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Rosetta 3 - Applications

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Normal topic side chain repacking error
by malkeet.singh » Thu, 2017-12-07 04:49 		4
 4,331 by smlewis
Wed, 2017-12-13 09:54
Normal topic Any backrub expert?
by johnnytam100 » Fri, 2019-03-01 01:58 		4
 3,778 by johnnytam100
Sun, 2019-03-03 23:42
Normal topic Rosetta antibody- modeling in the presense of an antigen
by agctomer » Mon, 2021-02-01 03:19 		4
 2,304 by nannemdp
Wed, 2021-02-03 08:52
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
 6,548 by lanselibai
Sun, 2015-03-01 15:00
Normal topic make_rot_lib issue
by jarek » Thu, 2013-04-11 08:21 		4
 5,118 by smlewis
Mon, 2014-04-21 06:47
Normal topic rosetta.script segmentation fault
by felipet » Wed, 2013-10-02 10:41 		4
 6,286 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic How to run simulations with non-canonical amino acids?
by Denise » Thu, 2017-06-08 07:50 		4
 4,340 by Denise
Thu, 2017-06-15 04:26
Normal topic How to output all iteration structures from ddg_monomer?
by cossio » Fri, 2014-12-26 13:40 		4
 5,101 by cossio
Mon, 2015-01-19 07:10
Normal topic RosettaCM: An internal error has occurred when "Running the Hybridize mover"
by haom » Mon, 2020-06-15 05:56 		4
 2,632 by haom
Tue, 2020-06-16 05:55
Normal topic Backrub Params Files
by protos_heis » Tue, 2012-09-18 06:15 		4
 5,381 by protos_heis
Mon, 2014-04-21 06:47
Normal topic Structure prediction using true distance and angle constraint
by maruhuang » Wed, 2019-08-21 02:29 		4
 2,752 by maruhuang
Thu, 2019-09-26 18:52
Normal topic Filter for fixed-bb design using RosettaScript?
by chrisHKL » Fri, 2020-02-28 19:47 		4
 2,725 by vmulligan
Mon, 2020-03-02 13:40
Normal topic Can I assume the outputs from different runs are from a same batch?
by lanselibai » Mon, 2014-11-03 06:34 		4
 4,926 by lanselibai
Mon, 2014-11-03 13:15
Normal topic antibody.linuxgccrelease- output models don't have the same sequence as the input fasta
by agctomer » Thu, 2021-01-21 15:35 		4
 2,484 by agctomer
Sun, 2021-01-31 01:06
Normal topic building a protein-dna homology model via cm_rosetta
by y_atsmonraz » Wed, 2021-10-20 23:11 		4
 2,292 by y_atsmonraz
Tue, 2021-11-02 01:47
Normal topic minirosetta: weird behavior
by fred » Wed, 2014-01-22 05:57 		4
 5,292 by fred
Mon, 2014-04-21 06:48
Normal topic Specifying resfile in rosetta scripts
by johnnytam100 » Mon, 2019-03-18 02:19 		4
 4,195 by rmoretti
Fri, 2019-03-29 09:30
Normal topic RNA structure prediction
by emaghdam » Sat, 2014-02-08 01:30 		4
 6,066 by rmoretti
Mon, 2014-02-24 09:12
Normal topic How to specify only design surface residues and loops by RosettaScripts?
by johnnytam100 » Sun, 2019-04-07 21:47 		4
 3,353 by johnnytam100
Wed, 2019-04-10 02:48
Normal topic ddg with ligands
by bhaines1 » Mon, 2011-12-05 14:32 		4
 5,850 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Unable to understand fragment picking tutorial points.
by Danielsebas » Thu, 2019-09-05 03:44 		4
 3,257 by danpf
Fri, 2019-09-06 11:29
Normal topic Relaxed proteins show higher clash score in molprobity results.
