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Rosetta 3 - Applications

Topic / Topic starter Replies Viewssort descending Last post
Normal topic An error with score app
by Genta » Tue, 2019-10-29 18:46
0
310 by Genta
Tue, 2019-10-29 18:46
Normal topic new BUNS for FunFolDes run
by tatsiana.bylund » Wed, 2019-08-14 20:57
0
311 by tatsiana.bylund
Wed, 2019-08-14 20:57
Normal topic how to run ala_scan.xml
by xinmiaohe » Mon, 2019-08-26 09:38
0
312 by xinmiaohe
Mon, 2019-08-26 09:38
Normal topic When using "screening job files" in small molecule-docking I get: Residue type already exists in the cache Error
by Martin Floor » Thu, 2020-09-17 06:01
4
313 by Martin Floor
Tue, 2020-09-22 00:48
Normal topic Segment File Gen - no ouput
by CATarr » Wed, 2019-10-09 19:05
0
314 by CATarr
Wed, 2019-10-09 19:05
Normal topic get an increased energy after energy minimization when using different score functions for repacking and energy minimization
by xinmiaohe » Fri, 2020-02-07 11:59
1
331 by xinmiaohe
Fri, 2020-02-07 13:52
Normal topic How can I model ligands in comparative modeling
by Morrian_Lynn » Thu, 2020-02-20 09:57
1
339 by danpf
Fri, 2020-02-21 17:05
Normal topic extract docking pose from ligand docking silent file
by Ruska322 » Sat, 2019-09-07 05:21
0
342 by Ruska322
Sat, 2019-09-07 05:21
Normal topic remodel ERROR: unrecognized mm_atom_type_name RGU
by daniloboskovic » Sat, 2020-02-22 11:55
1
342 by daniloboskovic
Tue, 2020-02-25 08:28
Normal topic "core.kinematics.FoldTree" error upon running RAbD
by Sunyp_IM » Fri, 2020-06-26 17:27
2
344 by Sunyp_IM
Fri, 2020-06-26 20:57
Normal topic Modelling temperature dependent RNA structures
by tuleshwori » Tue, 2020-05-19 01:16
2
345 by tuleshwori
Thu, 2020-05-21 02:08
Normal topic RNP structure prediction flags
by daniloboskovic » Fri, 2019-08-16 11:10
0
345 by daniloboskovic
Fri, 2019-08-16 11:17
Normal topic BUG REPORT: Remodel Resfile ERROR: LEU was added more than once?
by daniloboskovic » Wed, 2020-04-29 01:17
2
346 by daniloboskovic
Wed, 2020-04-29 05:51
Normal topic using DARC in rosetta
by syntekabio2019 » Thu, 2019-12-12 01:27
0
347 by syntekabio2019
Thu, 2019-12-12 01:27
Normal topic OptimizeMembranePositionMover - This element is not expected
by bjharris » Wed, 2020-07-01 23:21
2
349 by bjharris
Thu, 2020-07-02 11:09
Normal topic How to create a native file for Protein-Protein docking
by Kotimedidhi » Fri, 2020-06-19 08:58
2
354 by Kotimedidhi
Mon, 2020-06-22 16:19
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
356 by brspurri
Thu, 2020-05-14 12:24
Normal topic help surface_docking peptide on ice
by engand93 » Wed, 2019-03-27 02:43
0
359 by engand93
Wed, 2019-03-27 02:43
Normal topic /database folder after running "install_dependencies.pl" size 657 GB?
by Danielsebas » Tue, 2019-09-03 03:32
1
362 by danpf
Tue, 2019-09-03 10:15
Normal topic using piper-flexpepdock
by syntekabio2019 » Thu, 2019-12-12 01:22
0
365 by syntekabio2019
Thu, 2019-12-12 01:22
Normal topic Protein-Protein Docking or Comparative Modeling
by Morrian_Lynn » Wed, 2020-01-29 19:01
1
369 by danpf
Fri, 2020-02-21 18:23
Normal topic ligand_docking ligand preparation
by Alison_Yajie » Thu, 2020-05-21 10:21
2
371 by Alison_Yajie
Wed, 2020-06-24 12:38
Normal topic fixing sequence during grafting in antibody_designer
by COM » Fri, 2020-01-24 11:38
1
373 by jadolfbr
Tue, 2020-01-28 09:13
Normal topic clean_pdb not working
by Andre Serobian » Thu, 2020-07-23 04:48
3
374 by rmoretti
Tue, 2020-07-28 08:24
Normal topic RosettaAntibody3 is failing with "Error: no input sequences were specified!"
by brspurri » Sun, 2020-08-16 16:16
4
374 by brspurri
Tue, 2020-08-18 09:57
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
375 by cm21
Wed, 2020-05-20 11:22
Normal topic How to analyse multiple silent files from "Abinitiorelax" output to find best models?
by Danielsebas » Tue, 2019-09-10 10:01
1
377 by smlewis
Mon, 2019-09-16 12:22
Normal topic PDB file name too long to be handled by file system
by dave » Thu, 2019-08-08 03:10
1
379 by rmoretti
Mon, 2019-08-26 12:17
Normal topic debug rosetta_scripts FunFolDes run
by tatsiana.bylund » Sun, 2019-08-18 23:17
1
382 by neelamraju.srid...
