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Rosetta 3 - Applications

Topic / Topic starter Repliessort descending Views Last post
Normal topic DDG monomer and backrub motions
by yperez » Thu, 2012-06-21 08:10
2
3,355 by yperez
Mon, 2014-04-21 06:47
Normal topic Docking-RMS value nan
by jlawrie » Wed, 2020-08-12 07:03
2
1,831 by jlawrie
Wed, 2020-08-12 07:27
Normal topic r_frag_quality
by ii_cnr » Mon, 2021-04-12 03:06
2
1,451 by ii_cnr
Mon, 2021-04-12 23:44
Normal topic Flexpep docking freezing issue at "press enter to continue"
by rlwoltz » Tue, 2013-01-22 13:31
2
3,156 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
3,392 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
2,827 by tylerborrman
Wed, 2015-09-23 10:51
Normal topic Altering substrate specificity
by bp » Thu, 2016-12-22 02:45
2
2,695 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
2,117 by BuddySphinx
Sun, 2018-12-30 16:49
Normal topic rosetta_cm - ERROR: Assertion `tlen < slen` failed on File: src/core/fragment/util.cc:177
by ramon-arg » Thu, 2023-07-13 18:41
2
500 by ramon-arg
Fri, 2023-07-14 07:47
Normal topic Enzdes scorefile lost, can I recreate it
by eyong123 » Wed, 2015-04-15 05:55
2
2,742 by eyong123
Wed, 2015-04-22 11:33
Normal topic How to restart RASREC run
by aep » Fri, 2016-07-01 04:39
2
2,456 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
2,410 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
2,208 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
1,812 by tylerborrman
Tue, 2021-02-09 16:33
Normal topic How to add a residue to one chain of an existing structure?
by sn » Mon, 2017-04-17 09:34
2
3,276 by sn
Thu, 2017-04-20 21:43
Normal topic protein interface design
by Negarsardar » Tue, 2019-05-28 07:04
2
2,156 by Negarsardar
Thu, 2019-05-30 23:46
Normal topic Successful RosettaCM?
by jlawrie » Wed, 2020-08-19 06:53
2
1,789 by jlawrie
Thu, 2020-08-20 11:00
Normal topic Filling the missing loops
by code_Monkey » Tue, 2021-04-27 07:44
2
1,715 by code_Monkey
Tue, 2021-04-27 12:11
Normal topic Disulfide prediction from primary sequence
by zcrook » Wed, 2014-11-12 14:44
2
5,027 by zcrook
Tue, 2014-11-25 10:27
Normal topic Use NMR ensemble in protein-protein docking?
by cossio » Sun, 2015-09-13 07:57
2
3,181 by cossio
Tue, 2015-09-15 12:48
Normal topic clean_pdb.py of Rosetta VS cleanATOM of PyRosetta
by lanselibai » Wed, 2014-09-24 03:02
2
5,043 by lanselibai
Wed, 2014-09-24 13:21
Normal topic Trouble enforcing a disulfide in loop building
by chelsell » Sun, 2015-05-10 16:31
2
3,707 by chelsell
Wed, 2015-05-27 14:36
Normal topic Idealize in Rosetta 3.3
by jadolfbr » Tue, 2011-12-06 11:59
2
3,239 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Trouble running Enzyme Design application
by danaitop » Thu, 2016-08-11 13:34
2
2,808 by rmoretti
Mon, 2016-09-05 11:10
Normal topic Rosetta fragment tools installation error
by Danielsebas » Thu, 2019-08-29 02:17
2
2,008 by Danielsebas
Sun, 2019-09-01 02:38
Normal topic Rosetta relax problem
by jingwei xu » Wed, 2016-03-09 21:41
2
5,533 by jingwei xu
Wed, 2016-05-04 23:28
Normal topic Is native.pdb necess for fragment_picker?
by ylwang » Thu, 2020-03-12 00:57
2
1,900 by ylwang
Thu, 2020-03-12 20:42
Normal topic Unknown Element "SE" when generating NCAA params file containing selenium
by liuwenxi » Thu, 2022-08-04 16:24
2
1,338 by liuwenxi
Fri, 2022-08-05 09:50
Normal topic Error when running Remodel with EnzDes constraint file
by aloshbau » Wed, 2013-04-17 22:23
2
4,024 by aloshbau
Mon, 2014-04-21 06:47
Normal topic Can I change high-resolution filter in SymDock
by attesor » Fri, 2015-10-23 07:35
2
2,741 by attesor
Mon, 2015-10-26 09:01
Normal topic Relax evaluates protein-DNA complexes?
