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Rosetta 3 - Applications

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Normal topic Scoring functions: talaris2013 incompatible versions
by Smbat » Tue, 2020-10-13 06:18
5
3,079 by Astghik
Thu, 2020-10-15 00:48
Normal topic How to use MHC Epitope energy (mhc_epitope) to deimmunize a protein structure?
by Sunyp_IM » Sun, 2020-11-08 08:07
5
3,083 by Brahm Yachnin
Wed, 2020-11-18 17:21
Normal topic Score Functions for Ligand-protein Docking
by ziruiw » Sun, 2021-04-25 13:41
4
3,089 by ziruiw
Fri, 2021-04-30 12:01
Normal topic How to specify only design surface residues and loops by RosettaScripts?
by johnnytam100 » Sun, 2019-04-07 21:47
4
3,090 by johnnytam100
Wed, 2019-04-10 02:48
Normal topic ROSETTALIGAND: How to prepare data to plot ROC curves using rosettaligand docking result???
by Ryhon Wang » Mon, 2016-01-04 22:36
1
3,093 by rmoretti
Tue, 2016-01-05 08:35
Normal topic KeyError: 'subject-id' in antibody modelling
by bogac » Mon, 2017-03-06 02:00
2
3,107 by bogac
Tue, 2017-03-07 02:11
Normal topic docking with constraints and flexible bb
by mintseris » Mon, 2015-06-22 09:07
2
3,119 by mintseris
Wed, 2015-06-24 22:04
Normal topic Can I believe the antibody design result?
by Sunyp_IM » Mon, 2020-11-30 03:29
6
3,121 by jadolfbr
Sun, 2020-12-06 17:41
Normal topic Floppy tail: sidechain mutation during calculation
by syoifczeri » Mon, 2015-03-09 19:01
2
3,125 by syoifczeri
Tue, 2015-03-10 23:08
Normal topic how to find help informations on rosetta_scripts in rosetta3.10
by xinmiaohe » Mon, 2019-08-26 14:48
5
3,126 by xinmiaohe
Tue, 2019-08-27 08:37
Normal topic loopmodel issue
by chiendarret » Fri, 2012-01-27 00:51
1
3,127 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
3,131 by rlwoltz
Mon, 2014-04-21 06:47
Normal topic SymDock with constraints
by felipet » Thu, 2015-05-14 09:01
1
3,141 by rmoretti
Mon, 2015-05-25 11:49
Normal topic ERROR: Rosetta does not recognize the property: SIDECHAIN_THIOL, when running minimize_with_cst.linuxgccrelease
by cossio » Thu, 2015-09-03 08:46
1
3,145 by rmoretti
Fri, 2015-09-04 10:25
Normal topic How to build disulfide bond between two cysteine, i.e. change two "-SH" (sulfydryl) into "-S-S-"?
by lanselibai » Sat, 2015-01-17 11:19
1
3,145 by lanselibai
Wed, 2015-01-21 02:40
Normal topic Use NMR ensemble in protein-protein docking?
by cossio » Sun, 2015-09-13 07:57
2
3,148 by cossio
Tue, 2015-09-15 12:48
Normal topic Segmentation fault when running Abinito Relax
by Hongtham » Mon, 2014-12-15 07:16
1
3,152 by rmoretti
Fri, 2015-01-02 11:45
Normal topic Behavior of nstruct
by johnnytam100 » Wed, 2019-05-15 22:22
3
3,155 by johnnytam100
Tue, 2019-05-21 20:48
Normal topic Connecting linkers
by Prasanth Kumar » Tue, 2014-05-06 00:53
1
3,160 by smlewis
Mon, 2014-05-12 08:32
Normal topic problem when exact pdb from silent file
by wenchangyu2008 » Mon, 2011-04-18 00:42
1
3,163 by wenchangyu2008
Mon, 2014-04-21 06:47
Normal topic Error with the mpi version of simple_cycpep_predict
by Florent Langenfeld » Wed, 2020-02-05 05:16
5
3,164 by vmulligan
Fri, 2020-04-10 02:54
Normal topic Rosetta ab initio run gives 0.00 RMSD for generated 2000 models? (run still in progress)
by Danielsebas » Mon, 2019-09-23 03:24
5
3,177 by smlewis
Mon, 2019-09-23 11:42
Normal topic Rosetta Remodel - Error in core::conformation::Conformation::residue(): The sequence position requested was 0.
