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Rosetta 3 - Applications

Topic / Topic starter Replies Viewssort descending Last post
Normal topic No Space
by jrcf » Mon, 2016-01-11 16:18 		3
 3,641 by jrcf
Fri, 2016-02-12 16:42
Normal topic rosetta backrub
by ladimafakher » Thu, 2018-10-04 08:01 		4
 3,648 by ladimafakher
Thu, 2018-11-01 03:47
Normal topic flexpep docking, select the decoy to do the further docking, questions
by michael_luntan » Fri, 2011-04-22 04:43 		2
 3,652 by michael_luntan
Mon, 2014-04-21 06:47
Normal topic Score - Strange message
by Ashafix » Wed, 2013-11-20 15:23 		2
 3,655 by Ashafix
Mon, 2014-04-21 06:48
Normal topic relax protein with multi-conformer bound ligand
by xfradera » Thu, 2023-01-12 09:10 		4
 3,672 by rmoretti
Mon, 2023-02-06 15:06
Normal topic problem with fixed_membrane option of membrane abinitio
by yescalona » Thu, 2013-01-17 15:42 		3
 3,690 by smlewis
Mon, 2014-04-21 06:47
Normal topic Relax multiple PDB files with MPI, jd2, and a pdblist on TACC Stampede2
by AJVincelli » Sat, 2018-07-14 13:14 		1
 3,693 by AJVincelli
Sun, 2018-11-25 11:29
Normal topic How to sort a Silent File based on RMSD
by JadAbbass » Sun, 2013-08-04 14:40 		2
 3,697 by lanselibai
Mon, 2014-10-06 15:30
Normal topic error with fragment_picker.linuxgccrelease
by jiongzhang » Tue, 2012-04-17 09:07 		3
 3,713 by smlewis
Mon, 2014-04-21 06:47
Normal topic minimize_with_cst problems (ddg_monomer)
by alexn » Tue, 2011-09-20 13:46 		2
 3,719 by alexn
Mon, 2014-04-21 06:47
Normal topic example scripts for comparative modeling
by fglaser » Sun, 2011-02-27 21:50 		2
 3,741 by maxebert
Mon, 2014-04-21 06:47
Normal topic Problems incorporating nucleotides (GTP/GDP) into the modeling process for RosettaCM
by ajkal » Fri, 2017-04-14 08:44 		3
 3,743 by rmoretti
Thu, 2017-04-20 13:59
Normal topic RosettaMP: issue with generating .lips4 file
by ksy141 » Mon, 2019-01-21 17:17 		5
 3,743 by noahC_noahDo
Fri, 2020-11-20 11:29
Normal topic Score.sc file showing total score 0 for all protein structures created
by aanshi » Wed, 2022-11-23 11:13 		1
 3,749 by nannemdp
Mon, 2022-11-28 09:39
Normal topic Total score problems with high-res ddg_monomer
by jklesmith » Tue, 2015-03-10 15:54 		2
 3,755 by jennifer
Fri, 2015-03-27 05:56
Normal topic Add missing residues in loop modeling
by exchhattu » Thu, 2013-06-20 17:38 		1
 3,762 by smlewis
Mon, 2014-04-21 06:48
Normal topic De novo model-building guided by exprimental density data
by dee2711453 » Thu, 2016-03-10 17:28 		3
 3,773 by dee2711453
Fri, 2016-03-11 21:32
Normal topic RosettaRemodel
by gw » Wed, 2011-09-14 13:24 		2
 3,775 by smlewis
Mon, 2014-04-21 06:47
Normal topic Any backrub expert?
by johnnytam100 » Fri, 2019-03-01 01:58 		4
 3,778 by johnnytam100
Sun, 2019-03-03 23:42
Normal topic MaxSub and MaxSub2.0
by JadAbbass » Tue, 2013-10-15 13:36 		2
 3,779 by JadAbbass
Mon, 2014-04-21 06:48
Normal topic Pepspec - random runtime segfaults (rosetta 3.3 database replaced) [solved]
by loreseeker » Wed, 2011-09-14 08:13 		2
 3,783 by loreseeker
Mon, 2014-04-21 06:47
Normal topic protein protein interaction design
by Negarsardar » Wed, 2019-05-15 06:13 		3
 3,786 by ajasja
Wed, 2019-05-15 15:40
Normal topic Does relax.linuxgccrelease fully relax the structure compared to ddg_monomer.linuxgccrelease?