by pablogalazdavison » Thu, 2022-05-12 12:05
2
1,507 by pablogalazdavison
Fri, 2022-05-20 12:27
Normal topic nomenclature question in molfile_to_params_polymer.py in ncaa design
by lei » Tue, 2023-11-21 09:47
2
297 by lei
Wed, 2023-11-22 06:23
Normal topic Some wrong with the flag "-l" for score_jd2.linuxgccrelease
by lanselibai » Mon, 2014-09-29 02:29
2
4,324 by lanselibai
Tue, 2014-09-30 02:28
Normal topic rotamer library in coupled_moves
by mtyras » Fri, 2015-05-29 07:46
2
3,786 by mtyras
Mon, 2015-06-08 03:18
Normal topic minimize_with_cst problems (ddg_monomer)
by alexn » Tue, 2011-09-20 13:46
2
3,580 by alexn
Mon, 2014-04-21 06:47
Normal topic membrane score weights
by ytao » Sat, 2012-09-08 06:56
2
2,989 by ytao
Mon, 2014-04-21 06:47
Normal topic Structure determination combining X-ray diffraction data and NMR chemical shift
by MajorID » Mon, 2011-10-17 19:55
2
3,828 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Pre-packing a model for SWA loop building
by franfdez » Sun, 2014-07-27 02:16
2
3,068 by franfdez
Mon, 2014-07-28 01:04
Normal topic PIKAA in resfile does not mutate Cys in disulfide bond to specified residue
by attesor » Fri, 2014-03-14 07:53
2
3,493 by attesor
Mon, 2014-06-16 07:34
Normal topic Write error during saving of PDB-file after working with it in the Rosetta through Unix terminal
by Corvin » Thu, 2019-04-25 01:20
2
2,309 by Corvin
Wed, 2019-06-12 00:04
Normal topic Segmentation Fault in Rosetta CM Hybridize
by yliang20 » Mon, 2022-06-06 17:25
2
1,465 by yliang20
Tue, 2022-06-07 08:36
Normal topic Fragment files for membrane_abinitio application
by sumukh21 » Tue, 2011-02-15 17:23
2
3,517 by sumukh21
Mon, 2014-04-21 06:47
Normal topic Symmetry definition for coiled-coil dimer and trimer
by kszczepaniak » Fri, 2013-10-11 05:33
2
5,748 by kszczepaniak
Mon, 2014-04-21 06:48
Normal topic Use "loopmodel.linuxgccrelease" CCD to build missing residue positions
by lanselibai » Sun, 2014-10-12 09:00
2
3,501 by lanselibai
Mon, 2014-10-13 10:10
Normal topic antibody modeling error
by mxp » Mon, 2019-09-16 18:29
2
1,941 by mxp
Mon, 2019-09-23 01:40
Normal topic Building loop extensions in a membrane protein with Remodel
by benhardy » Tue, 2020-06-02 08:21
2
2,163 by benhardy
Sun, 2020-09-20 11:15
Normal topic Missing atoms and cannot find atom pose when refining ligand position with EM density
by BuddySphinx » Mon, 2018-12-31 16:22
2
3,671 by e3lm
Tue, 2021-09-14 10:02
Normal topic A problem with "make_fragments.pl" script dependencies
by Corvin » Fri, 2019-08-16 04:30
2
2,487 by Corvin
Tue, 2019-08-27 00:46
Normal topic how to reconstruct the whole complex after symmetric docking
by Anonymous » Tue, 2012-07-03 02:44
2
3,281 by felipet
Wed, 2014-07-02 07:26
Normal topic regarding extracting silent file - renamed tag
by shrutikhare » Thu, 2014-04-17 01:19
2
2,761 by shrutikhare
Fri, 2014-04-18 23:11
Normal topic the meaning of total_score in docking
by libai2098 » Mon, 2011-03-21 05:46
2
4,582 by libai2098
Mon, 2014-04-21 06:47
Normal topic GrowLigand
by allan.ferrari » Sat, 2019-10-19 05:32
2
2,060 by allan.ferrari
Tue, 2019-11-05 16:52
Normal topic limit_cluster_size default value
by sacch » Thu, 2011-11-24 17:57
2
2,936 by sacch
Mon, 2014-04-21 06:47
Normal topic Multistate design issues with -run:msd_job_dist option and MSDMover
by elaine.thai » Wed, 2020-05-13 18:07
2
3,072 by Jane_002
Thu, 2023-08-03 19:47
Normal topic RoseTTaFold
by ozsolomon » Thu, 2021-10-07 05:27
2
2,300 by ozsolomon
Thu, 2021-10-07 14:25
Normal topic creating compound task mover
by aaj » Wed, 2016-02-24 04:48
2
2,656 by aaj
Wed, 2016-02-24 07:37
Normal topic Strong bias in sampling observed in RosettaDock
by chenna » Thu, 2020-08-27 22:23
2
1,848 by chenna
Tue, 2021-10-12 20:51
Normal topic Number of Monte Carlo Cycles for FARFAR2
by mandar » Tue, 2024-03-12 19:11
2
117 by mandar
Tue, 2024-03-12 23:07
Normal topic Regarding the efficiency of the new low resolution ligand-docking movement “Transform”.
