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Rosetta 3 - Applications

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Normal topic RosettaAntibodyDesign] How can I use run_relax and run_snugdock as part of my command and workflow?
by brspurri » Thu, 2020-05-14 11:15
2
1,257 by brspurri
Thu, 2020-05-14 12:24
Normal topic CSrosetta run problem
by erin_cutts » Fri, 2013-06-28 09:52
2
3,346 by erin_cutts
Mon, 2014-04-21 06:48
Normal topic Error in a new docking
by jrcf » Wed, 2017-05-17 19:26
2
3,590 by tingting
Tue, 2022-03-15 23:55
Normal topic Rosetta_cm Segmentation Fault
by gszwabowski » Thu, 2019-06-20 12:55
2
2,010 by gszwabowski
Wed, 2019-06-26 10:25
Normal topic cartfrag_overlap error while running hybridize protocol
by sn » Thu, 2017-12-21 10:24
2
1,843 by dnamkr
Mon, 2019-12-30 11:43
Normal topic Error: in membrane docking : Cannot split pose by membrane jump! Quitting...
by Astghik » Tue, 2020-11-24 05:27
2
1,169 by Astghik
Thu, 2020-12-03 02:35
Normal topic ligand_docking
by yang » Thu, 2023-02-16 04:37
2
1,753 by yang
Wed, 2023-02-22 19:18
Normal topic Rosetta Script for ddg_monomer protocol 16
by cossio » Thu, 2018-01-25 08:23
2
2,046 by cossio
Sun, 2018-03-11 09:12
Normal topic Protein Ensemble RosettaLigand Docking
by sam_dc » Fri, 2021-03-26 10:18
2
1,078 by sam_dc
Fri, 2021-03-26 12:04
Normal topic does the loop kinetic support MPI now?
by albumns » Fri, 2012-10-26 06:31
2
2,221 by smlewis
Mon, 2014-04-21 06:47
Normal topic Flexpep docking freezing issue at "press enter to continue"
by rlwoltz » Tue, 2013-01-22 13:31
2
2,826 by rlwoltz
Mon, 2014-04-21 06:47
Normal topic ab initio modelling - what to do next?
by krlitros87 » Thu, 2014-10-16 13:05
2
3,002 by krlitros87
Wed, 2014-10-22 09:31
Normal topic score:weights for fixbb application in Rosetta 3.5
by tylerborrman » Tue, 2015-07-28 14:16
2
2,423 by tylerborrman
Wed, 2015-09-23 10:51
Normal topic Altering substrate specificity
by bp » Thu, 2016-12-22 02:45
2
2,256 by bp
Thu, 2016-12-22 07:54
Normal topic Model monomer to fit cryo density map of a filament
by BuddySphinx » Wed, 2018-12-12 18:58
2
1,679 by BuddySphinx
Sun, 2018-12-30 16:49
Normal topic RosettaRemodel
by gw » Wed, 2011-09-14 13:24
2
3,213 by smlewis
Mon, 2014-04-21 06:47
Normal topic BUG REPORT: Remodel Resfile ERROR: LEU was added more than once?
by daniloboskovic » Wed, 2020-04-29 01:17
2
1,359 by daniloboskovic
Wed, 2020-04-29 05:51
Normal topic Docking-RMS value nan
by jlawrie » Wed, 2020-08-12 07:03
2
1,259 by jlawrie
Wed, 2020-08-12 07:27
Normal topic r_frag_quality
by ii_cnr » Mon, 2021-04-12 03:06
2
963 by ii_cnr
Mon, 2021-04-12 23:44
Normal topic How to add a residue to one chain of an existing structure?
by sn » Mon, 2017-04-17 09:34
2
2,638 by sn
Thu, 2017-04-20 21:43
Normal topic protein interface design
by Negarsardar » Tue, 2019-05-28 07:04
2
1,704 by Negarsardar
Thu, 2019-05-30 23:46
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 Filling the missing loops
by code_Monkey » Tue, 2021-04-27 07:44
2
1,055 by code_Monkey
Tue, 2021-04-27 12:11
Normal topic Enzdes scorefile lost, can I recreate it
by eyong123 » Wed, 2015-04-15 05:55
2
2,350 by eyong123
Wed, 2015-04-22 11:33
Normal topic How to restart RASREC run
by aep » Fri, 2016-07-01 04:39
2
2,055 by aep
Fri, 2016-07-01 06:54
Normal topic RosettaCM hybridize mover error after fragment picking
by amorin » Thu, 2018-09-06 11:03
2
1,962 by dnamkr
Thu, 2019-12-26 10:22
Normal topic How to run partial_thread in RosettaCM when residure are more than 9999?
by lanselibai » Mon, 2020-05-11 22:43
2
1,602 by lanselibai
Tue, 2020-05-12 20:25
Normal topic hbond_sr_bb and hbond_lr_bb for different chains
by tylerborrman » Tue, 2020-10-13 13:41
2
1,291 by tylerborrman
Tue, 2021-02-09 16:33
Normal topic How to preserve ACE/NME termini?
