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Rosetta 3 - Applications

Topic / Topic starter Replies Viewssort descending Last post
Normal topic Docking the border segments of coiled coils in parallel orientation
by Corvin » Mon, 2019-12-02 02:00
0
353 by Corvin
Mon, 2019-12-02 02:00
Normal topic Number of max allowed mutations from WT sequence
by mouung » Fri, 2020-09-04 02:33
2
359 by amorin
Fri, 2021-02-12 08:53
Normal topic Segment File Gen - no ouput
by CATarr » Wed, 2019-10-09 19:05
0
359 by CATarr
Wed, 2019-10-09 19:05
Normal topic An error with score app
by Genta » Tue, 2019-10-29 18:46
0
361 by Genta
Tue, 2019-10-29 18:46
Normal topic Error Implementing Match Style Constraints
by pwging13 » Thu, 2019-12-19 09:53
0
366 by pwging13
Thu, 2019-12-19 09:53
Normal topic how to run ala_scan.xml
by xinmiaohe » Mon, 2019-08-26 09:38
0
367 by xinmiaohe
Mon, 2019-08-26 09:38
Normal topic Docking of multichain oligomers
by sdh_h » Wed, 2020-03-25 12:43
0
368 by sdh_h
Wed, 2020-03-25 12:43
Normal topic how to know the precedure of solving a actural bio problem? like interface design?
by qq7678500549 » Thu, 2020-08-06 18:45
2
370 by qq7678500549
Sun, 2020-08-09 18:59
Normal topic Ligand docking at specific orientation
by ShiranBZ » Mon, 2020-04-13 20:46
1
370 by matteoferla
Mon, 2020-05-04 02:02
Normal topic new BUNS for FunFolDes run
by tatsiana.bylund » Wed, 2019-08-14 20:57
0
374 by tatsiana.bylund
Wed, 2019-08-14 20:57
Normal topic Successful RosettaCM?
by jlawrie » Wed, 2020-08-19 06:53
2
374 by jlawrie
Thu, 2020-08-20 11:00
Normal topic can remodel add loops in one chain in multichain PDB structure?
by ksteczk » Fri, 2020-05-01 06:26
1
375 by matteoferla
Mon, 2020-05-04 01:43
Normal topic Docking-I_sc values do not correlate
by jlawrie » Wed, 2020-08-12 08:08
2
379 by jlawrie
Wed, 2020-08-12 08:57
Normal topic The difference between the H1 regions of modeled camelid antibody and the crystal structure.
by Sunyp_IM » Sun, 2020-06-07 02:34
1
381 by nannemdp
Sun, 2020-06-07 08:01
Normal topic Docking-RMS value nan
by jlawrie » Wed, 2020-08-12 07:03
2
382 by jlawrie
Wed, 2020-08-12 07:27
Normal topic Ddg filter threshold value?
by chrisHKL » Fri, 2020-02-28 15:01
1
384 by rmoretti
Wed, 2020-03-04 09:56
Normal topic Homology Modeling-no PDB output
by jlawrie » Wed, 2020-08-12 06:30
2
389 by jlawrie
Wed, 2020-08-12 08:56
Normal topic LoopModeler mover unable to determine cut point
by gszwabowski » Mon, 2020-06-01 13:12
1
390 by matteoferla
Thu, 2020-07-02 07:27
Normal topic not knowing which one of three ways to run rosettascript
by xinmiaohe » Tue, 2020-10-13 13:52
2
399 by xinmiaohe
Mon, 2020-10-19 13:18
Normal topic RNP structure prediction flags
by daniloboskovic » Fri, 2019-08-16 11:10
0
401 by daniloboskovic
Fri, 2019-08-16 11:17
Normal topic extract docking pose from ligand docking silent file
by Ruska322 » Sat, 2019-09-07 05:21
0
402 by Ruska322
Sat, 2019-09-07 05:21
Normal topic Error when trying docking protocol with different ligand
by scyphs » Wed, 2020-08-05 04:37
2
403 by scyphs
Mon, 2020-08-10 08:09
Normal topic Scoring docking error
by almeida85 » Wed, 2020-09-02 01:32
2
405 by almeida85
Wed, 2020-09-02 06:14
Normal topic How can I model ligands in comparative modeling
by Morrian_Lynn » Thu, 2020-02-20 09:57
1
407 by danpf
Fri, 2020-02-21 17:05
Normal topic make_fragments.pl error
by almeida85 » Mon, 2020-08-31 04:39
2
410 by almeida85
Tue, 2020-09-01 01:29
Normal topic using DARC in rosetta
by syntekabio2019 » Thu, 2019-12-12 01:27
0
410 by syntekabio2019
Thu, 2019-12-12 01:27
Normal topic help surface_docking peptide on ice
by engand93 » Wed, 2019-03-27 02:43
0
412 by engand93
Wed, 2019-03-27 02:43
Normal topic remodel ERROR: unrecognized mm_atom_type_name RGU
by daniloboskovic » Sat, 2020-02-22 11:55
1
418 by daniloboskovic
Tue, 2020-02-25 08:28
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
428 by Brahm Yachnin
Wed, 2020-11-18 17:21
Normal topic structure prediction
by MA » Wed, 2018-09-05 00:50
0
429 by MA
Wed, 2018-09-05 00:50
Normal topic RosettaCM or FastRelax?
