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Rosetta 3 - Applications

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Normal topic RosettaDock 4.0 ambiguous ERROR
by sam_dc » Fri, 2022-03-18 09:36
3
1,795 by rmoretti
Tue, 2022-03-22 09:10
Normal topic analysis of clustering
by loris.moretti » Thu, 2012-04-19 02:52
3
6,912 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Comparative modeling of metalloproteins
by ctqwong » Sun, 2020-07-12 13:51
3
1,935 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
3,573 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
2,009 by nannemdp
Sun, 2020-05-24 14:46
Normal topic Loop design with length variation
by jarod » Thu, 2016-06-16 19:54
3
3,753 by rmoretti
Tue, 2016-07-12 09:41
Normal topic issues about cstfile in RosettaMatch
by Nicole Deng » Fri, 2020-12-18 05:44
3
2,449 by He Xiao
Sun, 2021-04-11 19:29
Normal topic What are "-nstruct" and "cluster_histogram.txt" for "clustering.py"?
by lanselibai » Fri, 2014-10-17 06:06
3
20,907 by rmoretti
Fri, 2014-10-17 10:17
Normal topic FlexPepDocking with GDP-bound protein
by LI » Sun, 2011-06-12 20:02
3
4,607 by rmoretti
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
3,513 by lanselibai
Tue, 2015-01-13 14:25
Normal topic Behavior of nstruct
by johnnytam100 » Wed, 2019-05-15 22:22
3
2,933 by johnnytam100
Tue, 2019-05-21 20:48
Normal topic parameterizing new residues
by chiendarret » Fri, 2012-02-03 22:59
3
7,499 by rmoretti
Mon, 2014-04-21 06:47
Normal topic RosettaCM
by DmitriiN » Sun, 2017-01-22 17:52
3
2,896 by smlewis
Mon, 2017-01-23 06:26
Normal topic Why is proline hydroxylated?
by kwonglynn » Tue, 2013-06-25 02:38
3
5,071 by rmoretti
Mon, 2014-04-21 06:48
Normal topic ddG_monomer
by cott1117 » Thu, 2014-06-12 09:53
3
4,892 by rmoretti
Wed, 2014-07-02 16:55
Normal topic Rosetta Ligand Ensemble
by malfonsoprieto » Wed, 2021-05-26 10:21
3
1,776 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
3,207 by smlewis
Mon, 2014-04-21 06:47
Normal topic Homodimer interface design
by petrikigor » Fri, 2012-11-16 10:57
3
4,865 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
2,812 by rmoretti
Tue, 2017-08-22 09:03
Normal topic relax and movemap
by Alison_Yajie » Wed, 2020-05-20 21:27
3
2,112 by smlewis
Thu, 2020-05-21 21:05
Normal topic relax with resfile
by gw » Fri, 2011-08-05 10:57
3
5,982 by nannemdp
Mon, 2014-04-21 06:47
Normal topic pdb2vall
by JadAbbass » Mon, 2013-07-08 12:11
3
3,761 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Problem with symmetric docking
by saxen » Fri, 2011-04-29 15:15
3
3,978 by smlewis
Mon, 2014-04-21 06:47
Normal topic Error when running cluster
by aloshbau » Wed, 2013-05-01 20:45
3
4,489 by rmoretti
Mon, 2014-04-21 06:47
Normal topic cluster.mpi.linuxgccrelease failed
by fred » Mon, 2014-02-24 12:11
3
7,899 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
3,237 by sn
Mon, 2017-03-06 10:03
Normal topic clean_pdb not working
by Andre Serobian » Thu, 2020-07-23 04:48
3
2,302 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
2,853 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
1,715 by everyday847
Wed, 2020-12-09 21:46
Normal topic how to make "static" built binaries use multiple cpus like "mpi"?
