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Rosetta 3 - Applications

Topic / Topic startersort descending Replies Views Last post
Normal topic InterfaceAnalyzer dSasa calculation
by mintseris » Wed, 2015-09-02 09:43
2
2,878 by jadolfbr
Thu, 2015-09-03 16:18
Normal topic InterfaceAnalyzer problem
by almeida » Mon, 2014-03-03 14:56
3
3,381 by smlewis
Fri, 2014-03-07 14:09
Normal topic InterfaceAnalyzer:“too many tries in fill_missing_atoms!”
by mxp » Tue, 2019-08-06 00:41
8
2,202 by mxp
Mon, 2019-08-12 18:42
Normal topic interface_delta ligand_docking
by Prasanth Kumar » Tue, 2013-06-18 08:37
1
1,866 by rmoretti
Mon, 2014-04-21 06:48
Normal topic is it necessary to always run relax before any Rosetta
by mainzer » Fri, 2019-04-12 01:35
1
820 by rmoretti
Wed, 2019-07-10 09:47
Normal topic Is it possible to restart the ddg_monomer.linuxgccrelease?
by lanselibai » Mon, 2015-09-07 03:46
1
1,315 by rmoretti
Wed, 2015-09-09 12:01
Normal topic Is native.pdb necess for fragment_picker?
by ylwang » Thu, 2020-03-12 00:57
2
680 by ylwang
Thu, 2020-03-12 20:42
Normal topic Is there a way to restrict memory usage of ddg_monomer?
by cossio » Fri, 2015-01-30 14:35
5
3,307 by rmoretti
Mon, 2015-02-09 12:04
Normal topic Issue with Rosetta LinkResidues Script
by adityapadhi » Wed, 2019-11-20 22:00
1
549 by JackMaguire
Fri, 2019-11-22 13:45
Normal topic issues about cstfile in RosettaMatch
by Nicole Deng » Fri, 2020-12-18 05:44
3
409 by He Xiao
Sun, 2021-04-11 19:29
Normal topic JD2 MPI
by jrcf » Wed, 2015-10-28 14:45
1
1,469 by rmoretti
Sat, 2015-10-31 08:57
Normal topic jd2 quits before reaching -nstruct # in roseta_scripts.mpi.linuxgccrelease
by fradom » Mon, 2017-11-27 02:55
6
2,644 by fradom
Tue, 2017-12-05 01:52
Normal topic JobDistributor problem in antibody modeling
by Wizard » Wed, 2015-04-22 00:35
2
2,225 by Wizard
Sun, 2015-04-26 22:36
Normal topic kcenters_clustering_of_fragments
by bjharris » Mon, 2019-07-01 16:16
1
618 by bjharris
Wed, 2020-07-01 23:25
Normal topic KeyError: 'subject-id' in antibody modelling
by bogac » Mon, 2017-03-06 02:00
2
1,800 by bogac
Tue, 2017-03-07 02:11
Normal topic KIC with fragments versus Next generation KIC
by Loki01 » Fri, 2018-09-07 05:06
3
1,443 by smlewis
Mon, 2018-09-10 11:48
Normal topic kinematic loop modeling multiple input: possible?
by a_s_a » Thu, 2011-05-12 09:33
2
2,340 by a_s_a
Mon, 2014-04-21 06:47
Normal topic Lammps or RosettaSurface
by StevPChem » Fri, 2016-06-10 10:13
3
2,562 by Anpu
Tue, 2018-09-25 18:53
Normal topic latest version of rosetta unable to build models
by pramod » Mon, 2014-11-03 11:31
1
1,778 by rmoretti
Tue, 2014-11-04 10:33
Normal topic Ligand atom RMSD calculation
by lkrathn » Wed, 2013-08-14 21:25
2
3,636 by lkrathn
Mon, 2014-04-21 06:48
Normal topic ligand conformer generation for enzyme design
by bo » Mon, 2013-02-11 16:51
1
1,750 by smlewis
Mon, 2014-04-21 06:47
Normal topic Ligand creation
by Prasanth Kumar » Fri, 2013-08-02 09:48
1
1,797 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Ligand dock analysis
by sacch » Tue, 2012-05-22 01:20
3
2,750 by glemmon
Mon, 2014-04-21 06:47
Normal topic ligand dock question
by sacch » Sun, 2012-05-20 19:49
4
3,069 by sacch
Mon, 2014-04-21 06:47
Normal topic Ligand docking and protein design of an internal pocket in a protein with a cofactor
by oerbilgin » Mon, 2011-06-20 13:55
2
