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Rosetta 3 - Applications

Topic / Topic startersort ascending Replies Views Last post
Normal topic rna structure prediction
by cbala » Thu, 2011-04-14 07:42
5
5,290 by mkoohim
Mon, 2014-04-21 06:47
Normal topic RNA structure prediction
by emaghdam » Sat, 2014-02-08 01:30
4
5,225 by rmoretti
Mon, 2014-02-24 09:12
Normal topic RNA modeling with step wise Monte Carlo error
by szcshr123 » Mon, 2020-12-07 18:08
3
1,409 by everyday847
Wed, 2020-12-09 21:46
Normal topic Rna Denovo
by helderveras » Wed, 2020-05-06 08:40
5
2,433 by everyday847
Wed, 2020-05-20 08:52
Normal topic RMSD calculation
by hamedkhakzad » Tue, 2016-09-13 04:56
2
3,670 by rmoretti
Wed, 2016-09-14 02:05
Normal topic RMS determination using Rosetta 3.3
by adraney » Thu, 2011-12-08 12:44
2
3,027 by mark.wilson
Mon, 2014-04-21 06:47
Normal topic RIFdocking:Unable to locate database file chemical/residue_type_sets/fa_standard/residue_types/
by sia » Tue, 2022-08-02 20:06
2
869 by SeongRyeong Go
Mon, 2022-08-15 18:31
Normal topic revert_design_to_native app comparison to FavorNativeResidue mover
by nwhoppe » Wed, 2016-06-29 14:35
3
3,726 by rmoretti
Tue, 2016-07-12 09:30
Normal topic Results of enzyme_design not consistent with Resfile
by yogeshkd » Thu, 2013-02-14 15:56
6
5,970 by yogeshkd
Mon, 2014-04-21 06:47
Normal topic restrain residues in docking
by albumns » Sat, 2013-11-02 08:52
1
2,422 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic Residue_energy_breakdown utility
by cn » Sat, 2012-03-17 06:11
3
3,254 by cn
Mon, 2014-04-21 06:47
Normal topic residue_energy_breakdown of a protein-ligand complex.
by sam_dc » Tue, 2021-05-18 04:45
1
876 by rmoretti
Tue, 2021-05-18 07:21
Normal topic residues_patch_selectors CENTROID_HA
by Pernille » Fri, 2014-10-03 03:53
2
2,724 by Pernille
Wed, 2014-10-08 10:41
Normal topic Residue selector
by Alison_Yajie » Wed, 2020-06-17 19:57
0
673 by Alison_Yajie
Thu, 2020-06-18 09:47
Normal topic Resfile as a input for InterfaceAnalyzer
by palak8669 » Sun, 2015-06-07 21:46
1
1,803 by smlewis
Mon, 2015-06-08 06:35
Normal topic Reproducing the exact result using information from previos run
by nawsad » Thu, 2013-03-14 12:05
2
2,339 by nawsad
Mon, 2014-04-21 06:47
Normal topic Reproduce Robetta's ddg values of interface alanine scan using Rosetta?
by cossio » Mon, 2015-01-19 07:14
0
2,573 by cossio
Mon, 2015-01-19 07:14
Normal topic Representing Cross-linked nitrogens
by jjlee2 » Sat, 2011-11-26 18:42
1
2,251 by smlewis
Mon, 2014-04-21 06:47
Normal topic reporting bugs? (erraser in rosetta 3.10)
by meyer » Fri, 2018-12-14 09:40
2
1,667 by everyday847
Fri, 2019-03-29 13:13
Normal topic ReplicaDock2.0 demo fails with MPIFileBufJobDistributor: (1) [ ERROR ]
by erpannec » Tue, 2022-08-09 05:42
4
895 by erpannec
Thu, 2022-09-15 05:17
Normal topic ReplicaDock 2.0 Native vs Input Structure Flags Confusion
by katherinemccoy » Tue, 2022-12-27 06:42
2
4,015 by katherinemccoy
Tue, 2023-02-28 18:19
Normal topic Repeatability of DDG calculation
by jennifer » Wed, 2015-04-08 05:29
0
1,447 by jennifer
Wed, 2015-04-08 05:29
Normal topic Repacker vs minimization
by Elijah_Hix » Fri, 2021-07-02 07:25
0
469 by Elijah_Hix
Fri, 2021-07-02 07:25
Normal topic RemodelMover and Input Pose
by ozyo » Tue, 2020-12-29 09:41
0
685 by ozyo
Tue, 2020-12-29 09:41
Normal topic remodel: what are the exact meanings of notations for secondary structure?
