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Rosetta 3 - Applications

Topic / Topic starter Replies Viewssort descending Last post
Normal topic where is generate_ligens.linuxgccrelease?
by Nicole Deng » Thu, 2020-12-03 00:00
2
368 by Nicole Deng
Fri, 2020-12-18 00:28
Normal topic Limit on backbone movement in relax?
by SWM » Fri, 2020-01-24 07:35
0
368 by SWM
Fri, 2020-01-24 07:35
Normal topic manually defining CDRs in antibody modelling
by gard.nelson » Fri, 2020-07-10 13:31
1
368 by brspurri
Wed, 2021-01-20 08:11
Normal topic pepspec anchor dock
by Andre Serobian » Tue, 2020-07-28 05:51
1
370 by Andre Serobian
Tue, 2020-07-28 23:26
Normal topic Rosetta remodel - including an RNA ligand
by daniloboskovic » Fri, 2020-04-10 04:24
0
370 by daniloboskovic
Fri, 2020-04-10 04:24
Normal topic RosettaScripts filter BuriedUnsatHbonds2 missing still
by zdaw » Fri, 2020-12-11 12:39
3
372 by zdaw
Tue, 2020-12-15 15:38
Normal topic How to add additional rounds of design and optimization in Rosetta scripts?
by Nicole Deng » Tue, 2020-11-03 19:05
2
379 by Nicole Deng
Thu, 2020-11-05 03:04
Normal topic application for affinity optimization
by wentlewi » Fri, 2020-03-13 03:24
0
387 by wentlewi
Fri, 2020-03-13 03:24
Normal topic cartesian_ddg crashes when the mutfile contains multiple mutations to non-canonical residues
by ValentinaSora » Sun, 2020-05-24 12:32
0
388 by ValentinaSora
Sun, 2020-05-24 12:32
Normal topic RNA modeling with step wise Monte Carlo error
by szcshr123 » Mon, 2020-12-07 18:08
3
388 by everyday847
Wed, 2020-12-09 21:46
Normal topic Docking the border segments of coiled coils in parallel orientation
by Corvin » Mon, 2019-12-02 02:00
0
390 by Corvin
Mon, 2019-12-02 02:00
Normal topic Changing rosetta scoring to favour less hydrophobic areas
by daniloboskovic » Thu, 2020-05-21 03:03
1
396 by vmulligan
Thu, 2020-05-21 18:33
Normal topic Warning: Fold tree is not set properly for density scoring
by ahansel » Mon, 2020-07-13 10:50
1
398 by danpf
Tue, 2020-07-14 10:27
Normal topic Strong bias in sampling observed in RosettaDock
by chenna » Thu, 2020-08-27 22:23
1
399 by ssrb
Sun, 2020-09-20 15:50
Normal topic Segment File Gen - no ouput
by CATarr » Wed, 2019-10-09 19:05
0
399 by CATarr
Wed, 2019-10-09 19:05
Normal topic Constraint generator
by Alison_Yajie » Wed, 2020-06-17 20:14
1
400 by Alison_Yajie
Wed, 2020-06-17 20:35
Normal topic RosettaCM
by jlawrie » Fri, 2020-08-14 14:09
0
400 by jlawrie
Fri, 2020-08-14 14:09
Normal topic mp_transform optimize with franklin2019 scoring
by benhardy » Thu, 2020-05-28 08:35
0
400 by benhardy
Thu, 2020-05-28 08:45
Normal topic how to run ala_scan.xml
by xinmiaohe » Mon, 2019-08-26 09:38
0
407 by xinmiaohe
Mon, 2019-08-26 09:38
Normal topic BuildPeptide - Using Phosphorylated and Sulfated Tyrosine
by jlawrie » Thu, 2020-09-03 14:29
1
407 by cryosky
Mon, 2021-03-01 21:37
Normal topic An error with score app
by Genta » Tue, 2019-10-29 18:46
0
407 by Genta
Tue, 2019-10-29 18:46
Normal topic issues about cstfile in RosettaMatch
by Nicole Deng » Fri, 2020-12-18 05:44
3
409 by He Xiao
Sun, 2021-04-11 19:29
Normal topic relax.linuxgccrelease in multiple processors
by jpfuenzalidawx » Thu, 2021-01-14 14:07