by Danielsebas » Wed, 2019-09-18 06:41
3
2,438 by rmoretti
Wed, 2019-09-18 10:21
Normal topic HBNet and RosettaScripts
by protos_heis » Tue, 2014-08-05 06:05
3
4,078 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
3,763 by dswhit
Tue, 2015-04-21 10:14
Normal topic deltaG calculations
by Prasanth Kumar » Wed, 2013-05-15 07:06
3
6,216 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
4,456 by Patrícia Antunes
Fri, 2023-01-20 11:55
Normal topic Homology Modelling with cofactors
by Derek Smith » Thu, 2015-07-09 08:24
3
4,335 by Derek Smith
Wed, 2016-02-03 05:47
Normal topic FlexPepDock for protein containing multiple chains
by Dimitrov » Mon, 2012-10-08 08:31
3
3,868 by smlewis
Mon, 2014-04-21 06:47
Normal topic Unable to locate the "compute_ddg.py" file and running the RosettaMP protocol
by Sajjad » Mon, 2022-11-28 14:09
3
4,634 by Sajjad
Wed, 2022-11-30 11:50
Normal topic Problems incorporating nucleotides (GTP/GDP) into the modeling process for RosettaCM
by ajkal » Fri, 2017-04-14 08:44
3
3,398 by rmoretti
Thu, 2017-04-20 13:59
Normal topic ab initio
by malkeet.singh » Thu, 2018-05-10 05:34
3
3,202 by malkeet.singh
Mon, 2018-05-21 04:26
Normal topic Up to date Vall database
by JadAbbass » Sat, 2013-06-29 10:35
3
5,647 by rmoretti
Tue, 2017-06-20 09:02
Normal topic error with fragment_picker.linuxgccrelease
by jiongzhang » Tue, 2012-04-17 09:07
3
3,430 by smlewis
Mon, 2014-04-21 06:47
Normal topic  The error of InterfaceAnalyzer
by asbelx » Thu, 2017-12-21 19:04
3
3,792 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
4,231 by rmoretti
Mon, 2014-04-21 06:48
Normal topic folding ectodomain in membrane ab initio
by freedman » Mon, 2015-05-25 21:09
3
3,769 by rmoretti
Fri, 2015-06-19 13:53
Normal topic How to Perform point mutations with NCAA
by Subhrodeep Saha » Tue, 2021-06-22 02:05
2
1,834 by dnamkr
Fri, 2022-04-22 17:00
Normal topic high-res docking
by tfliu » Mon, 2013-07-15 02:49
2
3,219 by tfliu
Mon, 2014-04-21 06:48
Normal topic error extracting PDB from silent from AbinitioRelax with constraints
by attesor » Wed, 2017-06-14 04:15
2
2,245 by smlewis
Fri, 2017-06-16 07:35
Normal topic kinematic loop modeling multiple input: possible?
by a_s_a » Thu, 2011-05-12 09:33
2
3,246 by a_s_a
Mon, 2014-04-21 06:47
Normal topic very good I_sc values (if not too good)
by attesor » Tue, 2015-11-03 03:30
2
3,096 by attesor
Tue, 2015-11-17 07:36
Normal topic Ensemble docking causes segmentation fault 11
by David Weis » Mon, 2017-03-06 14:30
2
2,774 by David Weis
Mon, 2017-03-13 06:40
Normal topic Centroid mode minimization
by Martin Floor » Tue, 2020-01-21 07:34
2
1,860 by Martin Floor
Tue, 2020-01-21 11:15
Normal topic residues_patch_selectors CENTROID_HA
by Pernille » Fri, 2014-10-03 03:53
2
2,921 by Pernille
Wed, 2014-10-08 10:41
Normal topic docking with constraints and flexible bb
by mintseris » Mon, 2015-06-22 09:07
2
3,004 by mintseris
Wed, 2015-06-24 22:04
Normal topic Problems running pmut in parallel with openmpi
by RMJ » Fri, 2012-09-21 06:25
2
3,888 by RMJ
Mon, 2014-04-21 06:47
Normal topic Docking with constraint
by Hongtham » Sat, 2014-12-27 09:56
2
2,733 by rmoretti
Fri, 2015-01-02 09:43
Normal topic Docking-I_sc values do not correlate
by jlawrie » Wed, 2020-08-12 08:08
2
1,618 by jlawrie
Wed, 2020-08-12 08:57
Normal topic Generate fragment locally
by deltag » Wed, 2012-02-01 06:26
2
3,367 by deltag
Mon, 2014-04-21 06:47
Normal topic InterfaceAnalyzer dSasa calculation
by mintseris » Wed, 2015-09-02 09:43
2
4,322 by jadolfbr
Thu, 2015-09-03 16:18
Normal topic How to correctly incorporate constraint information into ab initio structure prediction?