by lanselibai » Sat, 2015-01-17 04:53
0
1,345 by lanselibai
Sat, 2015-01-17 07:57
Normal topic Remodel: the pose does not have residue with chain=H, PDBnum=114
by lanselibai » Wed, 2019-12-25 13:35
1
1,735 by lanselibai
Fri, 2019-12-27 09:38
Normal topic Remodel: neighbor cutoff
by felipet » Wed, 2014-07-16 08:11
2
2,408 by felipet
Thu, 2014-07-17 10:13
Normal topic Remodel's problem in treatment with non-protein residues
by Corvin » Mon, 2021-12-13 09:07
0
651 by Corvin
Mon, 2021-12-13 09:07
Normal topic Remodel with residue constraints
by sn » Fri, 2017-03-10 01:40
2
2,101 by rmoretti
Mon, 2017-03-13 08:01
Normal topic remodel gives no output
by coomteng@gmail.com » Tue, 2018-03-06 07:40
3
2,697 by rmoretti
Wed, 2018-03-07 08:44
Normal topic remodel ERROR: unrecognized mm_atom_type_name RGU
by daniloboskovic » Sat, 2020-02-22 11:55
1
1,174 by daniloboskovic
Tue, 2020-02-25 08:28
Normal topic Relaxing protein-RNA complexes
by rkirchdo » Fri, 2018-08-03 08:50
1
1,375 by rmoretti
Fri, 2018-08-24 11:28
Normal topic Relaxed proteins show higher clash score in molprobity results.
by Wang Zhe » Fri, 2021-12-03 04:32
4
1,894 by smlewis
Wed, 2021-12-08 13:02
Normal topic relax.linuxgccrelease in multiple processors
by jpfuenzalidawx » Thu, 2021-01-14 14:07
5
2,130 by jadolfbr
Fri, 2021-01-15 08:06
Normal topic relax with resfile
by gw » Fri, 2011-08-05 10:57
3
5,654 by nannemdp
Mon, 2014-04-21 06:47
Normal topic Relax with RDC data gives segmentation fault
by sn » Mon, 2018-07-23 11:39
1
1,363 by rmoretti
Fri, 2018-08-03 07:54
Normal topic Relax with protein+complex
by Prasanth Kumar » Wed, 2013-05-08 23:16
4
5,155 by Prasanth Kumar
Mon, 2014-04-21 06:47
Normal topic Relax with multiple small molecules
by jharamesh » Sun, 2019-05-26 19:34
1
1,427 by rmoretti
Mon, 2019-06-24 15:19
Normal topic Relax with a ligand is messing up the coordinates of the ligand
by brspurri » Sat, 2015-01-24 12:39
1
2,645 by rmoretti
Mon, 2015-01-26 12:15
Normal topic relax VS. backrub
by jiongzhang » Mon, 2012-07-02 14:52
1
2,351 by smlewis
Mon, 2014-04-21 06:47
Normal topic Relax structure with metal cofactors
by h_trasatti » Tue, 2017-03-14 14:04
2
2,640 by rmoretti
Tue, 2017-03-28 08:51
Normal topic relax protein with multi-conformer bound ligand
by xfradera » Thu, 2023-01-12 09:10
4
2,555 by rmoretti
Mon, 2023-02-06 15:06
Normal topic Relax multiple PDB files with MPI, jd2, and a pdblist on TACC Stampede2
by AJVincelli » Sat, 2018-07-14 13:14
1
1,737 by AJVincelli
Sun, 2018-11-25 11:29
Normal topic relax job failed
by albumns » Sat, 2014-07-26 00:21
1
1,921 by rmoretti
Sun, 2014-07-27 10:48
Normal topic Relax is resulting in a Segmentation Fault
by brspurri » Thu, 2017-08-24 18:46
3
3,244 by brspurri
Sat, 2017-08-26 07:08
Normal topic Relax in membrane pull my protein out of the membrane
by Martin Floor » Wed, 2022-01-26 07:46
0
733 by Martin Floor
Wed, 2022-01-26 07:46
Normal topic Relax evaluates protein-DNA complexes?