5
410 by jadolfbr
Fri, 2021-01-15 08:06
Normal topic Error Implementing Match Style Constraints
by pwging13 » Thu, 2019-12-19 09:53
0
410 by pwging13
Thu, 2019-12-19 09:53
Normal topic DNA-protein docking
by ksteczk » Sat, 2020-04-11 11:23
0
413 by ksteczk
Sat, 2020-04-11 11:23
Normal topic Ligand docking at specific orientation
by ShiranBZ » Mon, 2020-04-13 20:46
1
414 by matteoferla
Mon, 2020-05-04 02:02
Normal topic Docking of multichain oligomers
by sdh_h » Wed, 2020-03-25 12:43
0
414 by sdh_h
Wed, 2020-03-25 12:43
Normal topic new BUNS for FunFolDes run
by tatsiana.bylund » Wed, 2019-08-14 20:57
0
421 by tatsiana.bylund
Wed, 2019-08-14 20:57
Normal topic density scoring
by Tianyang89 » Sat, 2020-08-29 04:54
1
430 by danpf
Sun, 2020-08-30 22:23
Normal topic Robetta ab initio - TrRosetta for membrane proteins
by benhardy » Wed, 2020-09-30 08:42
0
439 by benhardy
Wed, 2020-09-30 08:42
Normal topic RNP structure prediction flags
by daniloboskovic » Fri, 2019-08-16 11:10
0
442 by daniloboskovic
Fri, 2019-08-16 11:17
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
446 by nannemdp
Sun, 2020-06-07 08:01
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
446 by aloshbau
Mon, 2021-03-01 20:06
Normal topic FASTA for Octopus
by Smbat » Wed, 2020-09-16 05:40
1
447 by rmoretti
Wed, 2020-09-16 22:11
Normal topic help surface_docking peptide on ice
by engand93 » Wed, 2019-03-27 02:43
0
448 by engand93
Wed, 2019-03-27 02:43
Normal topic using DARC in rosetta
by syntekabio2019 » Thu, 2019-12-12 01:27
0
448 by syntekabio2019
Thu, 2019-12-12 01:27
Normal topic extract docking pose from ligand docking silent file
by Ruska322 » Sat, 2019-09-07 05:21
0
451 by Ruska322
Sat, 2019-09-07 05:21
Normal topic Ddg filter threshold value?
by chrisHKL » Fri, 2020-02-28 15:01
1
451 by rmoretti
Wed, 2020-03-04 09:56
Normal topic minimize_with_cst and convert_to_cst_file for ddG_monomer issues/confusion
by Kharlamov1317a » Mon, 2020-09-21 08:46
1
452 by Kharlamov1317a
Wed, 2020-10-07 08:26
Normal topic How can I model ligands in comparative modeling
by Morrian_Lynn » Thu, 2020-02-20 09:57
1
460 by danpf
Fri, 2020-02-21 17:05
Normal topic can remodel add loops in one chain in multichain PDB structure?
by ksteczk » Fri, 2020-05-01 06:26
1
460 by matteoferla
Mon, 2020-05-04 01:43
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
462 by qq7678500549
Sun, 2020-08-09 18:59
Normal topic Number of max allowed mutations from WT sequence
by mouung » Fri, 2020-09-04 02:33
2
464 by amorin
Fri, 2021-02-12 08:53
Normal topic structure prediction
by MA » Wed, 2018-09-05 00:50
0
468 by MA
Wed, 2018-09-05 00:50
Normal topic LoopModeler mover unable to determine cut point
by gszwabowski » Mon, 2020-06-01 13:12
1
472 by matteoferla
Thu, 2020-07-02 07:27
Normal topic remodel ERROR: unrecognized mm_atom_type_name RGU
by daniloboskovic » Sat, 2020-02-22 11:55
1
476 by daniloboskovic
Tue, 2020-02-25 08:28
Normal topic Docking-RMS value nan
by jlawrie » Wed, 2020-08-12 07:03
2
477 by jlawrie
Wed, 2020-08-12 07:27
Normal topic denovo_density don't output a pdb file
by ylwang » Sun, 2018-11-18 17:51
0
479 by ylwang
Sun, 2018-11-18 17:51
Normal topic Successful RosettaCM?