by Tianyang89 » Wed, 2020-09-23 07:46
3
431 by danpf
Thu, 2020-09-24 13:44
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
433 by xinmiaohe
Fri, 2020-02-07 13:52
Normal topic using piper-flexpepdock
by syntekabio2019 » Thu, 2019-12-12 01:22
0
435 by syntekabio2019
Thu, 2019-12-12 01:22
Normal topic PDB file name too long to be handled by file system
by dave » Thu, 2019-08-08 03:10
1
438 by rmoretti
Mon, 2019-08-26 12:17
Normal topic /database folder after running "install_dependencies.pl" size 657 GB?
by Danielsebas » Tue, 2019-09-03 03:32
1
440 by danpf
Tue, 2019-09-03 10:15
Normal topic denovo_density don't output a pdb file
by ylwang » Sun, 2018-11-18 17:51
0
441 by ylwang
Sun, 2018-11-18 17:51
Normal topic Energy function and iteration script files
by michelleqyh » Fri, 2019-09-27 09:06
1
445 by smlewis
Fri, 2019-09-27 11:54
Normal topic Protein-Protein Docking or Comparative Modeling
by Morrian_Lynn » Wed, 2020-01-29 19:01
1
447 by danpf
Fri, 2020-02-21 18:23
Normal topic How to analyse multiple silent files from "Abinitiorelax" output to find best models?
by Danielsebas » Tue, 2019-09-10 10:01
1
449 by smlewis
Mon, 2019-09-16 12:22
Normal topic Can I believe the antibody design result?
by Sunyp_IM » Mon, 2020-11-30 03:29
6
450 by jadolfbr
Sun, 2020-12-06 17:41
Normal topic mpirun docking_protocol
by NanB » Mon, 2020-08-03 11:38
1
450 by ssrb
Fri, 2020-08-14 09:18
Normal topic Weighted scores??
by sizhang » Wed, 2018-12-05 15:22
0
451 by sizhang
Wed, 2018-12-05 15:22
Normal topic Adding positional restraints to pure RNA system in DRRAFTER and rna_denovo
by zharmad » Fri, 2019-08-23 01:16
1
456 by everyday847
Fri, 2019-08-23 04:08
Normal topic fixing sequence during grafting in antibody_designer
by COM » Fri, 2020-01-24 11:38
1
459 by jadolfbr
Tue, 2020-01-28 09:13
Normal topic Modelling temperature dependent RNA structures
by tuleshwori » Tue, 2020-05-19 01:16
2
462 by tuleshwori
Thu, 2020-05-21 02:08
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
466 by brspurri
Thu, 2020-05-14 12:24
Normal topic Symmetry mode in Remodel for N-terminal extension
by yvonne.chan2 » Mon, 2019-11-04 13:41
0
472 by yvonne.chan2
Mon, 2019-11-04 13:41
Normal topic How to create a native file for Protein-Protein docking
by Kotimedidhi » Fri, 2020-06-19 08:58
2
473 by Kotimedidhi
Mon, 2020-06-22 16:19
Normal topic BUG REPORT: Remodel Resfile ERROR: LEU was added more than once?
