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Rosetta 3 - Applications

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Normal topic Different scoring applications (score vs score_aln vs score_jd2, etc.)?
by cossio » Fri, 2014-12-26 07:19
2
2,429 by cossio
Tue, 2015-01-20 06:40
Normal topic RosettaScripts - FastRelax loops
by jtmacd » Wed, 2015-11-18 09:32
2
2,790 by jtmacd
Fri, 2015-12-04 03:11
Normal topic Relax structure with metal cofactors
by h_trasatti » Tue, 2017-03-14 14:04
2
1,713 by rmoretti
Tue, 2017-03-28 08:51
Normal topic Choosing weight file for interface design?
by johnnytam100 » Tue, 2019-05-07 00:47
2
793 by johnnytam100
Tue, 2019-05-21 22:33
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
376 by qq7678500549
Sun, 2020-08-09 18:59
Normal topic ddG filter gives deltaG calculation number?
by jarod » Tue, 2013-05-28 23:43
2
2,794 by jarod
Mon, 2014-04-21 06:47
Normal topic Abinitio protocol and X-Ray diffraction data
by allan.ferrari » Wed, 2015-08-12 12:49
2
1,825 by allan.ferrari
Fri, 2015-08-28 12:07
Normal topic How to create a native file for Protein-Protein docking
by Kotimedidhi » Fri, 2020-06-19 08:58
2
474 by Kotimedidhi
Mon, 2020-06-22 16:19
Normal topic Calculate_protein_protein_ddg
by kamau » Fri, 2015-01-30 11:27
2
1,912 by deepanshuiitb
Thu, 2015-03-19 19:14
Normal topic RosettaScript Segmentation Fault (crash log attached)
by chrisHKL » Thu, 2020-03-05 07:21
2
575 by chrisHKL
Thu, 2020-03-05 09:11
Normal topic ddG Monomer Low Res Protocol Convergence
by harshkhare » Thu, 2012-03-01 00:45
2
2,681 by harshkhare
Mon, 2014-04-21 06:47
Normal topic Reproducing the exact result using information from previos run
by nawsad » Thu, 2013-03-14 12:05
2
1,617 by nawsad
Mon, 2014-04-21 06:47
Normal topic FlexPepDock and total score problem
by tkellici » Fri, 2014-01-17 06:07
2
2,202 by Ora Schueler-Furman
Mon, 2014-04-21 06:48
Normal topic OptimizeMembranePositionMover - This element is not expected
by bjharris » Wed, 2020-07-01 23:21
2
484 by bjharris
Thu, 2020-07-02 11:09
Normal topic cluster.mpi running in MPI mode?
by sacch » Fri, 2011-11-18 23:30
2
3,166 by sacch
Mon, 2014-04-21 06:47
Normal topic Failing Fragment libraries us Chemical shifts with Robettaa
by kalabharath » Tue, 2015-04-28 19:33
2
1,701 by kalabharath
Wed, 2015-04-29 16:21
Normal topic Modelling temperature dependent RNA structures
by tuleshwori » Tue, 2020-05-19 01:16
2
463 by tuleshwori
Thu, 2020-05-21 02:08
Normal topic Floppytail modelling
by felipet » Fri, 2011-06-24 09:23
2
2,611 by felipet
Mon, 2014-04-21 06:47
Normal topic RosettaSurface in 3.4?
by skovacs » Tue, 2012-07-10 16:02
2
2,059 by mpacella
Mon, 2014-04-21 06:47
Normal topic relax constraints not minimized
by m_grisewood » Fri, 2012-08-10 08:31
2
2,599 by m_grisewood
Mon, 2014-04-21 06:47
Normal topic Fastrelax problem
by Pernille » Fri, 2014-06-20 00:16
2
2,505 by Pernille
Thu, 2014-07-03 07:21
Normal topic Filter ddg_filter reports failure!