by nitroamos » Tue, 2018-05-22 13:07
3
3,065 by rmoretti
Thu, 2018-06-28 12:44
Normal topic loopmodel thinks there are no residues in the pose
by lah435 » Wed, 2013-03-27 02:46
3
3,816 by rmoretti
Mon, 2014-04-21 06:47
Normal topic ddg_monomer.mpi
by gw » Thu, 2011-10-27 16:45
3
3,703 by smlewis
Mon, 2014-04-21 06:47
Normal topic Negative Design
by rbjacob » Thu, 2018-10-11 09:18
3
2,335 by smlewis
Mon, 2018-10-15 08:42
Normal topic Discrepancy between the total pose energy and sum of per residue energies
by vijayan » Tue, 2013-07-02 07:24
3
4,037 by rmoretti
Mon, 2014-04-21 06:48
Normal topic ddg_monomer: what is the theoretical solution condition for the scoring?
by lanselibai » Sat, 2016-04-30 03:26
3
3,353 by smlewis
Mon, 2016-05-02 08:20
Normal topic Error encountered during Rosetta loop modeling
by max » Tue, 2014-11-25 02:17
3
3,289 by max
Thu, 2014-11-27 02:56
Normal topic Loop modeling with constraints
by agctomer » Sat, 2021-03-20 03:53
3
1,344 by agctomer
Thu, 2021-04-08 07:37
Normal topic partial ab initio modeling
by fred » Wed, 2011-08-17 14:14
3
3,741 by smlewis
Mon, 2014-04-21 06:47
Normal topic Loop prediction
by yzhou » Thu, 2013-07-18 14:24
3
3,880 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic relax a protein with phosphorylated serine residue
by zruan » Thu, 2018-02-01 09:18
3
2,450 by rmoretti
Tue, 2018-02-06 09:47
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 New CSRosetta toolbox
by sn » Mon, 2017-04-24 12:42
3
2,371 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
2,034 by happycaapi
Tue, 2021-06-29 15:35
Normal topic Relax both peptide and ligands
by matteoferla » Thu, 2018-09-13 03:11
3
2,136 by smlewis
Fri, 2018-09-14 10:34
Normal topic using Rosetta to compute pH dependent binding?
by JuliusSu » Sun, 2014-06-15 20:28
3
4,576 by rmoretti
Tue, 2014-06-17 08:51
Normal topic auto_setup_metals flag with loop modeling application fails
by beowulfey » Wed, 2015-06-10 07:44
3
3,676 by beowulfey
Tue, 2015-06-23 16:10
Normal topic RosettaScripts filter BuriedUnsatHbonds2 missing still
by zdaw » Fri, 2020-12-11 12:39
3
1,320 by zdaw
Tue, 2020-12-15 15:38
Normal topic InterfaceAnalyzer problem
by almeida » Mon, 2014-03-03 14:56
3
4,385 by smlewis
Fri, 2014-03-07 14:09
Normal topic problem with fixed_membrane option of membrane abinitio
by yescalona » Thu, 2013-01-17 15:42
3
3,142 by smlewis
Mon, 2014-04-21 06:47
Normal topic Model truncated proteins
by BuddySphinx » Wed, 2018-12-12 10:32
3
2,184 by smlewis
Wed, 2018-12-12 16:51
Normal topic ligand_docking_error
by Alison_Yajie » Mon, 2020-04-20 12:27
3
1,736 by YuFei
Sat, 2020-05-30 00:12
Normal topic Rosetta 3.4 "Relax pdb with allatom constraints" does not work with structures containing multiple chains
by ahonegger » Tue, 2012-04-24 01:34
3
3,785 by ahonegger
Mon, 2014-04-21 06:47
Normal topic remodel gives no output
by coomteng@gmail.com » Tue, 2018-03-06 07:40
3
2,603 by rmoretti
Wed, 2018-03-07 08:44
Normal topic Problems with always_constrained_relax_script
by wsgosal » Wed, 2013-05-29 04:39
3
4,325 by rmoretti
Mon, 2014-04-21 06:47
Normal topic High energies after loopmodel run
by michki » Thu, 2014-05-08 05:14
3
3,512 by rmoretti
Mon, 2014-05-12 15:16
Normal topic xyzVector error in Enzyme design
by ajmbarbosa » Tue, 2016-01-05 09:46
3
3,727 by rmoretti
Fri, 2016-06-17 10:36
Normal topic Running RosettaHoles2
by weehee » Wed, 2013-02-13 09:35
3
3,235 by weehee
Mon, 2014-04-21 06:47
Normal topic Per residue scoring
by chelsell » Mon, 2015-08-17 14:43
3
3,707 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
2,724 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
3,341 by bjharris
Sun, 2020-08-23 14:03
Normal topic DockingProtocol
by Soler » Fri, 2022-02-11 00:12
3
1,169 by gezmi
Tue, 2022-02-15 21:47
Normal topic revert_design_to_native app comparison to FavorNativeResidue mover
by nwhoppe » Wed, 2016-06-29 14:35
3
3,646 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
3,600 by ldx022
Tue, 2022-11-29 08:38
Normal topic Ligand dock analysis
by sacch » Tue, 2012-05-22 01:20
3
3,505 by glemmon
Mon, 2014-04-21 06:47
Normal topic Docking membrane ions and water
by jrcf » Tue, 2017-02-07 15:47
3
2,759 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
1,183 by rmoretti
Tue, 2022-03-22 09:10
Normal topic score to use for picking top docking solutions?