by pablogalazdavison » Thu, 2022-05-12 12:05
2
858 by pablogalazdavison
Fri, 2022-05-20 12:27
Normal topic relax constraints not minimized
by m_grisewood » Fri, 2012-08-10 08:31
2
3,378 by m_grisewood
Mon, 2014-04-21 06:47
Normal topic Relax both peptide and ligands
by matteoferla » Thu, 2018-09-13 03:11
3
2,218 by smlewis
Fri, 2018-09-14 10:34
Normal topic relax and movemap
by Alison_Yajie » Wed, 2020-05-20 21:27
3
1,814 by smlewis
Thu, 2020-05-21 21:05
Normal topic Relax a structure with >1 copy of a modified residue fails [Solved]
by franfdez » Wed, 2012-02-08 00:47
6
5,899 by franfdez
Mon, 2014-04-21 06:47
Normal topic relax a protein with phosphorylated serine residue
by zruan » Thu, 2018-02-01 09:18
3
2,526 by rmoretti
Tue, 2018-02-06 09:47
Normal topic Regarding the efficiency of the new low resolution ligand-docking movement “Transform”.
by Martin Floor » Mon, 2017-05-15 09:19
2
2,304 by Martin Floor
Mon, 2017-05-15 11:13
Normal topic regarding extracting silent file - renamed tag
by shrutikhare » Thu, 2014-04-17 01:19
2
2,422 by shrutikhare
Fri, 2014-04-18 23:11
Normal topic refining crystal structure using phenix without CIF file
by banshee » Fri, 2016-09-09 01:14
2
2,833 by banshee
Mon, 2016-09-12 23:41
Normal topic References where Rosetta is used to compute ddG of binding after mutation?
by cossio » Tue, 2015-03-17 05:13
1
2,617 by rmoretti
Wed, 2015-03-25 11:33
Normal topic Rebuilding the structure from unknown residues
by sushreet » Mon, 2016-06-27 09:32
4
4,576 by rmoretti
Tue, 2016-07-12 09:35
Normal topic Re: Glutamic acid protonation
by bharat_46010 » Fri, 2017-02-10 03:08
4
4,157 by rmoretti
Mon, 2017-02-20 08:09
Normal topic radius of gyration as constrain
by dhirajks » Sat, 2018-05-05 23:00
1
1,461 by smlewis
Mon, 2018-05-07 11:42
Normal topic RAbD with N-term,Proline-like ncaa returns segmentation fault during CCDEndsGraftMover
by CordycepsLin » Sun, 2022-02-06 19:09
9
2,271 by CordycepsLin
Wed, 2022-02-09 19:39
Normal topic Questions for "modeling_instructions.pdf" in "Homology or Loop Modelling"
by lanselibai » Sun, 2014-09-21 09:02
10
9,877 by lanselibai
Tue, 2014-10-07 02:58
Normal topic Question with rosetta AbPredict tutorial
by terabithia2011 » Mon, 2021-01-25 09:24
0
604 by terabithia2011
Mon, 2021-01-25 09:24
Normal topic Question on restraining receptor symmetry when docking ligand
by subha » Fri, 2018-07-06 21:59
1
1,304 by rmoretti
Fri, 2018-08-03 08:16
Normal topic Question on Designing with NCAAs
by salvatta » Mon, 2018-09-10 10:09
1
1,414 by rmoretti
Thu, 2018-09-20 09:23
Normal topic Question about running scallo
by danbo » Mon, 2021-11-29 23:25
8
2,385 by danbo
Wed, 2021-12-22 23:51
Normal topic Question about fastsaxs and saxs_score
by orionshih » Thu, 2019-06-13 02:30
2
1,583 by orionshih
Wed, 2019-06-26 03:54
Normal topic Python2 script in Rosetta3.13
by ddhoyo » Wed, 2021-09-15 04:05
1
855 by matteoferla
Wed, 2021-09-15 06:04
Normal topic Protonating all possible sites: the problem in MOL2 file format or the innate Rosetta feature(bug)?
by Corvin » Wed, 2020-12-16 04:58
0
764 by Corvin
Wed, 2020-12-30 09:21
Normal topic ProteinLigandInterfaceUpweighter for protein-protein interactions?
by ahonegger » Mon, 2014-06-02 06:53
2
2,913 by ahonegger
Fri, 2014-06-06 09:31
Normal topic ProteinInterfaceMS
by rbjacob » Wed, 2018-10-24 11:31
1
1,260 by rmoretti
Wed, 2018-11-21 15:10
Normal topic ProteinInterfaceDesign algorithm questions
by tsztain » Mon, 2019-02-18 14:10
1
1,494 by rmoretti
Sun, 2019-08-25 19:15
Normal topic Protein/Protein Ddg demo: How to write predicted mutant structures?