by deepanshuiitb » Fri, 2015-02-27 18:19
2
1,841 by deepanshuiitb
Sat, 2015-02-28 19:24
Normal topic -loops:fa_input not found in command line top-level context
by swarekwood » Thu, 2017-08-24 03:15
2
1,298 by swarekwood
Fri, 2017-08-25 05:08
Normal topic ligand docking with MPI
by Ruska322 » Wed, 2019-09-04 03:47
2
660 by Ruska322
Fri, 2019-09-06 07:13
Normal topic ligand_docking ligand preparation
by Alison_Yajie » Thu, 2020-05-21 10:21
2
498 by Alison_Yajie
Wed, 2020-06-24 12:38
Normal topic residues_patch_selectors CENTROID_HA
by Pernille » Fri, 2014-10-03 03:53
2
1,901 by Pernille
Wed, 2014-10-08 10:41
Normal topic docking with constraints and flexible bb
by mintseris » Mon, 2015-06-22 09:07
2
1,941 by mintseris
Wed, 2015-06-24 22:04
Normal topic high-res docking
by tfliu » Mon, 2013-07-15 02:49
2
2,226 by tfliu
Mon, 2014-04-21 06:48
Normal topic error extracting PDB from silent from AbinitioRelax with constraints
by attesor » Wed, 2017-06-14 04:15
2
1,232 by smlewis
Fri, 2017-06-16 07:35
Normal topic very good I_sc values (if not too good)
by attesor » Tue, 2015-11-03 03:30
2
1,887 by attesor
Tue, 2015-11-17 07:36
Normal topic Ensemble docking causes segmentation fault 11
by David Weis » Mon, 2017-03-06 14:30
2
1,689 by David Weis
Mon, 2017-03-13 06:40
Normal topic Centroid mode minimization
by Martin Floor » Tue, 2020-01-21 07:34
2
573 by Martin Floor
Tue, 2020-01-21 11:15
Normal topic Docking with constraint
by Hongtham » Sat, 2014-12-27 09:56
2
1,767 by rmoretti
Fri, 2015-01-02 09:43
Normal topic Docking-I_sc values do not correlate
by jlawrie » Wed, 2020-08-12 08:08
2
384 by jlawrie
Wed, 2020-08-12 08:57
Normal topic How do I explicitly add residues for design in the interface optimization script?
by ahonegger » Mon, 2014-05-12 07:40
2
2,362 by ahonegger
Mon, 2014-05-12 09:08
Normal topic AddHelixSequenceConstraints Mover
by Negarsardar » Thu, 2019-05-30 03:17
2
663 by vmulligan
Thu, 2019-06-13 14:59
Normal topic InterfaceAnalyzer dSasa calculation
by mintseris » Wed, 2015-09-02 09:43
2
2,757 by jadolfbr
Thu, 2015-09-03 16:18
Normal topic How to correctly incorporate constraint information into ab initio structure prediction?
by johnnytam100 » Tue, 2019-02-19 03:13
2
1,004 by johnnytam100
Fri, 2019-03-01 01:36
Normal topic not knowing which one of three ways to run rosettascript
by xinmiaohe » Tue, 2020-10-13 13:52
2
404 by xinmiaohe
Mon, 2020-10-19 13:18
Normal topic Ligand docking and protein design of an internal pocket in a protein with a cofactor
by oerbilgin » Mon, 2011-06-20 13:55
2
3,478 by frichter
Mon, 2014-04-21 06:47
Normal topic Problems with fixbb in Rosetta 3.5
by mdidonato » Wed, 2014-06-04 13:56
2
1,672 by mdidonato
Wed, 2014-06-04 14:55
Normal topic Scoring docking error
by almeida85 » Wed, 2020-09-02 01:32
2
410 by almeida85
Wed, 2020-09-02 06:14
Normal topic Abinito for Multimers
by Prasanth Kumar » Wed, 2014-01-22 17:45
2
2,311 by Prasanth Kumar
Mon, 2014-04-21 06:48
Normal topic Not found some Flags
by jrcf » Sat, 2015-09-19 12:08
2
2,399 by jrcf
Mon, 2015-09-21 11:10
Normal topic Ligand atom RMSD calculation
by lkrathn » Wed, 2013-08-14 21:25
2
3,563 by lkrathn
Mon, 2014-04-21 06:48
Normal topic Warnings during relax
by cossio » Thu, 2018-10-11 14:42
2
1,176 by rmoretti
Mon, 2019-11-04 13:56
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
490 by cm21
Wed, 2020-05-20 11:22
Normal topic Unable to run Rosetta LoopModeling application
by BDBorrillo » Tue, 2011-07-19 14:06
2
3,884 by BDBorrillo
Mon, 2014-04-21 06:47
Normal topic Compiling Rosetta 3.3 on Linux Mint
by proteinproteindock » Thu, 2011-09-01 16:05
2
2,643 by proteinproteindock
Mon, 2014-04-21 06:47
Normal topic printing our per-residue energies including H-bonding energies
by vijayan » Tue, 2013-07-02 08:51
2
2,770 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Adding water interactions when docking a ligand with Rosetta 3.7.