by lanselibai » Thu, 2015-01-08 03:23 		3
 3,788 by lanselibai
Tue, 2015-01-13 14:25
Normal topic pepspec anchor dock
by Astghik » Tue, 2020-10-20 05:31 		6
 3,795 by Pappmaschee
Thu, 2020-12-17 02:24
Normal topic Residue_energy_breakdown utility
by cn » Sat, 2012-03-17 06:11 		3
 3,801 by cn
Mon, 2014-04-21 06:47
Normal topic Alanine Scanning
by gjbartlett » Mon, 2013-08-05 07:02 		1
 3,805 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Threading a sequence onto a template with ligands/metal ions included
by ajkal » Wed, 2017-04-19 11:53 		3
 3,821 by ahmadkhalifa
Sun, 2019-03-31 23:27
Normal topic CSrosetta run problem
by erin_cutts » Fri, 2013-06-28 09:52 		2
 3,821 by erin_cutts
Mon, 2014-04-21 06:48
Normal topic scoring input pdbs as the same as docking score
by hamedkhakzad » Fri, 2016-07-01 07:15 		3
 3,836 by rmoretti
Tue, 2016-07-12 09:05
Normal topic Coverage of sequence space?
by johnnytam100 » Sun, 2019-04-21 23:25 		4
 3,841 by johnnytam100
Thu, 2019-04-25 19:28
Normal topic Trouble enforcing a disulfide in loop building
by chelsell » Sun, 2015-05-10 16:31 		2
 3,842 by chelsell
Wed, 2015-05-27 14:36
Normal topic cartesian_ddg output
by cossio » Thu, 2018-10-11 14:58 		2
 3,843 by cossio
Fri, 2018-10-12 04:43
Normal topic printing our per-residue energies including H-bonding energies
by vijayan » Tue, 2013-07-02 08:51 		2
 3,852 by rmoretti
Mon, 2014-04-21 06:48
Normal topic relax constraints not minimized
by m_grisewood » Fri, 2012-08-10 08:31 		2
 3,860 by m_grisewood
Mon, 2014-04-21 06:47
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
 3,865 by aloshbau
Mon, 2021-03-01 20:06
Normal topic Question about running scallo
by danbo » Mon, 2021-11-29 23:25 		8
 3,881 by danbo
Wed, 2021-12-22 23:51
Normal topic Compiling Rosetta 3.3 on Linux Mint
by proteinproteindock » Thu, 2011-09-01 16:05 		2
 3,884 by proteinproteindock
Mon, 2014-04-21 06:47
Normal topic Fnat and Irms are nan in score.sc from docking_protocol?
by cossio » Sun, 2015-09-13 07:34 		2
 3,889 by rmoretti
Thu, 2015-09-17 12:47
Normal topic Multiple Chain Comparative Modeling - End result is not even close to template structure
by eskici » Wed, 2012-08-29 08:09 		2
 3,893 by eskici
Mon, 2014-04-21 06:47
Normal topic Problem with mpirun/mpiexec
by ahansel » Fri, 2020-07-10 08:37 		1
 3,895 by rmoretti
Fri, 2020-07-10 09:59
Normal topic Running RosettaHoles2
by weehee » Wed, 2013-02-13 09:35 		3
 3,901 by weehee
Mon, 2014-04-21 06:47
Normal topic Floppytail modelling
by felipet » Fri, 2011-06-24 09:23 		2
 3,905 by felipet
Mon, 2014-04-21 06:47
Normal topic Missing atoms and cannot find atom pose when refining ligand position with EM density
by BuddySphinx » Mon, 2018-12-31 16:22 		2
 3,936 by e3lm
Tue, 2021-09-14 10:02
Normal topic rotamer library in coupled_moves
by mtyras » Fri, 2015-05-29 07:46 		2
 3,937 by mtyras
Mon, 2015-06-08 03:18
Normal topic Docking seems to not parse the -nstruct flag
by rosend » Tue, 2015-11-17 12:01 		2
 3,949 by rosend
Tue, 2015-11-17 12:12
Normal topic Error with -patch_selectors
by subha » Tue, 2017-06-06 14:40 		4
 3,950 by subha
Fri, 2017-06-09 15:42
Normal topic Simple comparative modeling (threading) example is failing with "unknown atom name: CA CB"
by brspurri » Fri, 2017-03-24 10:52 		3
 3,952 by brspurri
Fri, 2017-03-24 11:35
Normal topic How to preserve ACE/NME termini?
