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Rosetta 3 - Applications

Topic / Topic startersort ascending Replies Views Last post
Normal topic Problems with ligand when running RosettaLigand
by Cat » Mon, 2013-05-20 15:58
6
6,798 by Aben
Tue, 2023-04-18 01:31
Normal topic Problems with Ligand Docking
by saxen » Fri, 2011-08-19 00:19
8
8,759 by glemmon
Mon, 2014-04-21 06:47
Normal topic problems with generating the params file
by dyu » Thu, 2017-09-28 13:34
2
2,278 by dyu
Thu, 2017-09-28 18:54
Normal topic Problems with fixbb in Rosetta 3.5
by mdidonato » Wed, 2014-06-04 13:56
2
2,681 by mdidonato
Wed, 2014-06-04 14:55
Normal topic Problems with always_constrained_relax_script
by wsgosal » Wed, 2013-05-29 04:39
3
4,728 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Problems when running Rosetta VIP with cofactors
by Basantab » Fri, 2013-04-26 13:31
14
14,896 by Basantab
Mon, 2014-04-21 06:47
Normal topic Problems running pmut in parallel with openmpi
by RMJ » Fri, 2012-09-21 06:25
2
3,986 by RMJ
Mon, 2014-04-21 06:47
Normal topic Problems incorporating nucleotides (GTP/GDP) into the modeling process for RosettaCM
by ajkal » Fri, 2017-04-14 08:44
3
3,527 by rmoretti
Thu, 2017-04-20 13:59
Normal topic problems in InterfaceAnalyzer analysis
by chenchaozhao » Fri, 2011-12-02 23:36
9
8,580 by smlewis
Mon, 2014-04-21 06:47
Normal topic Problem with symmetric docking
by saxen » Fri, 2011-04-29 15:15
3
4,074 by smlewis
Mon, 2014-04-21 06:47
Normal topic Problem with SymmDock in helical symmetry
by mumdonar » Wed, 2013-09-18 03:59
2
3,828 by mumdonar
Mon, 2014-04-21 06:48
Normal topic Problem with Scoring function and PlaceStub mover
by a-eatemadi@razi... » Sat, 2018-04-07 09:22
0
1,161 by a-eatemadi@razi...
Sat, 2018-04-07 09:24
Normal topic Problem with mpirun/mpiexec
by ahansel » Fri, 2020-07-10 08:37
1
3,659 by rmoretti
Fri, 2020-07-10 09:59
Normal topic problem with modelling of protein (140 and 150 residues respectively)
by krlitros87 » Wed, 2014-10-22 09:39
1
2,118 by rmoretti
Thu, 2014-10-23 13:55
Normal topic Problem with hotspot constraints.
by jarek » Wed, 2012-10-17 03:22
6
5,744 by xfliu
Mon, 2014-04-21 06:47
Normal topic problem with fixed_membrane option of membrane abinitio
by yescalona » Thu, 2013-01-17 15:42
3
3,504 by smlewis
Mon, 2014-04-21 06:47
Normal topic Problem with AtomPair constraint
by jarek » Tue, 2012-10-09 07:28
1
2,374 by smlewis
Mon, 2014-04-21 06:47
Normal topic problem when exact pdb from silent file
by wenchangyu2008 » Mon, 2011-04-18 00:42
1
3,153 by wenchangyu2008
Mon, 2014-04-21 06:47
Normal topic Problem readin .ccp4 map file
by jljbbc » Tue, 2011-05-03 11:29
4
5,717 by jljbbc
Mon, 2014-04-21 06:47
Normal topic Problem passing a list of PDB files to minimize_with_cst
by dolevrahat » Sun, 2018-11-18 16:13
1
1,837 by rmoretti
Wed, 2018-11-21 15:31
Normal topic problem in using "zinc_site_redesign" tool
by Isomerase » Mon, 2022-03-28 01:19
0
730 by Isomerase
Mon, 2022-03-28 01:19
Normal topic Problem in using "loopmodel" application to add missing residues
by sushreet » Wed, 2014-08-27 12:43
1
2,090 by rmoretti
Thu, 2014-08-28 09:42
Normal topic Problem in redesign binding site