3,563 by frichter
Mon, 2014-04-21 06:47
Normal topic Ligand docking at specific orientation
by ShiranBZ » Mon, 2020-04-13 20:46
1
414 by matteoferla
Mon, 2020-05-04 02:02
Normal topic Ligand docking cannot open the protein file
by swarekwood » Tue, 2017-10-17 08:17
1
796 by rmoretti
Tue, 2017-10-17 09:03
Normal topic Ligand Docking with ARLS
by cam11 » Thu, 2016-06-23 09:34
1
1,359 by rmoretti
Thu, 2016-06-23 10:55
Normal topic Ligand docking with constraint
by Alison_Yajie » Wed, 2020-06-24 12:34
0
266 by Alison_Yajie
Wed, 2020-06-24 12:34
Normal topic ligand docking with MPI
by Ruska322 » Wed, 2019-09-04 03:47
2
728 by Ruska322
Fri, 2019-09-06 07:13
Normal topic Ligand Docking with Rosetta Scripts memory problem
by Swillard » Thu, 2017-08-17 14:59
5
2,747 by rmoretti
Mon, 2018-11-12 14:31
Normal topic Ligand Docking with RosettaScripts gives a ParsedProtocol exception
by brspurri » Sun, 2017-05-14 17:51
2
1,814 by brspurri
Mon, 2017-05-15 11:48
Normal topic ligand docking, how to combine some silent.out files into a silent_all.out file
by Ryhon Wang » Fri, 2013-12-06 01:53
6
5,106 by rmoretti
Wed, 2017-01-11 12:53
Normal topic Ligand docking: ERROR: set_atom_base: atoms must be bonded!
by mengzhang » Mon, 2014-05-12 12:36
1
1,847 by rmoretti
Mon, 2014-05-12 15:08
Normal topic Ligand docking: ERROR: set_atom_base: atoms must be bonded!
by mengzhang » Mon, 2014-05-12 12:36
1
2,274 by jharamesh
Mon, 2014-11-03 12:50
Normal topic Ligand params file proton_chi parameters
by staciekim » Thu, 2017-08-17 14:50
2
1,646 by staciekim
Thu, 2017-08-17 17:06
Normal topic ligand_docking ligand preparation
by Alison_Yajie » Thu, 2020-05-21 10:21
2
579 by Alison_Yajie
Wed, 2020-06-24 12:38
Normal topic ligand_docking tutorial help: do crystal_complex.pdb files need to be prepped before using with <InterfaceScoreCalculator>
by DGR95 » Fri, 2021-04-16 19:26
4
132 by DGR95
Wed, 2021-04-28 16:13
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-05-21 09:42
0
298 by Alison_Yajie
Thu, 2020-05-21 09:42
Normal topic ligand_docking: ligand preparation
by Alison_Yajie » Thu, 2020-07-02 07:05
0
272 by Alison_Yajie
Thu, 2020-07-02 07:10
Normal topic ligand_docking_analysis
by Prasanth Kumar » Thu, 2013-05-09 23:51
4
3,560 by rmoretti
Mon, 2014-04-21 06:47
Normal topic ligand_docking_error
by Alison_Yajie » Mon, 2020-04-20 12:27
3
850 by YuFei
Sat, 2020-05-30 00:12
Normal topic Limit on backbone movement in relax?
by SWM » Fri, 2020-01-24 07:35
0
368 by SWM
Fri, 2020-01-24 07:35
Normal topic limit_cluster_size default value
by sacch » Thu, 2011-11-24 17:57
2
1,912 by sacch
Mon, 2014-04-21 06:47
Normal topic Line search failed even after resetting Hessian
by Loki01 » Wed, 2017-12-13 16:52
6
3,204 by Loki01
Thu, 2018-02-15 13:54
Normal topic Local docking: "manually place the two proteins facing each other" ?
by mdeklotz » Fri, 2018-07-20 10:24
5
2,020 by dfcoelho
Tue, 2018-10-16 09:05
Normal topic loop design for Conformational bias
by dhirajks » Thu, 2019-05-09 21:22
1
708 by jadolfbr
Fri, 2019-05-10 07:53
Normal topic Loop design with length variation
by jarod » Thu, 2016-06-16 19:54
3
2,552 by rmoretti
Tue, 2016-07-12 09:41
Normal topic Loop modeling - the appropriate way to model a peptide insertion?
by xding » Thu, 2018-08-02 15:30
6
2,262 by smlewis
Wed, 2018-08-08 15:48
Normal topic loop modeling during enzyme design?