by brspurri » Thu, 2017-06-01 09:37
2
1,828 by brspurri
Thu, 2017-06-01 10:58
Normal topic Problem with SymmDock in helical symmetry
by mumdonar » Wed, 2013-09-18 03:59
2
2,821 by mumdonar
Mon, 2014-04-21 06:48
Normal topic where is generate_ligens.linuxgccrelease?
by Nicole Deng » Thu, 2020-12-03 00:00
2
255 by Nicole Deng
Fri, 2020-12-18 00:28
Normal topic protein-ligand docking rescoring with interfaceAnalyzer
by syntekabio2019 » Sat, 2020-12-19 03:59
2
196 by syntekabio2019
Sun, 2020-12-20 21:10
Normal topic Fragments for long sequence
by exchhattu » Tue, 2011-10-04 01:51
2
2,113 by exchhattu
Mon, 2014-04-21 06:47
Normal topic Modeling flexible linkers with Floppytail
by pdbb » Sun, 2013-05-12 15:55
2
2,267 by smlewis
Mon, 2014-04-21 06:47
Normal topic Docking seems to not parse the -nstruct flag
by rosend » Tue, 2015-11-17 12:01
2
2,561 by rosend
Tue, 2015-11-17 12:12
Normal topic DDG_monomer application
by shadrinams » Mon, 2018-02-12 12:14
2
1,477 by shadrinams
Wed, 2018-03-14 07:46
Normal topic Error when trying docking protocol with different ligand
by scyphs » Wed, 2020-08-05 04:37
2
410 by scyphs
Mon, 2020-08-10 08:09
Normal topic example scripts for comparative modeling
by fglaser » Sun, 2011-02-27 21:50
2
2,522 by maxebert
Mon, 2014-04-21 06:47
Normal topic homology modeling with threading says length mismatch between sequence and alignment
by rqliang » Thu, 2015-08-06 11:46
2
1,874 by jharamesh
Sat, 2015-08-08 19:51
Normal topic The Usage of motifgraft
by Sunyp_IM » Sun, 2017-11-19 20:22
2
1,634 by Sunyp_IM
Mon, 2017-11-20 19:20
Normal topic Chemically bound ligand connection error
by tsztain » Tue, 2019-01-01 18:40
2
1,009 by tsztain
Mon, 2019-02-18 09:55
Normal topic Speed problem when running RosettaLigand ligand docking
by Nicole Deng » Tue, 2019-10-08 04:29
2
879 by Nicole Deng
Tue, 2020-11-03 19:07
Normal topic prepack_example.sh error message
by sacch » Sun, 2011-10-23 23:22
2
2,268 by sacch
Mon, 2014-04-21 06:47
Normal topic Fold and Dock - chains not in contact
by arthuc01 » Wed, 2012-06-13 01:45
2
2,116 by smlewis
Mon, 2014-04-21 06:47
Normal topic A question on the logic of enzyme design
by agulsevin » Thu, 2013-06-13 08:10
2
2,857 by agulsevin
Mon, 2014-04-21 06:48
Normal topic Packstat score in InterfaceAnalyzer
by Vedasheersh » Fri, 2017-01-27 06:21
2
1,473 by smlewis
Fri, 2017-01-27 07:20
Normal topic Alanine Scanning for 1 Protein (no interface)
by mags33 » Fri, 2019-10-25 10:08
2
814 by mags33
Wed, 2019-11-06 09:35
Normal topic How to sort a Silent File based on RMSD
by JadAbbass » Sun, 2013-08-04 14:40
2
2,438 by lanselibai
Mon, 2014-10-06 15:30
Normal topic flexpepdock_score_only
by ays » Sun, 2014-09-21 06:17
2
1,626 by ays
Tue, 2014-09-30 08:31
Normal topic SPLINE EPR_DISTANCE Constraint Error
by mmw88 » Tue, 2018-09-18 14:39
2
1,057 by rmoretti
Thu, 2018-09-20 09:19
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
469 by brspurri
Thu, 2020-05-14 12:24
Normal topic where to look for positive sign for solution in mr-rosetta3.4?
by lchen » Tue, 2012-07-10 09:38
2
2,149 by lchen
Mon, 2014-04-21 06:47
Normal topic CSrosetta run problem
by erin_cutts » Fri, 2013-06-28 09:52
2
2,666 by erin_cutts
Mon, 2014-04-21 06:48
Normal topic Rosetta_cm Segmentation Fault
by gszwabowski » Thu, 2019-06-20 12:55
2
1,068 by gszwabowski
Wed, 2019-06-26 10:25
Normal topic cartfrag_overlap error while running hybridize protocol
by sn » Thu, 2017-12-21 10:24
2
1,038 by dnamkr
Mon, 2019-12-30 11:43
Normal topic Error: in membrane docking : Cannot split pose by membrane jump! Quitting...
