04-21 06:48
Normal topic Symmetry definition question
by mrconde96 » Sun, 2022-10-02 05:34
0
985 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
10,651 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
983 by yvonne.chan2
Mon, 2019-11-04 13:41
Normal topic Symmetry-aware Backrub?
by gamacy » Fri, 2014-11-14 02:18
1
1,899 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
4,757 by lanselibai
Thu, 2014-11-20 02:15
Hot topic Syntax for relax.linuxgccrelease
by lanselibai » Wed, 2014-09-24 04:34
18
21,566 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
4,094 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
8,749 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
3,565 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
1,986 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
3,636 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
3,600 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
5,923 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
1,016 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
951 by zivben
Sat, 2021-11-13 04:49
Normal topic the extracted pdb file
by benniu2004 » Fri, 2013-01-04 17:55
12
12,398 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
5,717 by tfliu
Mon, 2014-04-21 06:48
Normal topic the meaning of total_score in docking
by libai2098 » Mon, 2011-03-21 05:46
2
4,182 by libai2098
Mon, 2014-04-21 06:47
Normal topic The problems on pdb renumbering
by Sunyp_IM » Sun, 2017-08-20 06:39
0
1,891 by Sunyp_IM
Sun, 2017-08-20 06:39
Normal topic The question about ligand score function
by asbelx » Sun, 2018-06-17 02:07
2
2,675 by asbelx
Mon, 2018-06-18 22:34
Normal topic The question of ligand docking with constraints
by asbelx » Mon, 2018-06-11 09:39
3
2,650 by rmoretti
Thu, 2018-06-28 12:58
Normal topic The relax qustion of Rosetta VIP
by asbelx » Mon, 2019-06-10 07:52
1
1,119 by rmoretti
Mon, 2019-06-24 14:42
Normal topic The usage of antibody_H3.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 22:50
2
1,455 by Sunyp_IM
Thu, 2020-06-04 08:20
Normal topic The Usage of motifgraft
by Sunyp_IM » Sun, 2017-11-19 20:22
2
2,809 by Sunyp_IM
Mon, 2017-11-20 19:20
Normal topic Thread target sequence
by duz » Thu, 2021-04-01 10:09
4
1,436 by duz
Mon, 2021-05-03 07:50
Normal topic Threading a sequence onto a template with ligands/metal ions included
by ajkal » Wed, 2017-04-19 11:53
3
3,051 by ahmadkhalifa
Sun, 2019-03-31 23:27
Normal topic Threading with Ligand
by ekwan » Thu, 2018-12-06 15:10
1
1,256 by rmoretti
Fri, 2019-03-29 13:21
Normal topic to create the template pdb file
by benniu2004 » Sat, 2012-12-29 23:04
8
7,764 by benniu2004
Mon, 2014-04-21 06:47
Normal topic too many constraints result in no output pose
by Yao Wu » Sun, 2012-11-18 23:45
5
5,499 by smlewis
Mon, 2014-04-21 06:47
Normal topic Topobuilder segmentation fault
by tatsiana.bylund » Mon, 2021-08-09 07:10
0
788 by tatsiana.bylund
Mon, 2021-08-09 07:10
Normal topic Total score problems with high-res ddg_monomer
by jklesmith » Tue, 2015-03-10 15:54
2
3,122 by jennifer
Fri, 2015-03-27 05:56
Normal topic Translate mover chain X doesnot exist.
by surya » Thu, 2020-07-09 08:36
6
2,520 by rmoretti
Tue, 2020-07-14 10:54
Normal topic Transmembrane helix fold-and-dock?
by sarah_b » Tue, 2020-05-12 02:09
3
1,758 by jkleman
Tue, 2020-05-19 15:02
Normal topic Trehalose
by jpfuenzalidawx » Thu, 2022-09-08 00:49
0
361 by jpfuenzalidawx
Thu, 2022-09-08 00:49
Normal topic Trouble enforcing a disulfide in loop building
by chelsell » Sun, 2015-05-10 16:31
2
3,235 by chelsell
Wed, 2015-05-27 14:36
Normal topic trouble in floppytail modelling
by ytao » Thu, 2013-06-27 13:15
1
2,201 by ytao
Mon, 2014-04-21 06:48
Normal topic Trouble running Enzyme Design application
by danaitop » Thu, 2016-08-11 13:34
2
2,362 by rmoretti
Mon, 2016-09-05 11:10
Normal topic Trouble running MPI docking protocol, please help!
by Rob_Barringer » Tue, 2020-08-18 06:40
2
1,936 by Rob_Barringer
Fri, 2020-09-25 05:45
Normal topic trRosetta - Nan occuring in Hbond calculation
by y_atsmonraz » Mon, 2021-10-04 09:16
1
774 by shivarawat115
Mon, 2022-04-11 16:10
Normal topic trRosetta protocol Segmentation Fault
by nc-ring » Wed, 2021-04-28 11:57
5
1,791 by nc-ring
Tue, 2021-05-04 12:26
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