by johnnytam100 » Tue, 2019-02-19 03:13
2
2,119 by johnnytam100
Fri, 2019-03-01 01:36
Normal topic not knowing which one of three ways to run rosettascript
by xinmiaohe » Tue, 2020-10-13 13:52
2
1,818 by xinmiaohe
Mon, 2020-10-19 13:18
Normal topic How do I explicitly add residues for design in the interface optimization script?
by ahonegger » Mon, 2014-05-12 07:40
2
3,359 by ahonegger
Mon, 2014-05-12 09:08
Normal topic AddHelixSequenceConstraints Mover
by Negarsardar » Thu, 2019-05-30 03:17
2
1,711 by vmulligan
Thu, 2019-06-13 14:59
Normal topic Problems with fixbb in Rosetta 3.5
by mdidonato » Wed, 2014-06-04 13:56
2
2,590 by mdidonato
Wed, 2014-06-04 14:55
Normal topic Scoring docking error
by almeida85 » Wed, 2020-09-02 01:32
2
1,527 by almeida85
Wed, 2020-09-02 06:14
Normal topic Abinito for Multimers
by Prasanth Kumar » Wed, 2014-01-22 17:45
2
3,377 by Prasanth Kumar
Mon, 2014-04-21 06:48
Normal topic Not found some Flags
by jrcf » Sat, 2015-09-19 12:08
2
3,945 by jrcf
Mon, 2015-09-21 11:10
Normal topic Dock cyclic peptide with non-canonical amino acids to protein target using rosetta flexpepdock?
by lei » Mon, 2023-09-11 23:34
2
282 by lei
Wed, 2023-09-13 19:35
Normal topic Ligand atom RMSD calculation
by lkrathn » Wed, 2013-08-14 21:25
2
4,555 by lkrathn
Mon, 2014-04-21 06:48
Normal topic does the loop kinetic support MPI now?
by albumns » Fri, 2012-10-26 06:31
2
2,447 by smlewis
Mon, 2014-04-21 06:47
Normal topic Warnings during relax
by cossio » Thu, 2018-10-11 14:42
2
3,127 by rmoretti
Mon, 2019-11-04 13:56
Normal topic Rosetta Antibody Design: Error with foldtree: problem with the fold_tree:biggest_label != num_jump 2 1
by cm21 » Wed, 2020-05-20 08:55
2
1,644 by cm21
Wed, 2020-05-20 11:22
Normal topic The energy terms in InterfaceAnalyzer
by Sunyp_IM » Tue, 2021-11-02 18:43
2
1,300 by zivben
Sat, 2021-11-13 04:49
Normal topic RosettaRemodel
by gw » Wed, 2011-09-14 13:24
2
3,517 by smlewis
Mon, 2014-04-21 06:47
Normal topic printing our per-residue energies including H-bonding energies
by vijayan » Tue, 2013-07-02 08:51
2
3,640 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Adding water interactions when docking a ligand with Rosetta 3.7.
by brspurri » Thu, 2017-06-01 09:37
2
3,263 by brspurri
Thu, 2017-06-01 10:58
Normal topic Problem with SymmDock in helical symmetry
by mumdonar » Wed, 2013-09-18 03:59
2
3,751 by mumdonar
Mon, 2014-04-21 06:48
Normal topic where is generate_ligens.linuxgccrelease?
by Nicole Deng » Thu, 2020-12-03 00:00
2
1,568 by Nicole Deng
Fri, 2020-12-18 00:28
Normal topic protein-ligand docking rescoring with interfaceAnalyzer
by syntekabio2019 » Sat, 2020-12-19 03:59
2
1,315 by syntekabio2019
Sun, 2020-12-20 21:10
Normal topic D-amino acids tripeptide docking.