by daniloboskovic » Wed, 2020-04-29 01:17
2
473 by daniloboskovic
Wed, 2020-04-29 05:51
Normal topic Do partner1 and partner2 in mover BackrubDD mean chain1 and chain2 respectively?
by johnnytam100 » Fri, 2019-08-23 21:10
1
479 by rmoretti
Mon, 2019-08-26 12:03
Normal topic OptimizeMembranePositionMover - This element is not expected
by bjharris » Wed, 2020-07-01 23:21
2
482 by bjharris
Thu, 2020-07-02 11:09
Normal topic antibody protocol fails
by hamedkhakzad » Mon, 2019-08-19 07:43
1
485 by smlewis
Tue, 2019-10-22 09:45
Normal topic "core.kinematics.FoldTree" error upon running RAbD
by Sunyp_IM » Fri, 2020-06-26 17:27
2
488 by Sunyp_IM
Fri, 2020-06-26 20:57
Normal topic Flexpepdock I_hb scoring term
by mbakalar » Fri, 2018-08-31 13:05
0
488 by mbakalar
Fri, 2018-08-31 13:06
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
488 by cm21
Wed, 2020-05-20 11:22
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
489 by rmoretti
Wed, 2019-09-18 10:36
Normal topic debug rosetta_scripts FunFolDes run
by tatsiana.bylund » Sun, 2019-08-18 23:17
1
492 by neelamraju.srid...
Wed, 2020-11-18 05:47
Normal topic Issue with Rosetta LinkResidues Script
by adityapadhi » Wed, 2019-11-20 22:00
1
493 by JackMaguire
Fri, 2019-11-22 13:45
Normal topic ligand_docking ligand preparation
by Alison_Yajie » Thu, 2020-05-21 10:21
2
496 by Alison_Yajie
Wed, 2020-06-24 12:38
Normal topic Trouble running MPI docking protocol, please help!
by Rob_Barringer » Tue, 2020-08-18 06:40
2
502 by Rob_Barringer
Fri, 2020-09-25 05:45
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
502 by smlewis
Tue, 2019-09-24 12:43
Normal topic denovo modelling on a virus-coat protein dimer
by aseem121 » Wed, 2019-10-16 06:55
1
508 by danpf
Wed, 2019-10-16 13:03
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
512 by danpf
Thu, 2019-10-10 09:55
Normal topic Secondary Matching build_sets Error
by enmirts » Wed, 2018-03-28 10:33
0
513 by enmirts
Wed, 2018-03-28 10:34
Normal topic Error with RosettaAntibodyDesign when running antibody_designer.linuxgccrelease
by bdzhh » Tue, 2019-09-17 17:02
1
519 by jadolfbr
Thu, 2019-09-19 08:53
Normal topic Problem with mpirun/mpiexec
by ahansel » Fri, 2020-07-10 08:37
1
519 by rmoretti
Fri, 2020-07-10 09:59
Normal topic Any progress on getting intermediate structures during a design?
by broomsday » Mon, 2020-03-16 06:46
2
520 by vmulligan
Tue, 2020-03-17 11:35
Normal topic rosetta remodel and designing helix extension
by dhirajks » Thu, 2018-12-13 19:34
0
522 by dhirajks
Thu, 2018-12-13 19:34
Normal topic nstruct vs. trials?
by chrisHKL » Mon, 2020-03-02 13:22
2
523 by chrisHKL
Wed, 2020-03-04 10:49
Normal topic pepspec anchor dock
by Astghik » Tue, 2020-10-20 05:31
6
526 by Pappmaschee
Thu, 2020-12-17 02:24
Normal topic Scoring functions: talaris2013 incompatible versions
by Smbat » Tue, 2020-10-13 06:18
5
529 by Astghik
Thu, 2020-10-15 00:48
Normal topic AddHelixSequenceConstraints Mover2
by Negarsardar » Sat, 2019-06-01 01:54
1
536 by vmulligan
Thu, 2019-06-13 15:01
Normal topic Problem with Scoring function and PlaceStub mover
by a-eatemadi@razi... » Sat, 2018-04-07 09:22
0
537 by a-eatemadi@razi...