by jlawrie » Wed, 2020-08-19 06:53
2
481 by jlawrie
Thu, 2020-08-20 11:00
Normal topic Docking-I_sc values do not correlate
by jlawrie » Wed, 2020-08-12 08:08
2
487 by jlawrie
Wed, 2020-08-12 08:57
Normal topic Error when trying docking protocol with different ligand
by scyphs » Wed, 2020-08-05 04:37
2
488 by scyphs
Mon, 2020-08-10 08:09
Normal topic Weighted scores??
by sizhang » Wed, 2018-12-05 15:22
0
489 by sizhang
Wed, 2018-12-05 15:22
Normal topic PDB file name too long to be handled by file system
by dave » Thu, 2019-08-08 03:10
1
492 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
496 by danpf
Tue, 2019-09-03 10:15
Normal topic using piper-flexpepdock
by syntekabio2019 » Thu, 2019-12-12 01:22
0
496 by syntekabio2019
Thu, 2019-12-12 01:22
Normal topic not knowing which one of three ways to run rosettascript
by xinmiaohe » Tue, 2020-10-13 13:52
2
498 by xinmiaohe
Mon, 2020-10-19 13:18
Normal topic Prevention of the negatively charged Nitrogen protonation by coupled_moves
by Corvin » Wed, 2020-11-18 02:56
4
502 by Corvin
Wed, 2020-11-25 02:58
Normal topic Protein-Protein Docking or Comparative Modeling
by Morrian_Lynn » Wed, 2020-01-29 19:01
1
505 by danpf
Fri, 2020-02-21 18:23
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
506 by xinmiaohe
Fri, 2020-02-07 13:52
Normal topic Energy function and iteration script files
by michelleqyh » Fri, 2019-09-27 09:06
1
510 by smlewis
Fri, 2019-09-27 11:54
Normal topic Adding positional restraints to pure RNA system in DRRAFTER and rna_denovo
by zharmad » Fri, 2019-08-23 01:16
1
512 by everyday847
Fri, 2019-08-23 04:08
Normal topic Homology Modeling-no PDB output
by jlawrie » Wed, 2020-08-12 06:30
2
513 by jlawrie
Wed, 2020-08-12 08:56
Normal topic How to analyse multiple silent files from "Abinitiorelax" output to find best models?
by Danielsebas » Tue, 2019-09-10 10:01
1
517 by smlewis
Mon, 2019-09-16 12:22
Normal topic Symmetry mode in Remodel for N-terminal extension
by yvonne.chan2 » Mon, 2019-11-04 13:41
0
518 by yvonne.chan2
Mon, 2019-11-04 13:41
Normal topic Scoring docking error
by almeida85 » Wed, 2020-09-02 01:32
2
521 by almeida85
Wed, 2020-09-02 06:14
Normal topic fixing sequence during grafting in antibody_designer
by COM » Fri, 2020-01-24 11:38
1
527 by jadolfbr
Tue, 2020-01-28 09:13
Normal topic antibody protocol fails
by hamedkhakzad » Mon, 2019-08-19 07:43
1
533 by smlewis
Tue, 2019-10-22 09:45
Normal topic make_fragments.pl error
by almeida85 » Mon, 2020-08-31 04:39
2
535 by almeida85
Tue, 2020-09-01 01:29
Normal topic Do partner1 and partner2 in mover BackrubDD mean chain1 and chain2 respectively?
by johnnytam100 » Fri, 2019-08-23 21:10
1
537 by rmoretti
Mon, 2019-08-26 12:03
Normal topic Modelling temperature dependent RNA structures
by tuleshwori » Tue, 2020-05-19 01:16
2
544 by tuleshwori
Thu, 2020-05-21 02:08
Normal topic Secondary Matching build_sets Error
by enmirts » Wed, 2018-03-28 10:33
0
547 by enmirts
Wed, 2018-03-28 10:34
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
548 by brspurri
Thu, 2020-05-14 12:24
Normal topic Issue with Rosetta LinkResidues Script
by adityapadhi » Wed, 2019-11-20 22:00
1
549 by JackMaguire
Fri, 2019-11-22 13:45
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
550 by rmoretti
Wed, 2019-09-18 10:36
Normal topic Flexpepdock I_hb scoring term
by mbakalar » Fri, 2018-08-31 13:05
0
550 by mbakalar
Fri, 2018-08-31 13:06
Normal topic rosetta remodel and designing helix extension
by dhirajks » Thu, 2018-12-13 19:34
0
565 by dhirajks
Thu, 2018-12-13 19:34
Normal topic How to create a native file for Protein-Protein docking
by Kotimedidhi » Fri, 2020-06-19 08:58
2
566 by Kotimedidhi
Mon, 2020-06-22 16:19
Normal topic RosettaCM or FastRelax?