by Wang Zhe » Fri, 2021-12-03 04:32 		4
 3,406 by smlewis
Wed, 2021-12-08 13:02
Normal topic relax a protein with phosphorylated serine residue
by zruan » Thu, 2018-02-01 09:18 		3
 3,131 by rmoretti
Tue, 2018-02-06 09:47
Normal topic Abrelax - Dunbrack02.lib.bin missing
by omirus » Sun, 2011-09-18 06:30 		3
 5,118 by smlewis
Mon, 2014-04-21 06:47
Normal topic make fragment
by zadie1118 » Thu, 2012-08-30 07:45 		3
 5,374 by smlewis
Mon, 2014-04-21 06:47
Normal topic Loop prediction
by yzhou » Thu, 2013-07-18 14:24 		3
 4,457 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic proline patching problem
by xun » Tue, 2012-01-03 11:15 		3
 4,138 by xun
Mon, 2014-04-21 06:47
Normal topic Relax both peptide and ligands
by matteoferla » Thu, 2018-09-13 03:11 		3
 2,844 by smlewis
Fri, 2018-09-14 10:34
Normal topic strange effect in: SymDock.linuxgccrelease
by ast » Tue, 2013-06-11 11:05 		3
 3,983 by ast
Mon, 2014-04-21 06:48
Normal topic New CSRosetta toolbox
by sn » Mon, 2017-04-24 12:42 		3
 3,040 by rmoretti
Tue, 2017-04-25 06:41
Normal topic How can I set ref2015 and ligand.wts(-restore_pre_talaris_2013_behavior )
by asbelx » Sat, 2019-06-08 00:07 		3
 2,817 by happycaapi
Tue, 2021-06-29 15:35
Normal topic Are catalytic residues mutatable?
by uka147 » Thu, 2023-10-26 03:49 		3
 837 by uka147
Mon, 2023-10-30 01:53
Normal topic using Rosetta to compute pH dependent binding?
by JuliusSu » Sun, 2014-06-15 20:28 		3
 5,767 by rmoretti
Tue, 2014-06-17 08:51
Normal topic InterfaceAnalyzer problem
by almeida » Mon, 2014-03-03 14:56 		3
 5,140 by smlewis
Fri, 2014-03-07 14:09
Normal topic auto_setup_metals flag with loop modeling application fails
by beowulfey » Wed, 2015-06-10 07:44 		3
 4,429 by beowulfey
Tue, 2015-06-23 16:10
Normal topic RosettaScripts filter BuriedUnsatHbonds2 missing still
by zdaw » Fri, 2020-12-11 12:39 		3
 1,972 by zdaw
Tue, 2020-12-15 15:38
Normal topic analysis of clustering
by loris.moretti » Thu, 2012-04-19 02:52 		3
 7,285 by rmoretti
Mon, 2014-04-21 06:47
Normal topic remodel gives no output
by coomteng@gmail.com » Tue, 2018-03-06 07:40 		3
 3,475 by rmoretti
Wed, 2018-03-07 08:44
Normal topic problem with fixed_membrane option of membrane abinitio
by yescalona » Thu, 2013-01-17 15:42 		3
 3,691 by smlewis
Mon, 2014-04-21 06:47
Normal topic Model truncated proteins
by BuddySphinx » Wed, 2018-12-12 10:32 		3
 3,080 by smlewis
Wed, 2018-12-12 16:51
Normal topic ligand_docking_error
by Alison_Yajie » Mon, 2020-04-20 12:27 		3
 2,402 by YuFei
Sat, 2020-05-30 00:12
Normal topic revert_design_to_native app comparison to FavorNativeResidue mover
by nwhoppe » Wed, 2016-06-29 14:35 		3
 4,349 by rmoretti
Tue, 2016-07-12 09:30
Normal topic The confussion about an example in tutorial in Rosetta Virtual Workshop 2020
by ldx022 » Tue, 2022-11-29 04:58 		3
 4,585 by ldx022
Tue, 2022-11-29 08:38
Normal topic FlexPepDocking with GDP-bound protein
by LI » Sun, 2011-06-12 20:02 		3
 4,925 by rmoretti
Mon, 2014-04-21 06:47
Normal topic parameterizing new residues
by chiendarret » Fri, 2012-02-03 22:59 		3
 7,911 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Problems with always_constrained_relax_script
by wsgosal » Wed, 2013-05-29 04:39 		3
 4,901 by rmoretti
Mon, 2014-04-21 06:47
Normal topic High energies after loopmodel run
by michki » Thu, 2014-05-08 05:14 		3
 4,094 by rmoretti
Mon, 2014-05-12 15:16
Normal topic xyzVector error in Enzyme design
by ajmbarbosa » Tue, 2016-01-05 09:46 		3
 4,499 by rmoretti
Fri, 2016-06-17 10:36
Normal topic Deciding -nstruct for RNA FARFAR2