Sat, 2018-04-07 09:24
Normal topic The usage of antibody_H3.linuxgccrelease
by Sunyp_IM » Thu, 2020-05-28 22:50
2
542 by Sunyp_IM
Thu, 2020-06-04 08:20
Normal topic How to freeze ligand during FastRelax?
by dnamkr » Thu, 2020-01-02 14:53
1
546 by aloshbau
Fri, 2020-01-10 16:48
Normal topic DDG and interaction score problem
by a-eatemadi@razi... » Mon, 2018-04-09 22:54
0
547 by a-eatemadi@razi...
Mon, 2018-04-09 22:54
Normal topic The relax qustion of Rosetta VIP
by asbelx » Mon, 2019-06-10 07:52
1
547 by rmoretti
Mon, 2019-06-24 14:42
Normal topic comparative modelling of a complex
by sdh_h » Sun, 2017-12-17 06:07
0
549 by sdh_h
Sun, 2017-12-17 06:07
Normal topic Coupled Moves crash with Membrane Protein - residue_edge is undefined for root vertex
by benhardy » Mon, 2020-06-15 09:33
3
550 by benhardy
Fri, 2020-06-19 07:55
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
552 by Martin Floor
Tue, 2020-09-22 00:48
Normal topic Remodel: the pose does not have residue with chain=H, PDBnum=114
by lanselibai » Wed, 2019-12-25 13:35
1
553 by lanselibai
Fri, 2019-12-27 09:38
Normal topic How to run partial_thread in RosettaCM when residure are more than 9999?
by lanselibai » Mon, 2020-05-11 22:43
2
553 by lanselibai
Tue, 2020-05-12 20:25
Normal topic kcenters_clustering_of_fragments
by bjharris » Mon, 2019-07-01 16:16
1
556 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
557 by Danielsebas
Tue, 2019-09-17 01:03
Normal topic Comparative modeling of metalloproteins
by ctqwong » Sun, 2020-07-12 13:51
3
566 by ctqwong
Mon, 2020-07-27 01:48
Normal topic Interesting scoring performance in flexpepdock against random peptides
by ziqi1234 » Fri, 2017-12-08 07:52
0
568 by ziqi1234
Fri, 2017-12-08 07:52
Normal topic "Angle constraint: 0-length bonds" error
by purvi24 » Sun, 2019-07-28 10:09
1
569 by rmoretti
Mon, 2019-08-26 12:49
Normal topic DDG_monomer ΔΔG question
by asbelx » Fri, 2018-04-20 03:31
0
571 by asbelx
Fri, 2018-04-20 03:33
Normal topic clean_pdb not working
by Andre Serobian » Thu, 2020-07-23 04:48
3
571 by rmoretti
Tue, 2020-07-28 08:24
Normal topic Centroid mode minimization
by Martin Floor » Tue, 2020-01-21 07:34
2
571 by Martin Floor
Tue, 2020-01-21 11:15
Normal topic RosettaScript Segmentation Fault (crash log attached)
by chrisHKL » Thu, 2020-03-05 07:21
2
572 by chrisHKL
Thu, 2020-03-05 09:11
Normal topic Dock two domains using topology broker
by sn » Thu, 2017-10-05 17:07
0
573 by sn
Thu, 2017-10-05 17:07
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
578 by hdelrisco
Fri, 2019-10-18 17:16
Normal topic Building loop extensions in a membrane protein with Remodel
by benhardy » Tue, 2020-06-02 08:21
2
583 by benhardy
Sun, 2020-09-20 11:15
Normal topic Imitating induced fit protocol in SymDock2 without any symmetry constraints
by chenna » Fri, 2020-02-14 01:35
2
584 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
585 by ylwang
Thu, 2020-03-12 20:42
Normal topic pmut_scan_parallel
by G Mustafa » Wed, 2018-10-17 05:41
0
585 by G Mustafa
Wed, 2018-10-17 05:41
Normal topic protein interction design
by Negarsardar » Wed, 2019-05-15 12:01
1
594 by rmoretti
Wed, 2019-07-10 09:24
Normal topic Rosetta_cm Partial Threading Removing Parts of Sequence
by gszwabowski » Thu, 2019-06-20 12:30
1
601 by rmoretti
Mon, 2019-06-24 13:43
Normal topic ProteinInterfaceMS
by rbjacob » Wed, 2018-10-24 11:31
1
601 by rmoretti
Wed, 2018-11-21 15:10
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