by armart999 » Fri, 2016-10-14 01:55
1
2,310 by rmoretti
Fri, 2016-10-14 08:42
Normal topic problem creating lips4 file using run_lips.pl
by adva » Sun, 2015-02-15 06:22
5
7,494 by linucks
Mon, 2016-06-20 12:02
Normal topic Problem about energy score
by tfliu » Tue, 2013-11-05 02:09
7
7,675 by Ora Schueler-Furman
Mon, 2014-04-21 06:48
Normal topic printing our per-residue energies including H-bonding energies
by vijayan » Tue, 2013-07-02 08:51
2
3,719 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Prevention of the negatively charged Nitrogen protonation by coupled_moves
by Corvin » Wed, 2020-11-18 02:56
4
2,503 by Corvin
Wed, 2020-11-25 02:58
Normal topic prepack_example.sh error message
by sacch » Sun, 2011-10-23 23:22
2
3,294 by sacch
Mon, 2014-04-21 06:47
Normal topic Prepacking a macrocycle for docking / preserving cyclization
by almeida85 » Thu, 2022-09-08 06:54
0
811 by almeida85
Thu, 2022-09-08 06:54
Normal topic prepack - residue count fails
by xfradera » Fri, 2023-01-27 06:36
0
1,157 by xfradera
Fri, 2023-01-27 06:36
Normal topic Predicting the part of protein strcutrue
by ksy141 » Tue, 2018-10-16 11:47
1
1,514 by jadolfbr
Fri, 2018-11-09 14:28
Normal topic Pre-packing a model for SWA loop building
by franfdez » Sun, 2014-07-27 02:16
2
3,024 by franfdez
Mon, 2014-07-28 01:04
Normal topic Positive scores with SymmDock in helical symmetry
by kxiao » Tue, 2014-02-11 07:37
4
4,632 by kxiao
Thu, 2014-06-05 08:37
Normal topic polymer docking using rosetta scripts
by syntekabio2019 » Fri, 2020-11-27 01:51
1
1,169 by rmoretti
Fri, 2020-11-27 10:47
Normal topic pmut_scan_parallel
by G Mustafa » Wed, 2018-10-17 05:41
0
1,436 by G Mustafa
Wed, 2018-10-17 05:41
Normal topic Pmut_scan with symmetry
by felipet » Thu, 2015-02-05 08:53
5
5,796 by felipet
Wed, 2015-02-11 05:13
Normal topic pmut_scan does not produce log file
by fglaser » Wed, 2013-10-16 07:25
3
4,367 by matteoferla
Tue, 2018-10-30 02:54
Normal topic pMHC modelling
by Roberto » Thu, 2022-08-04 07:11
0
759 by Roberto
Thu, 2022-08-04 07:11
Normal topic placing a constraint during structure prediction
by cbala » Thu, 2011-04-07 08:54
1
3,195 by ic3reyes
Mon, 2014-04-21 06:47
Normal topic PlaceStub filter
by a-eatemadi@razi... » Wed, 2017-11-15 04:19
0
1,409 by a-eatemadi@razi...
Mon, 2017-12-04 23:52
Normal topic Place ligand in a pocket
by sn » Fri, 2017-09-15 12:53
1
1,996 by rmoretti
Fri, 2017-09-15 13:11
Normal topic PIPER-FlexPepDock [commercial user]
by Skelly » Tue, 2024-01-23 16:14
0
179 by Skelly
Tue, 2024-01-30 14:08
Normal topic PIKAA in resfile does not mutate Cys in disulfide bond to specified residue
by attesor » Fri, 2014-03-14 07:53
2
3,448 by attesor
Mon, 2014-06-16 07:34
Normal topic Perform MPI relax with movemap files
by sn » Sun, 2017-03-05 13:18
3
3,372 by sn
Mon, 2017-03-06 10:03
Normal topic Per residue total score
by johnnytam100 » Wed, 2022-07-13 21:57
0
744 by johnnytam100
Wed, 2022-07-13 21:57
Normal topic Per residue scoring
by chelsell » Mon, 2015-08-17 14:43
3
4,150 by rmoretti
Wed, 2015-09-02 12:33
Normal topic Pepspec options
by shaunmk » Mon, 2015-04-27 02:33
0
1,650 by shaunmk
Mon, 2015-04-27 02:33
Normal topic Pepspec Errors running 3.4