by Martin Floor » Mon, 2017-05-15 09:19
2
2,649 by Martin Floor
Mon, 2017-05-15 11:13
Normal topic The question about ligand score function
by asbelx » Sun, 2018-06-17 02:07
2
3,264 by asbelx
Mon, 2018-06-18 22:34
Normal topic Number of max allowed mutations from WT sequence
by mouung » Fri, 2020-09-04 02:33
2
1,835 by amorin
Fri, 2021-02-12 08:53
Normal topic flexpep docking, select the decoy to do the further docking, questions
by michael_luntan » Fri, 2011-04-22 04:43
2
3,531 by michael_luntan
Mon, 2014-04-21 06:47
Normal topic Syntax for python-based (.py) command line on cluster
by lanselibai » Fri, 2014-11-14 09:32
2
5,157 by lanselibai
Thu, 2014-11-20 02:15
Normal topic Error from clean_pdb.py
by code_Monkey » Mon, 2021-03-01 17:00
2
1,410 by code_Monkey
Thu, 2021-03-04 12:14
Normal topic refining crystal structure using phenix without CIF file
by banshee » Fri, 2016-09-09 01:14
2
3,239 by banshee
Mon, 2016-09-12 23:41
Normal topic Pepspec - random runtime segfaults (rosetta 3.3 database replaced) [solved]
by loreseeker » Wed, 2011-09-14 08:13
2
3,662 by loreseeker
Mon, 2014-04-21 06:47
Normal topic select_best_unique_ligand_poses output
by ast » Thu, 2013-07-11 02:33
2
3,334 by ast
Mon, 2014-04-21 06:48
Normal topic Remodel: neighbor cutoff
by felipet » Wed, 2014-07-16 08:11
2
2,751 by felipet
Thu, 2014-07-17 10:13
Normal topic Total score problems with high-res ddg_monomer
by jklesmith » Tue, 2015-03-10 15:54
2
3,612 by jennifer
Fri, 2015-03-27 05:56
Normal topic KeyError: 'subject-id' in antibody modelling
by bogac » Mon, 2017-03-06 02:00
2
3,128 by bogac
Tue, 2017-03-07 02:11
Normal topic Membrane homology modeling loop building gives very strange outputs
by chelsell » Tue, 2014-09-30 14:46
2
3,209 by chelsell
Wed, 2014-10-08 12:25
Normal topic The usage of antibody_H3.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 22:50
2
1,978 by Sunyp_IM
Thu, 2020-06-04 08:20
Normal topic getting a3m files
by alonwenger » Wed, 2021-12-15 02:38
2
2,683 by alonwenger
Sat, 2021-12-18 12:32
Normal topic FlexPepDock Concatenation
by cam11 » Mon, 2014-08-11 07:39
2
2,851 by cam11
Wed, 2014-08-13 10:06
Normal topic score_jd2.mpi.linuxgccrelease failed
by fred » Wed, 2014-03-26 13:54
2
5,436 by fred
Tue, 2014-04-01 08:24
Normal topic Homology Modeling-no PDB output
by jlawrie » Wed, 2020-08-12 06:30
2
1,850 by jlawrie
Wed, 2020-08-12 08:56
Normal topic GeneralizedKIC loop closure error
by chenna » Sat, 2021-04-10 00:21
2
1,520 by chenna
Mon, 2021-04-12 22:08
Normal topic How to eliminate "NUL"s when scoring PDBs?