by lzx32 » Wed, 2011-11-16 00:30
6
3,874 by lzx32
Mon, 2014-04-21 06:47
Normal topic loop modeling scoring
by Nicky_Learning_... » Wed, 2015-05-13 20:00
1
1,826 by rmoretti
Mon, 2015-05-25 11:30
Normal topic Loop modeling with constraints
by agctomer » Sat, 2021-03-20 03:53
3
354 by agctomer
Thu, 2021-04-08 07:37
Normal topic Loop modeling/closure for many structures
by sn » Mon, 2017-03-06 11:25
1
962 by rmoretti
Mon, 2017-03-06 12:39
Normal topic Loop modeling: KIC with fragments producing unusual models
by kamau » Mon, 2015-06-01 12:06
1
1,470 by rmoretti
Sat, 2015-06-20 20:07
Normal topic Loop modelling before peptide docking
by wsgosal » Tue, 2013-10-01 07:24
4
3,788 by wsgosal
Mon, 2014-04-21 06:48
Normal topic Loop prediction
by yzhou » Thu, 2013-07-18 14:24
3
3,092 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic loop re-modeling std::out_of_range
by rlwoltz » Tue, 2013-03-12 18:11
9
5,653 by smlewis
Mon, 2014-04-21 06:47
Normal topic loopmodel issue
by chiendarret » Fri, 2012-01-27 00:51
1
2,333 by smlewis
Mon, 2014-04-21 06:47
Normal topic loopmodel thinks there are no residues in the pose
by lah435 » Wed, 2013-03-27 02:46
3
3,038 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Loopmodel with DNA has no energy score
by Nicky_Learning_... » Sun, 2015-05-10 19:31
1
1,506 by rmoretti
Mon, 2015-05-25 12:30
Normal topic LoopModeler mover unable to determine cut point
by gszwabowski » Mon, 2020-06-01 13:12
1
472 by matteoferla
Thu, 2020-07-02 07:27
Normal topic loop_length_changing
by lanselibai » Tue, 2014-10-14 04:10
14
9,134 by lanselibai
Fri, 2014-11-07 02:06
Normal topic Make error during installation of updated ncbi-blast-2.9.0+-src plus error with nr-database
by Corvin » Tue, 2019-10-01 02:04
6
2,679 by Corvin
Tue, 2019-10-15 01:12
Normal topic make fragment
by zadie1118 » Thu, 2012-08-30 07:45
3
3,700 by smlewis
Mon, 2014-04-21 06:47
Normal topic Make Fragments
by Run » Mon, 2013-11-11 05:31
1
1,934 by smlewis
Mon, 2014-04-21 06:48
Normal topic make_fragments.pl error
by almeida85 » Mon, 2020-08-31 04:39
2
534 by almeida85
Tue, 2020-09-01 01:29
Normal topic make_rot_lib issue
by jarek » Thu, 2013-04-11 08:21
4
3,507 by smlewis
Mon, 2014-04-21 06:47
Normal topic manually defining CDRs in antibody modelling
by gard.nelson » Fri, 2020-07-10 13:31
1
368 by brspurri
Wed, 2021-01-20 08:11
Normal topic matdes_design: ERROR]EXCN_utility_exit has been thrown from: src/core/io/silent/SilentFileData.cc line: 302
by siciliu » Fri, 2014-03-21 17:51
5
4,280 by siciliu
Thu, 2014-04-10 09:50
Normal topic MaxSub and MaxSub2.0
by JadAbbass » Tue, 2013-10-15 13:36
2
2,553 by JadAbbass
Mon, 2014-04-21 06:48
Normal topic membrane ab initio modeling application with constraints
by ytao » Thu, 2012-11-08 11:56
2
3,286 by ytao
Mon, 2014-04-21 06:47
Normal topic membrane ab-initio modeling, is the quality comparable to comparative modeling of 20% id template?