by mandar » Thu, 2024-03-07 22:16 		3
 528 by mandar
Thu, 2024-03-14 22:25
Normal topic Running RosettaHoles2
by weehee » Wed, 2013-02-13 09:35 		3
 3,902 by weehee
Mon, 2014-04-21 06:47
Normal topic Per residue scoring
by chelsell » Mon, 2015-08-17 14:43 		3
 4,359 by rmoretti
Wed, 2015-09-02 12:33
Normal topic RosettaCM input file for running on Stampede
by smathersc » Wed, 2017-01-18 16:12 		3
 3,365 by rmoretti
Thu, 2017-02-02 09:02
Normal topic Rosetta_CM error unrecognized atom 'CS' this atom is not in PDB
by rlwoltz » Thu, 2019-01-24 19:43 		3
 4,509 by bjharris
Sun, 2020-08-23 14:03
Normal topic DockingProtocol
by Soler » Fri, 2022-02-11 00:12 		3
 2,250 by gezmi
Tue, 2022-02-15 21:47
Normal topic Docking membrane ions and water
by jrcf » Tue, 2017-02-07 15:47 		3
 3,418 by smlewis
Wed, 2017-02-15 07:43
Normal topic RosettaDock 4.0 ambiguous ERROR
by sam_dc » Fri, 2022-03-18 09:36 		3
 2,238 by rmoretti
Tue, 2022-03-22 09:10
Normal topic Comparative modeling of metalloproteins
by ctqwong » Sun, 2020-07-12 13:51 		3
 2,230 by ctqwong
Mon, 2020-07-27 01:48
Normal topic Relax is resulting in a Segmentation Fault
by brspurri » Thu, 2017-08-24 18:46 		3
 3,975 by brspurri
Sat, 2017-08-26 07:08
Normal topic What is a rational minimal value for the "-nstruct" option
by Sunyp_IM » Fri, 2020-05-22 01:28 		3
 2,339 by nannemdp
Sun, 2020-05-24 14:46
Normal topic relax with resfile
by gw » Fri, 2011-08-05 10:57 		3
 6,399 by nannemdp
Mon, 2014-04-21 06:47
Normal topic issues about cstfile in RosettaMatch
by Nicole Deng » Fri, 2020-12-18 05:44 		3
 2,959 by He Xiao
Sun, 2021-04-11 19:29
Normal topic PDB file showing error - missing heavyatom: OXT on residue LYS:CtermProteinFull 59
by intomybioverse » Wed, 2024-05-15 23:38 		3
 390 by rmoretti
Mon, 2024-05-20 07:22
Normal topic Problem with symmetric docking
by saxen » Fri, 2011-04-29 15:15 		3
 4,300 by smlewis
Mon, 2014-04-21 06:47
Normal topic Loop design with length variation
by jarod » Thu, 2016-06-16 19:54 		3
 4,078 by rmoretti
Tue, 2016-07-12 09:41
Normal topic Does relax.linuxgccrelease fully relax the structure compared to ddg_monomer.linuxgccrelease?
by lanselibai » Thu, 2015-01-08 03:23 		3
 3,789 by lanselibai
Tue, 2015-01-13 14:25
Normal topic Behavior of nstruct
by johnnytam100 » Wed, 2019-05-15 22:22 		3
 3,444 by johnnytam100
Tue, 2019-05-21 20:48
Normal topic What are "-nstruct" and "cluster_histogram.txt" for "clustering.py"?
by lanselibai » Fri, 2014-10-17 06:06 		3
 21,224 by rmoretti
Fri, 2014-10-17 10:17
Normal topic RosettaCM
by DmitriiN » Sun, 2017-01-22 17:52 		3
 3,199 by smlewis
Mon, 2017-01-23 06:26
Normal topic FlexPepDock for protein containing multiple chains
by Dimitrov » Mon, 2012-10-08 08:31 		3
 4,157 by smlewis
Mon, 2014-04-21 06:47
Normal topic Homodimer interface design
by petrikigor » Fri, 2012-11-16 10:57 		3
 5,171 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Running snugdock was crashed by "segmentation fault"
by Sunyp_IM » Mon, 2017-08-21 05:03 		3
 3,145 by rmoretti
Tue, 2017-08-22 09:03
Normal topic relax and movemap
by Alison_Yajie » Wed, 2020-05-20 21:27 		3
 2,505 by smlewis
Thu, 2020-05-21 21:05
Normal topic Why is proline hydroxylated？
by kwonglynn » Tue, 2013-06-25 02:38 		3
 5,390 by rmoretti
Mon, 2014-04-21 06:48
Normal topic ddG_monomer
by cott1117 » Thu, 2014-06-12 09:53 		3
 5,316 by rmoretti
Wed, 2014-07-02 16:55
Normal topic Rosetta Ligand Ensemble
by malfonsoprieto » Wed, 2021-05-26 10:21 		3
 2,153 by vizcarra
Thu, 2021-08-26 10:16
Normal topic dihedral_between_bonded_children: atoms are not both my children!