Wed, 2020-11-18 05:47
Normal topic Adding positional restraints to pure RNA system in DRRAFTER and rna_denovo
by zharmad » Fri, 2019-08-23 01:16
1
382 by everyday847
Fri, 2019-08-23 04:08
Normal topic structure prediction
by MA » Wed, 2018-09-05 00:50
0
383 by MA
Wed, 2018-09-05 00:50
Normal topic Energy function and iteration script files
by michelleqyh » Fri, 2019-09-27 09:06
1
384 by smlewis
Fri, 2019-09-27 11:54
Normal topic Coupled Moves crash with Membrane Protein - residue_edge is undefined for root vertex
by benhardy » Mon, 2020-06-15 09:33
3
386 by benhardy
Fri, 2020-06-19 07:55
Normal topic Do partner1 and partner2 in mover BackrubDD mean chain1 and chain2 respectively?
by johnnytam100 » Fri, 2019-08-23 21:10
1
389 by rmoretti
Mon, 2019-08-26 12:03
Normal topic denovo_density don't output a pdb file
by ylwang » Sun, 2018-11-18 17:51
0
390 by ylwang
Sun, 2018-11-18 17:51
Normal topic Comparative modeling of metalloproteins
by ctqwong » Sun, 2020-07-12 13:51
3
391 by ctqwong
Mon, 2020-07-27 01:48
Normal topic The usage of antibody_H3.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 22:50
2
394 by Sunyp_IM
Thu, 2020-06-04 08:20
Normal topic Can I use rosetta binaries built in one linux system to another linux system?
by Danielsebas » Wed, 2019-09-18 06:49
1
408 by rmoretti
Wed, 2019-09-18 10:36
Normal topic nstruct vs. trials?
by chrisHKL » Mon, 2020-03-02 13:22
2
408 by chrisHKL
Wed, 2020-03-04 10:49
Normal topic Weighted scores??
by sizhang » Wed, 2018-12-05 15:22
0
409 by sizhang
Wed, 2018-12-05 15:22
Normal topic Symmetry mode in Remodel for N-terminal extension
by yvonne.chan2 » Mon, 2019-11-04 13:41
0
410 by yvonne.chan2
Mon, 2019-11-04 13:41
Normal topic Issue with Rosetta LinkResidues Script
by adityapadhi » Wed, 2019-11-20 22:00
1
411 by JackMaguire
Fri, 2019-11-22 13:45
Normal topic Building loop extensions in a membrane protein with Remodel
by benhardy » Tue, 2020-06-02 08:21
2
412 by benhardy
Sun, 2020-09-20 11:15
Normal topic "install_dependencies.pl" script: an optimization of HDD space during nr-pfilt data extracting and formatting stage
by Corvin » Thu, 2019-10-10 02:20
1
417 by danpf
Thu, 2019-10-10 09:55
Normal topic Any progress on getting intermediate structures during a design?
by broomsday » Mon, 2020-03-16 06:46
2
417 by vmulligan
Tue, 2020-03-17 11:35
Normal topic antibody protocol fails
by hamedkhakzad » Mon, 2019-08-19 07:43
1
418 by smlewis
Tue, 2019-10-22 09:45
Normal topic how to "rescore" the models using lowest energy model from rosetta run as native, for RMSD vs Score plot?
by Danielsebas » Tue, 2019-09-24 03:51
1
418 by smlewis
Tue, 2019-09-24 12:43
Normal topic RosettaCM: An internal error has occurred when "Running the Hybridize mover"
by haom » Mon, 2020-06-15 05:56
4
421 by haom
Tue, 2020-06-16 05:55
Normal topic How to run partial_thread in RosettaCM when residure are more than 9999?