by Tianyang89 » Wed, 2020-09-23 07:46
3
567 by danpf
Thu, 2020-09-24 13:44
Normal topic "core.kinematics.FoldTree" error upon running RAbD
by Sunyp_IM » Fri, 2020-06-26 17:27
2
569 by Sunyp_IM
Fri, 2020-06-26 20:57
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
574 by cm21
Wed, 2020-05-20 11:22
Normal topic denovo modelling on a virus-coat protein dimer
by aseem121 » Wed, 2019-10-16 06:55
1
575 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
578 by jadolfbr
Thu, 2019-09-19 08:53
Normal topic debug rosetta_scripts FunFolDes run
by tatsiana.bylund » Sun, 2019-08-18 23:17
1
578 by neelamraju.srid...
Wed, 2020-11-18 05:47
Normal topic ligand_docking ligand preparation
by Alison_Yajie » Thu, 2020-05-21 10:21
2
579 by Alison_Yajie
Wed, 2020-06-24 12:38
Normal topic BUG REPORT: Remodel Resfile ERROR: LEU was added more than once?
by daniloboskovic » Wed, 2020-04-29 01:17
2
580 by daniloboskovic
Wed, 2020-04-29 05:51
Normal topic Problem with Scoring function and PlaceStub mover
by a-eatemadi@razi... » Sat, 2018-04-07 09:22
0
580 by a-eatemadi@razi...
Sat, 2018-04-07 09:24
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
581 by smlewis
Tue, 2019-09-24 12:43
Normal topic OptimizeMembranePositionMover - This element is not expected
by bjharris » Wed, 2020-07-01 23:21
2
585 by bjharris
Thu, 2020-07-02 11:09
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
586 by danpf
Thu, 2019-10-10 09:55
Normal topic comparative modelling of a complex
by sdh_h » Sun, 2017-12-17 06:07
0
587 by sdh_h
Sun, 2017-12-17 06:07
Normal topic DDG and interaction score problem
by a-eatemadi@razi... » Mon, 2018-04-09 22:54
0
588 by a-eatemadi@razi...
Mon, 2018-04-09 22:54
Normal topic AddHelixSequenceConstraints Mover2
by Negarsardar » Sat, 2019-06-01 01:54
1
594 by vmulligan
Thu, 2019-06-13 15:01
Normal topic nstruct vs. trials?
by chrisHKL » Mon, 2020-03-02 13:22
2
596 by chrisHKL
Wed, 2020-03-04 10:49
Normal topic Any progress on getting intermediate structures during a design?
by broomsday » Mon, 2020-03-16 06:46
2
600 by vmulligan
Tue, 2020-03-17 11:35
Normal topic Interesting scoring performance in flexpepdock against random peptides
by ziqi1234 » Fri, 2017-12-08 07:52
0
602 by ziqi1234
Fri, 2017-12-08 07:52
Normal topic Dock two domains using topology broker
by sn » Thu, 2017-10-05 17:07
0
603 by sn
Thu, 2017-10-05 17:07
Normal topic The relax qustion of Rosetta VIP
by asbelx » Mon, 2019-06-10 07:52
1
603 by rmoretti
Mon, 2019-06-24 14:42
Normal topic mpirun docking_protocol
by NanB » Mon, 2020-08-03 11:38
1
610 by ssrb
Fri, 2020-08-14 09:18
Normal topic DDG_monomer ΔΔG question
by asbelx » Fri, 2018-04-20 03:31
0
612 by asbelx
Fri, 2018-04-20 03:33
Normal topic kcenters_clustering_of_fragments
by bjharris » Mon, 2019-07-01 16:16
1
618 by bjharris
Wed, 2020-07-01 23:25
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