by pdbb » Fri, 2013-04-05 06:40 		3
 3,499 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error when running cluster
by aloshbau » Wed, 2013-05-01 20:45 		3
 4,860 by rmoretti
Mon, 2014-04-21 06:47
Normal topic cluster.mpi.linuxgccrelease failed
by fred » Mon, 2014-02-24 12:11 		3
 8,252 by fred
Thu, 2014-03-27 11:29
Normal topic Perform MPI relax with movemap files
by sn » Sun, 2017-03-05 13:18 		3
 3,601 by sn
Mon, 2017-03-06 10:03
Normal topic clean_pdb not working
by Andre Serobian » Thu, 2020-07-23 04:48 		3
 2,707 by rmoretti
Tue, 2020-07-28 08:24
Normal topic Filter based on ligand_is_touching
by Swillard » Mon, 2017-09-11 19:00 		3
 3,187 by rmoretti
Mon, 2018-11-12 14:35
Normal topic RNA modeling with step wise Monte Carlo error
by szcshr123 » Mon, 2020-12-07 18:08 		3
 2,058 by everyday847
Wed, 2020-12-09 21:46
Normal topic error with fragment_picker.linuxgccrelease
by jiongzhang » Tue, 2012-04-17 09:07 		3
 3,714 by smlewis
Mon, 2014-04-21 06:47
Normal topic pdb2vall
by JadAbbass » Mon, 2013-07-08 12:11 		3
 4,034 by rmoretti
Mon, 2014-04-21 06:48
Normal topic deltaG calculations
by Prasanth Kumar » Wed, 2013-05-15 07:06 		3
 6,638 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 		3
 5,015 by Patrícia Antunes
Fri, 2023-01-20 11:55
Normal topic Error about rifdocking step 12
by ng98 » Mon, 2024-01-08 16:27 		3
 705 by ng98
Tue, 2024-01-09 23:42
Normal topic Homology Modelling with cofactors
by Derek Smith » Thu, 2015-07-09 08:24 		3
 4,751 by Derek Smith
Wed, 2016-02-03 05:47
Normal topic how to make "static" built binaries use multiple cpus like "mpi"?
by Danielsebas » Wed, 2019-09-18 06:41 		3
 2,806 by rmoretti
Wed, 2019-09-18 10:21
Normal topic HBNet and RosettaScripts
by protos_heis » Tue, 2014-08-05 06:05 		3
 4,378 by protos_heis
Tue, 2014-08-05 12:47
Normal topic Can't append or prepend with pepspec
by danzinho » Tue, 2015-03-31 01:19 		3
 4,059 by dswhit
Tue, 2015-04-21 10:14
Normal topic Unable to locate the "compute_ddg.py" file and running the RosettaMP protocol
by Sajjad » Mon, 2022-11-28 14:09 		3
 5,220 by Sajjad
Wed, 2022-11-30 11:50
Normal topic Missing common atom definitions in constraints
by ic3reyes » Sat, 2011-06-11 13:09 		3
 5,282 by smlewis
Mon, 2014-04-21 06:47
Normal topic sam.predict-2nd for make_fragments.pl script
by sumukh21 » Thu, 2011-02-17 12:29 		3
 4,972 by fukamitka
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
 3,743 by rmoretti
Thu, 2017-04-20 13:59
Normal topic Modeling of side-chains onto membrane ab initio cluster?
by akfried » Thu, 2011-06-23 04:03 		3
 4,206 by nkemjika
Mon, 2014-04-21 06:47
Normal topic ab initio
by malkeet.singh » Thu, 2018-05-10 05:34 		3
 3,508 by malkeet.singh
Mon, 2018-05-21 04:26
Normal topic fragment_picker with fasta only
by gw » Tue, 2011-11-15 13:20 		3
 4,605 by gw
Mon, 2014-04-21 06:47
Normal topic  The error of InterfaceAnalyzer
by asbelx » Thu, 2017-12-21 19:04 		3
 4,273 by smlewis
Sat, 2017-12-23 15:56
Normal topic comparative modeling of protein-ligand complex
by tevang » Mon, 2013-09-09 09:06 		3
 4,520 by rmoretti
Mon, 2014-04-21 06:48