by lanselibai » Tue, 2014-10-14 10:04
2
3,022 by lanselibai
Fri, 2014-10-17 03:36
Normal topic How to scan double mutations in RosettaScripts?
by msardejani » Mon, 2016-12-12 16:52
2
2,509 by msardejani
Mon, 2016-12-12 17:48
Normal topic CC (or similar) calculation for cryoEM fitting
by almeida85 » Tue, 2023-05-16 01:32
2
665 by almeida85
Tue, 2023-05-23 08:23
Normal topic Score - Strange message
by Ashafix » Wed, 2013-11-20 15:23
2
3,558 by Ashafix
Mon, 2014-04-21 06:48
Normal topic cluster.mpi running in MPI mode?
by sacch » Fri, 2011-11-18 23:30
2
4,452 by sacch
Mon, 2014-04-21 06:47
Normal topic Floppytail modelling
by felipet » Fri, 2011-06-24 09:23
2
3,778 by felipet
Mon, 2014-04-21 06:47
Normal topic RosettaSurface in 3.4?
by skovacs » Tue, 2012-07-10 16:02
2
3,034 by mpacella
Mon, 2014-04-21 06:47
Normal topic Trouble running MPI docking protocol, please help!
by Rob_Barringer » Tue, 2020-08-18 06:40
2
2,826 by Rob_Barringer
Fri, 2020-09-25 05:45
Normal topic Generalized KIC loop closure affects downstream residues without perturbations
by chenna » Mon, 2021-04-26 02:16
2
1,430 by chenna
Wed, 2021-04-28 07:18
Normal topic ddG Monomer Low Res Protocol Convergence
by harshkhare » Thu, 2012-03-01 00:45
2
3,829 by harshkhare
Mon, 2014-04-21 06:47
Normal topic Got error when running minirosetta.linuxgccrelease on cluster but fine on Ubuntu
by lanselibai » Mon, 2014-11-10 08:12
2
2,924 by lanselibai
Tue, 2014-11-11 04:42
Normal topic Fnat and Irms are nan in score.sc from docking_protocol?
by cossio » Sun, 2015-09-13 07:34
2
3,723 by rmoretti
Thu, 2015-09-17 12:47
Normal topic ValueError("Path %s does not exist!" % path_name) for rna_helix.py
by kameisel » Wed, 2023-08-16 00:39
2
515 by kameisel
Wed, 2023-09-13 02:16
Normal topic membrane ab initio modeling application with constraints
by ytao » Thu, 2012-11-08 11:56
2
4,266 by ytao
Mon, 2014-04-21 06:47
Normal topic Collecting all decoys from batch files
by aep » Sun, 2016-08-07 12:23
2
2,516 by aep
Sat, 2016-08-13 13:03
Normal topic Ligand params file proton_chi parameters
by staciekim » Thu, 2017-08-17 14:50
2
3,051 by staciekim
Thu, 2017-08-17 17:06
Normal topic RosettaAntibody core.pose.util error
by rishibedi » Fri, 2018-10-05 01:31
2
2,673 by esozdemir
Thu, 2019-06-13 12:19
Normal topic How to add additional rounds of design and optimization in Rosetta scripts?
by Nicole Deng » Tue, 2020-11-03 19:05
2
1,544 by Nicole Deng
Thu, 2020-11-05 03:04
Normal topic relax constraints not minimized
by m_grisewood » Fri, 2012-08-10 08:31
2
3,737 by m_grisewood
Mon, 2014-04-21 06:47
Normal topic ProteinLigandInterfaceUpweighter for protein-protein interactions?
by ahonegger » Mon, 2014-06-02 06:53
2
3,333 by ahonegger
Fri, 2014-06-06 09:31
Normal topic cartesian_ddg error: "Assertion `files.size() == 1` failed."
by cossio » Fri, 2018-05-11 09:59
2
3,290 by cossio
Fri, 2018-05-18 09:51
Normal topic Question about fastsaxs and saxs_score
by orionshih » Thu, 2019-06-13 02:30
2
1,959 by orionshih
Wed, 2019-06-26 03:54
Normal topic make_fragments.pl error
by almeida85 » Mon, 2020-08-31 04:39
2
1,969 by almeida85
Tue, 2020-09-01 01:29
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