by sudhar » Tue, 2011-06-14 06:47
3
5,287 by weitzner
Mon, 2014-04-21 06:47
Normal topic RosettaAntibody
by mpendleton » Mon, 2011-04-04 10:27
3
4,519 by jianqing
Mon, 2014-04-21 06:47
Normal topic Comparative modeling of metalloproteins
by ctqwong » Sun, 2020-07-12 13:51
3
1,580 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
3,141 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
1,640 by nannemdp
Sun, 2020-05-24 14:46
Normal topic issues about cstfile in RosettaMatch
by Nicole Deng » Fri, 2020-12-18 05:44
3
1,870 by He Xiao
Sun, 2021-04-11 19:29
Normal topic ERROR: no fragment to compute secondary structure
by byin » Sun, 2011-08-07 23:55
3
4,079 by smlewis
Mon, 2014-04-21 06:47
Normal topic Loop design with length variation
by jarod » Thu, 2016-06-16 19:54
3
3,366 by rmoretti
Tue, 2016-07-12 09:41
Normal topic What are "-nstruct" and "cluster_histogram.txt" for "clustering.py"?
by lanselibai » Fri, 2014-10-17 06:06
3
20,565 by rmoretti
Fri, 2014-10-17 10:17
Normal topic Abrelax - Dunbrack02.lib.bin missing
by omirus » Sun, 2011-09-18 06:30
3
4,455 by smlewis
Mon, 2014-04-21 06:47
Normal topic make fragment
by zadie1118 » Thu, 2012-08-30 07:45
3
4,655 by smlewis
Mon, 2014-04-21 06:47
Normal topic Does relax.linuxgccrelease fully relax the structure compared to ddg_monomer.linuxgccrelease?
by lanselibai » Thu, 2015-01-08 03:23
3
3,187 by lanselibai
Tue, 2015-01-13 14:25
Normal topic Behavior of nstruct
by johnnytam100 » Wed, 2019-05-15 22:22
3
2,500 by johnnytam100
Tue, 2019-05-21 20:48
Normal topic proline patching problem
by xun » Tue, 2012-01-03 11:15
3
3,521 by xun
Mon, 2014-04-21 06:47
Normal topic RosettaCM
by DmitriiN » Sun, 2017-01-22 17:52
3
2,531 by smlewis
Mon, 2017-01-23 06:26
Normal topic Why is proline hydroxylated?
by kwonglynn » Tue, 2013-06-25 02:38
3
4,749 by rmoretti
Mon, 2014-04-21 06:48
Normal topic ddG_monomer
by cott1117 » Thu, 2014-06-12 09:53
3
4,393 by rmoretti
Wed, 2014-07-02 16:55
Normal topic Rosetta Ligand Ensemble
by malfonsoprieto » Wed, 2021-05-26 10:21
3
1,424 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
2,936 by smlewis
Mon, 2014-04-21 06:47
Normal topic Homodimer interface design
by petrikigor » Fri, 2012-11-16 10:57
3
4,488 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
2,472 by rmoretti
Tue, 2017-08-22 09:03
Normal topic relax and movemap
by Alison_Yajie » Wed, 2020-05-20 21:27
3
1,721 by smlewis
Thu, 2020-05-21 21:05
Normal topic Filter based on ligand_is_touching
by Swillard » Mon, 2017-09-11 19:00
3
2,477 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
1,325 by everyday847
Wed, 2020-12-09 21:46
Normal topic pdb2vall
by JadAbbass » Mon, 2013-07-08 12:11
3
3,486 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Error when running cluster
by aloshbau » Wed, 2013-05-01 20:45
3
4,181 by rmoretti
Mon, 2014-04-21 06:47
Normal topic cluster.mpi.linuxgccrelease failed
by fred » Mon, 2014-02-24 12:11
3
7,516 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
2,834 by sn
Mon, 2017-03-06 10:03
Normal topic clean_pdb not working
by Andre Serobian » Thu, 2020-07-23 04:48
3
1,850 by rmoretti
Tue, 2020-07-28 08:24
Normal topic Homology Modelling with cofactors
by Derek Smith » Thu, 2015-07-09 08:24
3
3,974 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
2,048 by rmoretti
Wed, 2019-09-18 10:21
Normal topic analysis of clustering
by loris.moretti » Thu, 2012-04-19 02:52
3
6,544 by rmoretti
Mon, 2014-04-21 06:47
Normal topic HBNet and RosettaScripts
by protos_heis » Tue, 2014-08-05 06:05
3
3,719 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
3,427 by dswhit
Tue, 2015-04-21 10:14
Normal topic deltaG calculations
by Prasanth Kumar » Wed, 2013-05-15 07:06
3
5,789 by rmoretti
Mon, 2014-04-21 06:47
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