by cossio » Wed, 2015-11-04 20:14
1
1,718 by rmoretti
Tue, 2015-11-10 11:10
Normal topic protein-protein docking with flexible backbone
by tim » Fri, 2013-12-20 05:52
1
4,113 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Protein-Protein Docking or Comparative Modeling
by Morrian_Lynn » Wed, 2020-01-29 19:01
1
1,114 by danpf
Fri, 2020-02-21 18:23
Normal topic protein-protein docking
by cbala » Mon, 2011-04-18 09:15
1
2,393 by smlewis
Mon, 2014-04-21 06:47
Normal topic protein-ligand docking rescoring with interfaceAnalyzer
by syntekabio2019 » Sat, 2020-12-19 03:59
2
1,116 by syntekabio2019
Sun, 2020-12-20 21:10
Normal topic Protein-DNA Docking using RosettaScripts?
by brspurri » Fri, 2013-06-07 09:06
1
4,172 by rmoretti
Mon, 2014-04-21 06:48
Normal topic protein structure prediction using relax -- high-powered jobs
by rfieldhouse » Mon, 2011-05-30 18:29
7
7,015 by dimaio
Mon, 2014-04-21 06:47
Normal topic protein relax
by Alison_Yajie » Tue, 2020-05-19 08:29
0
705 by Alison_Yajie
Tue, 2020-05-19 08:29
Normal topic protein protein interaction design
by Negarsardar » Wed, 2019-05-15 06:13
3
2,931 by ajasja
Wed, 2019-05-15 15:40
Normal topic Protein Protein Docking with Linker
by mrinal » Mon, 2023-03-20 15:58
0
421 by mrinal
Mon, 2023-03-20 15:58
Normal topic Protein Protein Docking with Constraints
by ajaniharesh » Wed, 2019-04-10 07:26
1
1,397 by rmoretti
Thu, 2019-05-09 15:40
Normal topic protein interface design
by Negarsardar » Tue, 2019-05-28 07:04
2
1,770 by Negarsardar
Thu, 2019-05-30 23:46
Normal topic protein interction design
by Negarsardar » Wed, 2019-05-15 12:01
1
1,241 by rmoretti
Wed, 2019-07-10 09:24
Normal topic Protein Ensemble RosettaLigand Docking
by sam_dc » Fri, 2021-03-26 10:18
2
1,148 by sam_dc
Fri, 2021-03-26 12:04
Normal topic protein docking failed
by albumns » Thu, 2012-11-08 02:59
6
5,588 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Protein design: Ligand binding between two units of a homodimer
by chemotaxis_123 » Sun, 2022-01-02 16:01
0
642 by chemotaxis_123
Sun, 2022-01-02 16:01
Normal topic Protein Design
by ac.research » Wed, 2017-02-15 19:25
1
2,531 by cdbahl
Sat, 2017-02-18 13:02
Normal topic proline patching problem
by xun » Tue, 2012-01-03 11:15
3
3,584 by xun
Mon, 2014-04-21 06:47
Normal topic profit program in antibody design
by tzhou » Tue, 2013-10-15 23:29
1
2,616 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Problems with waters in CoupledMoves application
by Corvin » Tue, 2021-11-16 07:16
0
666 by Corvin
Tue, 2021-11-16 07:22
Normal topic Problems with mpi version of antibody.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 23:06
0
864 by Sunyp_IM
Thu, 2020-05-28 23:07
Normal topic Problems with ligand when running RosettaLigand
by Cat » Mon, 2013-05-20 15:58
6
5,895 by Aben
Tue, 2023-04-18 01:31
Normal topic Problems with Ligand Docking
by saxen » Fri, 2011-08-19 00:19
8
8,001 by glemmon
Mon, 2014-04-21 06:47
Normal topic problems with generating the params file
by dyu » Thu, 2017-09-28 13:34
2
1,973 by dyu
Thu, 2017-09-28 18:54
Normal topic Problems with fixbb in Rosetta 3.5
by mdidonato » Wed, 2014-06-04 13:56
2
2,394 by mdidonato
Wed, 2014-06-04 14:55
Normal topic Problems with always_constrained_relax_script
by wsgosal » Wed, 2013-05-29 04:39
3
4,389 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Problems when running Rosetta VIP with cofactors
by Basantab » Fri, 2013-04-26 13:31
14
13,695 by Basantab
Mon, 2014-04-21 06:47
Normal topic Problems running pmut in parallel with openmpi
by RMJ » Fri, 2012-09-21 06:25
2
3,681 by RMJ
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
3,103 by rmoretti
Thu, 2017-04-20 13:59
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