by daniloboskovic » Fri, 2019-11-08 08:24
1
3,180 by Payne
Tue, 2022-06-21 07:25
Normal topic Symmetry definition for apolar helix
by vanrooyenjason » Tue, 2016-01-05 05:20
1
3,186 by rmoretti
Fri, 2016-04-29 09:21
Normal topic RosettaCM input file for running on Stampede
by smathersc » Wed, 2017-01-18 16:12
3
3,188 by rmoretti
Thu, 2017-02-02 09:02
Normal topic The question of ligand docking with constraints
by asbelx » Mon, 2018-06-11 09:39
3
3,189 by rmoretti
Thu, 2018-06-28 12:58
Normal topic Membrane homology modeling loop building gives very strange outputs
by chelsell » Tue, 2014-09-30 14:46
2
3,190 by chelsell
Wed, 2014-10-08 12:25
Normal topic remodel gives no output
by coomteng@gmail.com » Tue, 2018-03-06 07:40
3
3,200 by rmoretti
Wed, 2018-03-07 08:44
Normal topic placing a constraint during structure prediction
by cbala » Thu, 2011-04-07 08:54
1
3,201 by ic3reyes
Mon, 2014-04-21 06:47
Normal topic Segmentation Fault during prepacking
by Sunyp_IM » Fri, 2020-06-12 11:24
4
3,203 by Sunyp_IM
Thu, 2020-07-09 18:40
Normal topic How to use Rosetta to DISCARD a protein-protein docking interface?
by cossio » Tue, 2015-05-26 06:24
2
3,209 by rmoretti
Sat, 2015-07-11 13:38
Normal topic Idealize in Rosetta 3.3
by jadolfbr » Tue, 2011-12-06 11:59
2
3,210 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic The question about ligand score function
by asbelx » Sun, 2018-06-17 02:07
2
3,214 by asbelx
Mon, 2018-06-18 22:34
Normal topic Symmetric docking with multiple chains as asymmetric unit
by sarah29 » Tue, 2013-11-05 20:24
1
3,215 by rmoretti
Mon, 2014-04-21 06:48
Normal topic How to add a residue to one chain of an existing structure?
by sn » Mon, 2017-04-17 09:34
2
3,216 by sn
Thu, 2017-04-20 21:43
Normal topic refining crystal structure using phenix without CIF file
by banshee » Fri, 2016-09-09 01:14
2
3,217 by banshee
Mon, 2016-09-12 23:41
Normal topic very good I_sc values (if not too good)
by attesor » Tue, 2015-11-03 03:30
2
3,221 by attesor
Tue, 2015-11-17 07:36
Normal topic Segmentation Fault in Fragment picking
by ashu4487 » Fri, 2018-07-06 20:47
2
3,226 by ashu4487
Mon, 2018-07-16 19:24
Normal topic Fragments for long sequence
by exchhattu » Tue, 2011-10-04 01:51
2
3,233 by exchhattu
Mon, 2014-04-21 06:47
Normal topic Docking membrane ions and water
by jrcf » Tue, 2017-02-07 15:47
3
3,243 by smlewis
Wed, 2017-02-15 07:43
Normal topic cartesian_ddg error: "Assertion `files.size() == 1` failed."
by cossio » Fri, 2018-05-11 09:59
2
3,244 by cossio
Fri, 2018-05-18 09:51
Normal topic How to concatenate the 3-mer and 9-mer files for RosettaCM?
by lanselibai » Fri, 2020-05-08 05:38
5
3,246 by danpf
Tue, 2020-05-12 10:58
Normal topic DDG_monomer application
by shadrinams » Mon, 2018-02-12 12:14
2
3,247 by shadrinams
Wed, 2018-03-14 07:46
Normal topic Allow region of protein to move in a certain direction
by sn » Wed, 2017-08-23 17:07
3
3,251 by rmoretti
Thu, 2017-08-24 11:00
Normal topic how to reconstruct the whole complex after symmetric docking
by Anonymous » Tue, 2012-07-03 02:44
2
3,257 by felipet
Wed, 2014-07-02 07:26
Normal topic FlexPepDock and total score problem
by tkellici » Fri, 2014-01-17 06:07
2
3,259 by Ora Schueler-Furman
Mon, 2014-04-21 06:48
Normal topic Modeling flexible linkers with Floppytail
by pdbb » Sun, 2013-05-12 15:55
2
3,262 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to add constrains to FlexPepDocking?