by sam_dc » Sat, 2021-07-03 08:48
2
1,338 by vmulligan
Tue, 2021-07-06 08:27
Normal topic Modeling flexible linkers with Floppytail
by pdbb » Sun, 2013-05-12 15:55
2
3,163 by smlewis
Mon, 2014-04-21 06:47
Normal topic Docking seems to not parse the -nstruct flag
by rosend » Tue, 2015-11-17 12:01
2
3,637 by rosend
Tue, 2015-11-17 12:12
Normal topic DDG_monomer application
by shadrinams » Mon, 2018-02-12 12:14
2
3,088 by shadrinams
Wed, 2018-03-14 07:46
Normal topic Error when trying docking protocol with different ligand
by scyphs » Wed, 2020-08-05 04:37
2
1,439 by scyphs
Mon, 2020-08-10 08:09
Normal topic Could not open file /Rosetta/rosetta_bin_linux_2020.08.61146_bundle/main/database/citations/rosetta_citations
by yliang20 » Wed, 2022-06-15 11:26
2
1,277 by yliang20
Wed, 2022-06-15 13:46
Normal topic homology modeling with threading says length mismatch between sequence and alignment
by rqliang » Thu, 2015-08-06 11:46
2
2,789 by jharamesh
Sat, 2015-08-08 19:51
Normal topic The Usage of motifgraft
by Sunyp_IM » Sun, 2017-11-19 20:22
2
3,247 by Sunyp_IM
Mon, 2017-11-20 19:20
Normal topic Chemically bound ligand connection error
by tsztain » Tue, 2019-01-01 18:40
2
2,168 by tsztain
Mon, 2019-02-18 09:55
Normal topic Speed problem when running RosettaLigand ligand docking
by Nicole Deng » Tue, 2019-10-08 04:29
2
2,082 by Nicole Deng
Tue, 2020-11-03 19:07
Normal topic homology modeling- Error: length mismatch between sequence and alignment.
by pdbb » Mon, 2012-10-01 07:57
2
4,328 by pdbb
Mon, 2014-04-21 06:47
Normal topic DDG monomer and backrub motions
by yperez » Thu, 2012-06-21 08:10
2
3,248 by yperez
Mon, 2014-04-21 06:47
Normal topic Element 'trRosettaProtocol': This element is not expected.
by csaylan » Tue, 2021-04-20 14:21
2
1,329 by csaylan
Tue, 2021-04-20 16:13
Normal topic Packstat score in InterfaceAnalyzer
by Vedasheersh » Fri, 2017-01-27 06:21
2
2,835 by smlewis
Fri, 2017-01-27 07:20
Normal topic Alanine Scanning for 1 Protein (no interface)
by mags33 » Fri, 2019-10-25 10:08
2
2,232 by mags33
Wed, 2019-11-06 09:35
Normal topic Rosetta Design: Non-canonical amino acid substrate not accepted
by Friedrich Ehinger » Fri, 2023-08-04 00:09
2
329 by Friedrich Ehinger
Fri, 2023-08-04 08:38
Normal topic How to sort a Silent File based on RMSD
by JadAbbass » Sun, 2013-08-04 14:40
2
3,444 by lanselibai
Mon, 2014-10-06 15:30
Normal topic flexpepdock_score_only
by ays » Sun, 2014-09-21 06:17
2
2,568 by ays
Tue, 2014-09-30 08:31
Normal topic SPLINE EPR_DISTANCE Constraint Error
by mmw88 » Tue, 2018-09-18 14:39
2
2,306 by rmoretti
Thu, 2018-09-20 09:19
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
1,533 by brspurri
Thu, 2020-05-14 12:24
Normal topic A question on the logic of enzyme design
by agulsevin » Thu, 2013-06-13 08:10
2
3,917 by agulsevin
Mon, 2014-04-21 06:48
Normal topic CSrosetta run problem
by erin_cutts » Fri, 2013-06-28 09:52
2
3,596 by erin_cutts
Mon, 2014-04-21 06:48
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