by fglaser » Thu, 2011-04-07 07:57
0
1,705 by fglaser
Mon, 2014-04-21 06:47
Normal topic Membrane ab-initio modelling of a beta-strand
by hzhekova » Mon, 2019-06-10 14:22
1
682 by rmoretti
Mon, 2019-06-24 14:39
Normal topic Membrane Abinitio modeling
by bharat_46010 » Mon, 2017-03-13 22:39
1
961 by benhardy
Wed, 2020-09-30 04:24
Normal topic Membrane Abinitio modeling error
by jkyan007 » Thu, 2020-10-29 03:30
1
297 by noahC_noahDo
Tue, 2020-11-17 10:35
Normal topic Membrane homology modeling loop building gives very strange outputs
by chelsell » Tue, 2014-09-30 14:46
2
2,184 by chelsell
Wed, 2014-10-08 12:25
Normal topic membrane modeling error
by benniu2004 » Mon, 2013-07-01 17:59
1
1,819 by smlewis
Mon, 2014-04-21 06:48
Normal topic Membrane protein protocol on PyRosetta
by jlapin » Sat, 2018-07-28 14:41
2
1,020 by jlapin
Wed, 2018-08-01 07:15
Normal topic membrane score weights
by ytao » Sat, 2012-09-08 06:56
2
2,089 by ytao
Mon, 2014-04-21 06:47
Hot topic membrane scoring function performance
by tevang » Wed, 2013-03-20 08:40
15
10,688 by smlewis
Mon, 2014-04-21 06:47
Normal topic Metal Ion in symmetric design
by tschiex » Wed, 2020-07-08 05:28
0
279 by tschiex
Wed, 2020-07-08 05:28
Normal topic metalloprotein ab initio with glutamic acid
by inorgchem » Tue, 2020-06-16 20:45
0
224 by inorgchem
Tue, 2020-06-16 20:45
Normal topic minimize_with_cst and convert_to_cst_file for ddG_monomer issues/confusion
by Kharlamov1317a » Mon, 2020-09-21 08:46
1
452 by Kharlamov1317a
Wed, 2020-10-07 08:26
Normal topic minimize_with_cst problems (ddg_monomer)
by alexn » Tue, 2011-09-20 13:46
2
2,489 by alexn
Mon, 2014-04-21 06:47
Normal topic minirosetta: how to reserve (inter-chain) disulfides after relax ?
by lanselibai » Sat, 2015-01-24 10:56
0
1,653 by lanselibai
Thu, 2015-01-29 00:50
Normal topic minirosetta: weird behavior
by fred » Wed, 2014-01-22 05:57
4
3,664 by fred
Mon, 2014-04-21 06:48
Normal topic Missing "Bio.PDB" module when running "remove_loop_coords.py"
by lanselibai » Mon, 2014-09-29 04:34
6
7,177 by lanselibai
Wed, 2014-10-01 02:13
Normal topic missing atom number 5 atom name CB
by ajaniharesh » Fri, 2019-04-26 12:08
1
717 by rmoretti
Fri, 2019-04-26 12:13
Normal topic Missing atoms and cannot find atom pose when refining ligand position with EM density
by BuddySphinx » Mon, 2018-12-31 16:22
1
1,325 by rmoretti
Fri, 2019-03-29 13:06
Normal topic Missing common atom definitions in constraints
by ic3reyes » Sat, 2011-06-11 13:09
3
3,704 by smlewis
Mon, 2014-04-21 06:47
Normal topic Missing CS-HM-Rosetta Binary files
by Marius1987 » Wed, 2016-02-10 05:52
3
2,626 by Marius1987
Mon, 2016-03-14 04:34
Normal topic Model monomer to fit cryo density map of a filament
by BuddySphinx » Wed, 2018-12-12 18:58
2
986 by BuddySphinx
Sun, 2018-12-30 16:49
Normal topic Model truncated proteins
by BuddySphinx » Wed, 2018-12-12 10:32
3
1,210 by smlewis
Wed, 2018-12-12 16:51
Normal topic Model two domain protein
by sn » Sat, 2017-05-06 13:21
1
1,090 by rmoretti
Mon, 2017-05-15 08:54
Normal topic modeling 4 linkers between 2 domains
by pdbb » Thu, 2013-05-16 08:23
1
1,749 by smlewis
Mon, 2014-04-21 06:47
Normal topic modeling an extracellular loop of a transmembrane protein
by Hothman » Fri, 2016-08-12 06:16
5
3,034 by rmoretti
Mon, 2016-09-05 10:59
Normal topic Modeling flexible linkers with Floppytail
by pdbb » Sun, 2013-05-12 15:55
2
2,336 by smlewis
Mon, 2014-04-21 06:47
Normal topic modeling missing linker in a protein
by Isaure de Beauchene » Fri, 2012-05-11 10:13
1
2,650 by smlewis
Mon, 2014-04-21 06:47
Normal topic Modeling more than one protein loop at the same time
by hzhekova » Mon, 2018-01-15 14:03
2
1,871 by hzhekova
Tue, 2018-01-16 10:31
Normal topic Modeling of side-chains onto membrane ab initio cluster?
by akfried » Thu, 2011-06-23 04:03
3
2,825 by nkemjika
Mon, 2014-04-21 06:47
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