by MajorID » Thu, 2011-06-02 11:00
2
3,266 by MajorID
Mon, 2014-04-21 06:47
Normal topic How tu use Delta filter's relax_mover
by pocin » Sun, 2017-02-19 05:21
3
3,278 by rmoretti
Wed, 2017-03-01 13:10
Normal topic select_best_unique_ligand_poses - Ligand docking
by subha » Thu, 2018-04-19 10:36
4
3,280 by subha
Fri, 2018-04-20 12:49
Normal topic Relax multiple PDB files with MPI, jd2, and a pdblist on TACC Stampede2
by AJVincelli » Sat, 2018-07-14 13:14
1
3,283 by AJVincelli
Sun, 2018-11-25 11:29
Normal topic Unexpected Error with RosettaCM -
by terry » Fri, 2019-02-22 14:26
1
3,284 by rmoretti
Fri, 2019-03-29 12:25
Normal topic score and relax
by Prasanth Kumar » Thu, 2013-05-02 05:09
1
3,291 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic select_best_unique_ligand_poses output
by ast » Thu, 2013-07-11 02:33
2
3,295 by ast
Mon, 2014-04-21 06:48
Normal topic ProteinLigandInterfaceUpweighter for protein-protein interactions?
by ahonegger » Mon, 2014-06-02 06:53
2
3,296 by ahonegger
Fri, 2014-06-06 09:31
Normal topic clustering
by ays » Tue, 2014-09-30 08:26
2
3,309 by rmoretti
Mon, 2014-10-06 16:00
Normal topic prepack_example.sh error message
by sacch » Sun, 2011-10-23 23:22
2
3,309 by sacch
Mon, 2014-04-21 06:47
Normal topic high-res docking
by tfliu » Mon, 2013-07-15 02:49
2
3,310 by tfliu
Mon, 2014-04-21 06:48
Normal topic RMS determination using Rosetta 3.3
by adraney » Thu, 2011-12-08 12:44
2
3,312 by mark.wilson
Mon, 2014-04-21 06:47
Normal topic Translate mover chain X doesnot exist.
by surya » Thu, 2020-07-09 08:36
6
3,315 by rmoretti
Tue, 2020-07-14 10:54
Normal topic dihedral_between_bonded_children: atoms are not both my children!
by pdbb » Fri, 2013-04-05 06:40
3
3,326 by smlewis
Mon, 2014-04-21 06:47
Normal topic relax protein with multi-conformer bound ligand
by xfradera » Thu, 2023-01-12 09:10
4
3,328 by rmoretti
Mon, 2023-02-06 15:06
Normal topic Clustering issue
by Loki01 » Thu, 2018-03-29 10:16
4
3,334 by Loki01
Thu, 2018-04-12 08:28
Normal topic kinematic loop modeling multiple input: possible?
by a_s_a » Thu, 2011-05-12 09:33
2
3,334 by a_s_a
Mon, 2014-04-21 06:47
Normal topic ab initio
by malkeet.singh » Thu, 2018-05-10 05:34
3
3,336 by malkeet.singh
Mon, 2018-05-21 04:26
Normal topic cryptic error "Got some signal... It is:15" -- an issue with 'fixbb', or something else?
by dantimatter » Wed, 2019-10-16 14:59
5
3,339 by dantimatter
Wed, 2019-10-30 09:43
Normal topic DDG monomer and backrub motions
by yperez » Thu, 2012-06-21 08:10
2
3,339 by yperez
Mon, 2014-04-21 06:47
Normal topic do mpi apps share memory?
by fred » Thu, 2014-01-23 11:49
2
3,361 by fred
Mon, 2014-04-21 06:48
Normal topic Warnings during relax
by cossio » Thu, 2018-10-11 14:42
2
3,367 by rmoretti
Mon, 2019-11-04 13:56
Normal topic ab initio modelling - what to do next?
by krlitros87 » Thu, 2014-10-16 13:05
2
3,367 by krlitros87
Wed, 2014-10-22 09:31
Normal topic The Usage of motifgraft
by Sunyp_IM » Sun, 2017-11-19 20:22
2
3,386 by Sunyp_IM
Mon, 2017-11-20 19:20
Normal topic Adding water interactions when docking a ligand with Rosetta 3.7.