by rrphenix » Tue, 2013-05-28 12:08
4
4,363 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Pepspec error
by almeida85 » Mon, 2022-05-02 04:07
1
1,153 by almeida85
Mon, 2022-05-02 05:05
Normal topic Pepspec Anchor Dock
by Soler » Fri, 2020-09-18 08:09
0
1,005 by Soler
Fri, 2020-09-18 08:09
Normal topic Pepspec Anchor Dock
by Soler » Wed, 2020-09-16 19:08
0
818 by Soler
Wed, 2020-09-16 19:08
Normal topic pepspec anchor dock
by Andre Serobian » Tue, 2020-07-28 05:51
1
1,201 by Andre Serobian
Tue, 2020-07-28 23:26
Normal topic pepspec anchor dock
by Astghik » Tue, 2020-10-20 05:31
6
3,412 by Pappmaschee
Thu, 2020-12-17 02:24
Normal topic Pepspec - sequence sampling
by almeida85 » Thu, 2022-06-23 04:05
0
833 by almeida85
Thu, 2022-06-23 05:50
Normal topic Pepspec - random runtime segfaults (rosetta 3.3 database replaced) [solved]
by loreseeker » Wed, 2011-09-14 08:13
2
3,630 by loreseeker
Mon, 2014-04-21 06:47
Normal topic PEPSPEC
by Neeraj » Wed, 2018-01-03 02:24
1
1,767 by Andre Serobian
Wed, 2020-07-08 04:44
Normal topic pdb2vall
by JadAbbass » Mon, 2013-07-08 12:11
3
3,866 by rmoretti
Mon, 2014-04-21 06:48
Normal topic PDB moves after relaxing
by Hr13b » Fri, 2018-07-27 13:12
1
1,468 by smlewis
Fri, 2018-07-27 13:32
Normal topic PDB format for RosettaDNA
by brspurri » Thu, 2013-05-30 11:21
5
6,406 by brspurri
Mon, 2014-04-21 06:47
Normal topic PDB file name too long to be handled by file system
by dave » Thu, 2019-08-08 03:10
1
1,354 by rmoretti
Mon, 2019-08-26 12:17
Normal topic PDB Clustering
by code_Monkey » Mon, 2021-04-05 10:40
0
743 by code_Monkey
Mon, 2021-04-05 10:40
Normal topic Patch to impose tetrahedral geometry on backbone O atom
by georg » Thu, 2021-04-08 09:30
0
731 by georg
Thu, 2021-04-08 09:31
Normal topic Partial Active Site Design for a Novel Substrate
by Derek » Wed, 2017-05-17 19:41
1
1,775 by rmoretti
Thu, 2017-05-18 13:51
Normal topic partial ab initio modeling
by fred » Wed, 2011-08-17 14:14
3
4,176 by smlewis
Mon, 2014-04-21 06:47
Normal topic Parse error while reading in XML file in ROSETTA Scripts
by rweisse » Fri, 2014-08-29 03:24
5
9,378 by a-eatemadi@razi...
Sun, 2017-08-06 03:49
Normal topic Params for a stapled helix peptide
by e3lm » Thu, 2022-05-26 12:55
0
868 by e3lm
Thu, 2022-05-26 12:55
Normal topic parameterizing new residues
by chiendarret » Fri, 2012-02-03 22:59
3
7,643 by rmoretti
Mon, 2014-04-21 06:47
Normal topic pair energies across interface
by irini » Fri, 2012-02-10 09:17
5
4,965 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Packstat score in InterfaceAnalyzer
by Vedasheersh » Fri, 2017-01-27 06:21
2
3,032 by smlewis
Fri, 2017-01-27 07:20
Normal topic Packstat application output
by Vedasheersh » Mon, 2017-07-03 02:45
1
2,074 by rmoretti
Mon, 2017-07-03 09:17
Normal topic P-P docking with suitable constraint type
by Yao Wu » Tue, 2012-11-13 18:03
5
6,958 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Over-docking with FlexPepDock
by gw » Fri, 2012-07-20 13:10
5
5,629 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Output structures from docking_prepack_protocol: initial__*.pdb vs prepack__*.pdb, which one should I send to docking_protocol?