by Astghik » Tue, 2020-11-24 05:27
2
222 by Astghik
Thu, 2020-12-03 02:35
Normal topic Multiple Chain Comparative Modeling - End result is not even close to template structure
by eskici » Wed, 2012-08-29 08:09
2
2,768 by eskici
Mon, 2014-04-21 06:47
Normal topic Rosetta Script for ddg_monomer protocol 16
by cossio » Thu, 2018-01-25 08:23
2
1,173 by cossio
Sun, 2018-03-11 09:12
Normal topic Flexpep docking freezing issue at "press enter to continue"
by rlwoltz » Tue, 2013-01-22 13:31
2
2,156 by rlwoltz
Mon, 2014-04-21 06:47
Normal topic ab initio modelling - what to do next?
by krlitros87 » Thu, 2014-10-16 13:05
2
2,221 by krlitros87
Wed, 2014-10-22 09:31
Normal topic score:weights for fixbb application in Rosetta 3.5
by tylerborrman » Tue, 2015-07-28 14:16
2
1,738 by tylerborrman
Wed, 2015-09-23 10:51
Normal topic Altering substrate specificity
by bp » Thu, 2016-12-22 02:45
2
1,472 by bp
Thu, 2016-12-22 07:54
Normal topic Model monomer to fit cryo density map of a filament
by BuddySphinx » Wed, 2018-12-12 18:58
2
899 by BuddySphinx
Sun, 2018-12-30 16:49
Normal topic BUG REPORT: Remodel Resfile ERROR: LEU was added more than once?
by daniloboskovic » Wed, 2020-04-29 01:17
2
474 by daniloboskovic
Wed, 2020-04-29 05:51
Normal topic How to add constrains to FlexPepDocking?
by MajorID » Thu, 2011-06-02 11:00
2
2,154 by MajorID
Mon, 2014-04-21 06:47
Normal topic Docking-RMS value nan
by jlawrie » Wed, 2020-08-12 07:03
2
389 by jlawrie
Wed, 2020-08-12 07:27
Normal topic How to add a residue to one chain of an existing structure?
by sn » Mon, 2017-04-17 09:34
2
1,639 by sn
Thu, 2017-04-20 21:43
Normal topic protein interface design
by Negarsardar » Tue, 2019-05-28 07:04
2
825 by Negarsardar
Thu, 2019-05-30 23:46
Normal topic Successful RosettaCM?
by jlawrie » Wed, 2020-08-19 06:53
2
381 by jlawrie
Thu, 2020-08-20 11:00
Normal topic Enzdes scorefile lost, can I recreate it
by eyong123 » Wed, 2015-04-15 05:55
2
1,653 by eyong123
Wed, 2015-04-22 11:33
Normal topic How to restart RASREC run
by aep » Fri, 2016-07-01 04:39
2
1,374 by aep
Fri, 2016-07-01 06:54
Normal topic RosettaCM hybridize mover error after fragment picking
by amorin » Thu, 2018-09-06 11:03
2
1,066 by dnamkr
Thu, 2019-12-26 10:22
Normal topic How to run partial_thread in RosettaCM when residure are more than 9999?
by lanselibai » Mon, 2020-05-11 22:43
2
557 by lanselibai
Tue, 2020-05-12 20:25
Normal topic hbond_sr_bb and hbond_lr_bb for different chains
by tylerborrman » Tue, 2020-10-13 13:41
2
257 by tylerborrman
Tue, 2021-02-09 16:33
Normal topic Rosetta relax problem
by jingwei xu » Wed, 2016-03-09 21:41
2
3,209 by jingwei xu
Wed, 2016-05-04 23:28
Normal topic Is native.pdb necess for fragment_picker?
by ylwang » Thu, 2020-03-12 00:57
2
587 by ylwang
Thu, 2020-03-12 20:42
Normal topic Disulfide prediction from primary sequence
by zcrook » Wed, 2014-11-12 14:44
2
3,516 by zcrook
Tue, 2014-11-25 10:27
Normal topic Use NMR ensemble in protein-protein docking?
by cossio » Sun, 2015-09-13 07:57
2
1,946 by cossio
Tue, 2015-09-15 12:48
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