by lanselibai » Mon, 2020-05-11 22:43
2
423 by lanselibai
Tue, 2020-05-12 20:25
Normal topic RosettaScript Segmentation Fault (crash log attached)
by chrisHKL » Thu, 2020-03-05 07:21
2
430 by chrisHKL
Thu, 2020-03-05 09:11
Normal topic Flexpepdock I_hb scoring term
by mbakalar » Fri, 2018-08-31 13:05
0
433 by mbakalar
Fri, 2018-08-31 13:06
Normal topic denovo modelling on a virus-coat protein dimer
by aseem121 » Wed, 2019-10-16 06:55
1
435 by danpf
Wed, 2019-10-16 13:03
Normal topic Error with RosettaAntibodyDesign when running antibody_designer.linuxgccrelease
by bdzhh » Tue, 2019-09-17 17:02
1
441 by jadolfbr
Thu, 2019-09-19 08:53
Normal topic How to freeze ligand during FastRelax?
by dnamkr » Thu, 2020-01-02 14:53
1
444 by aloshbau
Fri, 2020-01-10 16:48
Normal topic AddHelixSequenceConstraints Mover2
by Negarsardar » Sat, 2019-06-01 01:54
1
453 by vmulligan
Thu, 2019-06-13 15:01
Normal topic kcenters_clustering_of_fragments
by bjharris » Mon, 2019-07-01 16:16
1
455 by bjharris
Wed, 2020-07-01 23:25
Normal topic Error with Formatdb of legacy blast when running "install_dependencies.pl"?
by Danielsebas » Mon, 2019-09-16 09:30
2
456 by Danielsebas
Tue, 2019-09-17 01:03
Normal topic Secondary Matching build_sets Error
by enmirts » Wed, 2018-03-28 10:33
0
457 by enmirts
Wed, 2018-03-28 10:34
Normal topic rosetta remodel and designing helix extension
by dhirajks » Thu, 2018-12-13 19:34
0
460 by dhirajks
Thu, 2018-12-13 19:34
Normal topic Remodel: the pose does not have residue with chain=H, PDBnum=114
by lanselibai » Wed, 2019-12-25 13:35
1
460 by lanselibai
Fri, 2019-12-27 09:38
Normal topic Centroid mode minimization
by Martin Floor » Tue, 2020-01-21 07:34
2
463 by Martin Floor
Tue, 2020-01-21 11:15
Normal topic Imitating induced fit protocol in SymDock2 without any symmetry constraints
by chenna » Fri, 2020-02-14 01:35
2
466 by chenna
Wed, 2020-03-04 03:24
Normal topic Is native.pdb necess for fragment_picker?
by ylwang » Thu, 2020-03-12 00:57
2
467 by ylwang
Thu, 2020-03-12 20:42
Normal topic The relax qustion of Rosetta VIP
by asbelx » Mon, 2019-06-10 07:52
1
468 by rmoretti
Mon, 2019-06-24 14:42
Normal topic change number of output pose files written out (default=50) in ligand docking XML script
by hdelrisco » Fri, 2019-10-18 13:50
2
471 by hdelrisco
Fri, 2019-10-18 17:16
Normal topic Problem with Scoring function and PlaceStub mover
by a-eatemadi@razi... » Sat, 2018-04-07 09:22
0
473 by a-eatemadi@razi...
Sat, 2018-04-07 09:24
Normal topic What is a rational minimal value for the "-nstruct" option
by Sunyp_IM » Fri, 2020-05-22 01:28
3
474 by nannemdp
Sun, 2020-05-24 14:46
Normal topic error: Unable to open weights/patch file in using ddg_monomer.linuxgccrelease
by xinmiaohe » Thu, 2020-01-30 22:09
1
476 by xinmiaohe
Fri, 2020-01-31 08:23
Normal topic relax and movemap
by Alison_Yajie » Wed, 2020-05-20 21:27
3
476 by smlewis
Thu, 2020-05-21 21:05
Normal topic "Angle constraint: 0-length bonds" error
by purvi24 » Sun, 2019-07-28 10:09
1
481 by rmoretti
Mon, 2019-08-26 12:49
Normal topic DDG and interaction score problem
by a-eatemadi@razi... » Mon, 2018-04-09 22:54
0
493 by a-eatemadi@razi...