by cossio » Thu, 2015-02-05 07:10
1
2,314 by rmoretti
Mon, 2015-02-09 12:33
Normal topic output file in ddg calcualtion
by malkeet.singh » Sun, 2017-12-03 07:59
1
1,572 by malkeet.singh
Wed, 2017-12-06 02:02
Normal topic ORBITAL records in self generated .params (ligands)
by ast » Thu, 2014-03-06 07:22
9
9,067 by ast
Thu, 2014-03-13 07:17
Normal topic Options for Enzdes RosettaScripts
by joeg » Wed, 2014-03-12 09:28
1
2,920 by rmoretti
Thu, 2014-03-13 08:04
Normal topic Options "-out:prefix" didn't work
by maruhuang » Tue, 2019-09-10 05:42
4
2,786 by danpf
Fri, 2020-02-21 18:32
Normal topic OptimizeMembranePositionMover - This element is not expected
by bjharris » Wed, 2020-07-01 23:21
2
1,882 by bjharris
Thu, 2020-07-02 11:09
Normal topic Old Knotfind algorithm
by Martin Floor » Thu, 2022-09-22 07:28
1
1,091 by rmoretti
Fri, 2022-09-23 09:38
Normal topic number of structures in homology modeling for cluster analysis
by pdbb » Fri, 2013-04-12 08:52
1
2,636 by smlewis
Mon, 2014-04-21 06:47
Normal topic Number of max allowed mutations from WT sequence
by mouung » Fri, 2020-09-04 02:33
2
1,788 by amorin
Fri, 2021-02-12 08:53
Normal topic null mutation with ddg_monomer
by fred » Fri, 2012-05-11 07:16
4
4,168 by fred
Mon, 2014-04-21 06:47
Normal topic nstruct vs. trials?
by chrisHKL » Mon, 2020-03-02 13:22
2
1,690 by chrisHKL
Wed, 2020-03-04 10:49
Normal topic not knowing which one of three ways to run rosettascript
by xinmiaohe » Tue, 2020-10-13 13:52
2
1,969 by xinmiaohe
Mon, 2020-10-19 13:18
Normal topic Not found some Flags
by jrcf » Sat, 2015-09-19 12:08
2
4,046 by jrcf
Mon, 2015-09-21 11:10
Normal topic Noncanonical amino acids
by wsgosal » Tue, 2014-03-18 05:29
8
7,431 by e3lm
Thu, 2022-05-26 12:51
Normal topic non-zero ddG of binding even without mutations
by top-gun98 » Wed, 2023-06-07 17:19
0
367 by top-gun98
Wed, 2023-06-07 17:19
Normal topic nomenclature question in molfile_to_params_polymer.py in ncaa design
by lei » Tue, 2023-11-21 09:47
2
254 by lei
Wed, 2023-11-22 06:23
Normal topic No Space
by jrcf » Mon, 2016-01-11 16:18
3
3,453 by jrcf
Fri, 2016-02-12 16:42
Normal topic No output with docking full protocol
by JulienO » Mon, 2016-05-30 02:16
1
2,005 by rmoretti
Fri, 2016-06-17 10:24
Normal topic No output pdb files after docking protein and DNA/RNA
by yzq » Thu, 2012-10-25 08:23
11
12,004 by rmoretti
Fri, 2016-06-17 10:22
Normal topic No interface for protein - Interface Analyzer
by aloshbau » Tue, 2013-05-21 21:00
1
2,826 by jarod
Mon, 2014-04-21 06:47
Normal topic New CSRosetta toolbox
by sn » Mon, 2017-04-24 12:42
3
2,845 by rmoretti
Tue, 2017-04-25 06:41
Normal topic new BUNS for FunFolDes run
by tatsiana.bylund » Wed, 2019-08-14 20:57
0
965 by tatsiana.bylund
Wed, 2019-08-14 20:57
Normal topic neutral N-term and C-term
by nawsad » Sun, 2013-06-09 10:20
7
8,941 by helenah
Thu, 2020-10-08 05:29
Normal topic Negative Design
by rbjacob » Thu, 2018-10-11 09:18
3
2,870 by smlewis
Mon, 2018-10-15 08:42
Normal topic ndruns and nstruct in fixbb
by Anonymous » Tue, 2012-08-07 01:52
5
6,268 by Anonymous
Mon, 2014-04-21 06:47
Normal topic NCAA Rotamers for Cyclosporin
by marinok » Mon, 2020-09-28 14:11
0
1,176 by marinok
Mon, 2020-09-28 14:11
Normal topic NCAA attached at two points
by tsztain » Wed, 2021-06-16 15:20
3
1,731 by matteoferla
Sat, 2021-06-19 03:07
Normal topic Nanobody design
by chandana » Tue, 2022-08-09 20:36
0
1,169 by chandana
Tue, 2022-08-09 20:36
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