by brspurri » Thu, 2017-06-01 09:37
2
3,387 by brspurri
Thu, 2017-06-01 10:58
Normal topic ambiguous constraints
by shrutikhare » Mon, 2014-05-12 04:42
1
3,387 by rmoretti
Mon, 2014-05-12 08:25
Normal topic JobDistributor problem in antibody modeling
by Wizard » Wed, 2015-04-22 00:35
2
3,393 by Wizard
Sun, 2015-04-26 22:36
Normal topic Perform MPI relax with movemap files
by sn » Sun, 2017-03-05 13:18
3
3,406 by sn
Mon, 2017-03-06 10:03
Normal topic rosetta backrub
by ladimafakher » Thu, 2018-10-04 08:01
4
3,406 by ladimafakher
Thu, 2018-11-01 03:47
Normal topic modeling missing linker in a protein
by Isaure de Beauchene » Fri, 2012-05-11 10:13
1
3,442 by smlewis
Mon, 2014-04-21 06:47
Normal topic pepspec anchor dock
by Astghik » Tue, 2020-10-20 05:31
6
3,449 by Pappmaschee
Thu, 2020-12-17 02:24
Normal topic Question about running scallo
by danbo » Mon, 2021-11-29 23:25
8
3,451 by danbo
Wed, 2021-12-22 23:51
Normal topic RosettaMP: issue with generating .lips4 file
by ksy141 » Mon, 2019-01-21 17:17
5
3,453 by noahC_noahDo
Fri, 2020-11-20 11:29
Normal topic Ab-initio modeling on part of the protein
by xiayanlawrence » Thu, 2013-12-19 07:45
1
3,460 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Generate fragment locally
by deltag » Wed, 2012-02-01 06:26
2
3,467 by deltag
Mon, 2014-04-21 06:47
Normal topic How do I explicitly add residues for design in the interface optimization script?
by ahonegger » Mon, 2014-05-12 07:40
2
3,468 by ahonegger
Mon, 2014-05-12 09:08
Normal topic PIKAA in resfile does not mutate Cys in disulfide bond to specified residue
by attesor » Fri, 2014-03-14 07:53
2
3,470 by attesor
Mon, 2014-06-16 07:34
Normal topic No Space
by jrcf » Mon, 2016-01-11 16:18
3
3,471 by jrcf
Fri, 2016-02-12 16:42
Normal topic Use "loopmodel.linuxgccrelease" CCD to build missing residue positions
by lanselibai » Sun, 2014-10-12 09:00
2
3,479 by lanselibai
Mon, 2014-10-13 10:10
Normal topic How to write down a connection between ligand's atom and metal ion from enzyme?
by Corvin » Mon, 2021-02-15 06:54
7
3,480 by aloshbau
Mon, 2021-03-01 20:06
Normal topic Abinito for Multimers
by Prasanth Kumar » Wed, 2014-01-22 17:45
2
3,481 by Prasanth Kumar
Mon, 2014-04-21 06:48
Normal topic Fragment files for membrane_abinitio application
by sumukh21 » Tue, 2011-02-15 17:23
2
3,484 by sumukh21
Mon, 2014-04-21 06:47
Normal topic Score.sc file showing total score 0 for all protein structures created
by aanshi » Wed, 2022-11-23 11:13
1
3,509 by nannemdp
Mon, 2022-11-28 09:39
Normal topic flexpep docking, select the decoy to do the further docking, questions
by michael_luntan » Fri, 2011-04-22 04:43
2
3,511 by michael_luntan
Mon, 2014-04-21 06:47
Normal topic Any backrub expert?
by johnnytam100 » Fri, 2019-03-01 01:58
4
3,511 by johnnytam100
Sun, 2019-03-03 23:42
Normal topic RAbD with N-term,Proline-like ncaa returns segmentation fault during CCDEndsGraftMover
by CordycepsLin » Sun, 2022-02-06 19:09
9
3,513 by CordycepsLin
Wed, 2022-02-09 19:39
Normal topic problem with fixed_membrane option of membrane abinitio
by yescalona » Thu, 2013-01-17 15:42
3
3,517 by smlewis
Mon, 2014-04-21 06:47
Normal topic Score - Strange message
by Ashafix » Wed, 2013-11-20 15:23
2
3,523 by Ashafix
Mon, 2014-04-21 06:48
Normal topic Docking to TM protein plus lipid bilayer
by renedominik » Tue, 2019-03-12 06:58
4
3,526 by elpipasp
Thu, 2023-10-19 04:37
Normal topic protein protein interaction design
by Negarsardar » Wed, 2019-05-15 06:13
3
3,529 by ajasja
Wed, 2019-05-15 15:40
Normal topic Problems incorporating nucleotides (GTP/GDP) into the modeling process for RosettaCM
by ajkal » Fri, 2017-04-14 08:44
3
3,539 by rmoretti
Thu, 2017-04-20 13:59
Normal topic error with fragment_picker.linuxgccrelease
by jiongzhang » Tue, 2012-04-17 09:07
3
3,552 by smlewis
Mon, 2014-04-21 06:47
Normal topic How to sort a Silent File based on RMSD
by JadAbbass » Sun, 2013-08-04 14:40
2
3,555 by lanselibai
Mon, 2014-10-06 15:30
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