Mon, 2018-04-09 22:54
Normal topic Rosetta scripts crash in CM workflow
by jlburkhead » Tue, 2019-12-03 22:55
1
500 by danpf
Fri, 2020-02-21 18:37
Normal topic can anyone help me correct this script to do alanine scanning
by xinmiaohe » Mon, 2019-08-26 17:23
1
504 by xinmiaohe
Mon, 2019-08-26 18:16
Normal topic comparative modelling of a complex
by sdh_h » Sun, 2017-12-17 06:07
0
506 by sdh_h
Sun, 2017-12-17 06:07
Normal topic Transmembrane helix fold-and-dock?
by sarah_b » Tue, 2020-05-12 02:09
3
506 by jkleman
Tue, 2020-05-19 15:02
Normal topic Rosetta_cm Partial Threading Removing Parts of Sequence
by gszwabowski » Thu, 2019-06-20 12:30
1
507 by rmoretti
Mon, 2019-06-24 13:43
Normal topic pmut_scan_parallel
by G Mustafa » Wed, 2018-10-17 05:41
0
515 by G Mustafa
Wed, 2018-10-17 05:41
Normal topic Interesting scoring performance in flexpepdock against random peptides
by ziqi1234 » Fri, 2017-12-08 07:52
0
516 by ziqi1234
Fri, 2017-12-08 07:52
Normal topic protein interction design
by Negarsardar » Wed, 2019-05-15 12:01
1
517 by rmoretti
Wed, 2019-07-10 09:24
Normal topic hybrid approach - comparative and ab initio modelling
by eprates » Wed, 2019-03-20 11:58
1
520 by rmoretti
Fri, 2019-03-29 09:45
Normal topic DDG_monomer ΔΔG question
by asbelx » Fri, 2018-04-20 03:31
0
524 by asbelx
Fri, 2018-04-20 03:33
Normal topic Sampling a wider range of RMSD of poses by Rosetta Dock
by johnnytam100 » Tue, 2019-05-21 22:28
1
524 by johnnytam100
Thu, 2019-05-23 20:52
Normal topic missing atom number 5 atom name CB
by ajaniharesh » Fri, 2019-04-26 12:08
1
524 by rmoretti
Fri, 2019-04-26 12:13
Normal topic Dock two domains using topology broker
by sn » Thu, 2017-10-05 17:07
0
528 by sn
Thu, 2017-10-05 17:07
Normal topic ProteinInterfaceMS
by rbjacob » Wed, 2018-10-24 11:31
1
529 by rmoretti
Wed, 2018-11-21 15:10
Normal topic VH-VL Orientation in antibody
by sujigeorge1979 » Mon, 2019-06-17 01:23
1
529 by jeliazkov
Mon, 2019-06-17 06:03
Normal topic How does the label in pdb files looks like when using ResiduePDBInfoHasLabel?
by johnnytam100 » Fri, 2019-08-16 00:25
1
530 by JackMaguire
Fri, 2019-08-16 07:41
Normal topic Segmentation Fault during prepacking
by Sunyp_IM » Fri, 2020-06-12 11:24
4
531 by Sunyp_IM
Thu, 2020-07-09 18:40
Normal topic Relax with multiple small molecules
by jharamesh » Sun, 2019-05-26 19:34
1
537 by rmoretti
Mon, 2019-06-24 15:19
Normal topic Rosetta fragment tools installation error
by Danielsebas » Thu, 2019-08-29 02:17
2
540 by Danielsebas
Sun, 2019-09-01 02:38
Normal topic Membrane ab-initio modelling of a beta-strand
by hzhekova » Mon, 2019-06-10 14:22
1
541 by rmoretti
Mon, 2019-06-24 14:39
Normal topic input file for loop modeling
by Negarsardar » Tue, 2019-04-16 10:21
1
542 by rmoretti
Tue, 2019-04-16 11:07
Normal topic loop design for Conformational bias
by dhirajks » Thu, 2019-05-09 21:22
1
543 by jadolfbr
Fri, 2019-05-10 07:53
Normal topic Template/Input length mismatch error during RosettaCM
by marinok » Mon, 2020-05-04 13:12
4
544 by marinok
Mon, 2020-05-11 12:48
Normal topic Filter for fixed-bb design using RosettaScript?
by chrisHKL » Fri, 2020-02-28 19:47
4
545 by vmulligan
Mon, 2020-03-02 13:40
Normal topic Abinitio the Broker protocol
by ac.research » Sun, 2019-03-24 03:56
1
546 by rmoretti
Fri, 2019-04-05 00:18
Normal topic De novo water predictions using SPaDES
by MNP1986 » Mon, 2019-03-25 07:53
1
550 by matteoferla
Tue, 2020-08-04 09:30
Normal topic Protein Protein Docking with Constraints
by ajaniharesh » Wed, 2019-04-10 07:26
1
552 by rmoretti
Thu, 2019-05-09 15:40
Normal topic docking with capping groups
by xavierfradera » Sun, 2018-11-04 16:17
1
553 by maral.adeli-kou...
Wed, 2020-01-22 12:41
Normal topic FlexPepDock Multi chain receptor
by evo_umich » Mon, 2018-04-02 12:13
0
555 by evo_umich
Mon, 2018-04-02 12:13
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