by nitroamos » Tue, 2018-05-22 13:07 		3
 3,955 by rmoretti
Thu, 2018-06-28 12:44
Normal topic ddG Monomer Low Res Protocol Convergence
by harshkhare » Thu, 2012-03-01 00:45 		2
 3,961 by harshkhare
Mon, 2014-04-21 06:47
Normal topic conformational sampling of multi domain protein
by dhirajks » Tue, 2017-07-04 11:20 		4
 3,963 by jrporter
Wed, 2017-07-05 06:30
Normal topic Docking to TM protein plus lipid bilayer
by renedominik » Tue, 2019-03-12 06:58 		4
 3,964 by elpipasp
Thu, 2023-10-19 04:37
Normal topic Structure determination combining X-ray diffraction data and NMR chemical shift
by MajorID » Mon, 2011-10-17 19:55 		2
 3,967 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Problem with SymmDock in helical symmetry
by mumdonar » Wed, 2013-09-18 03:59 		2
 3,968 by mumdonar
Mon, 2014-04-21 06:48
Normal topic Executing the clean_pdb.py script
by Rkfoury » Fri, 2015-02-20 10:16 		1
 3,973 by lanselibai
Tue, 2015-02-24 02:36
Normal topic Relax is resulting in a Segmentation Fault
by brspurri » Thu, 2017-08-24 18:46 		3
 3,975 by brspurri
Sat, 2017-08-26 07:08
Normal topic mr_protocols with symmetry and ligand
by jhm13c » Mon, 2017-02-27 11:59 		4
 3,979 by jhm13c
Thu, 2017-03-02 12:01
Normal topic strange effect in: SymDock.linuxgccrelease
by ast » Tue, 2013-06-11 11:05 		3
 3,982 by ast
Mon, 2014-04-21 06:48
Normal topic Unable to set up interface foldtree because there are no movable jumps - (antibody/antigen docking)
by snorp » Mon, 2014-04-14 13:01 		2
 3,986 by jadolfbr
Mon, 2014-05-12 10:41
Normal topic Enzdes constraint file not defined correctly
by eyong123 » Fri, 2015-03-27 07:16 		3
 3,998 by rmoretti
Thu, 2015-04-16 10:38
Normal topic Error encountered during Rosetta loop modeling
by max » Tue, 2014-11-25 02:17 		3
 4,001 by max
Thu, 2014-11-27 02:56
Normal topic RAbD with N-term，Proline-like ncaa returns segmentation fault during CCDEndsGraftMover
by CordycepsLin » Sun, 2022-02-06 19:09 		9
 4,019 by CordycepsLin
Wed, 2022-02-09 19:39
Normal topic Why there are two outputs using pmut_scan_parallel.linuxgccrelease with a mutant list file?
by lanselibai » Sun, 2014-11-16 10:26 		3
 4,021 by G Mustafa
Thu, 2018-10-18 05:31
Normal topic ddg_monomer: what is the theoretical solution condition for the scoring?
by lanselibai » Sat, 2016-04-30 03:26 		3
 4,026 by smlewis
Mon, 2016-05-02 08:20
Normal topic pdb2vall
by JadAbbass » Mon, 2013-07-08 12:11 		3
 4,033 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Ligand dock analysis
by sacch » Tue, 2012-05-22 01:20 		3
 4,033 by glemmon
Mon, 2014-04-21 06:47
Normal topic RosettaCM Ignoring Ligand
by Delfosse57 » Sun, 2022-12-04 12:05 		0
 4,034 by Delfosse57
Sun, 2022-12-04 12:05
Normal topic Syntax to extract PDB files from a silent file
by lanselibai » Fri, 2014-09-26 13:48 		1
 4,039 by lanselibai
Fri, 2014-09-26 14:58
Normal topic Missing CS-HM-Rosetta Binary files
by Marius1987 » Wed, 2016-02-10 05:52 		3
 4,052 by Marius1987
Mon, 2016-03-14 04:34
Normal topic Can't append or prepend with pepspec
by danzinho » Tue, 2015-03-31 01:19 		3
 4,058 by dswhit
Tue, 2015-04-21 10:14
Normal topic How to perform abinitiorelax.mpi.linuxgccrelease in parallel mode with MPI
by kingljy » Sun, 2017-09-24 18:37 		3
 4,058 by rmoretti
Tue, 2017-10-10 09:58
Normal topic ddG filter gives deltaG calculation number?
by jarod » Tue, 2013-05-28 23:43 		2
 4,072 by jarod
Mon, 2014-04-21 06:47
Normal topic Loop design with length variation
by jarod » Thu, 2016-06-16 19:54 		3
 4,078 by rmoretti
Tue, 2016-07-12 09:41
Normal topic Fastrelax problem
by Pernille » Fri, 2014-06-20 00:16 		2
 4,090 by Pernille
Thu, 2014-07-03 07:21
Normal topic Extract PDB structures from database
by cossio » Mon, 2018-01-29 09:30 		3
 4,093 by rmoretti
Fri, 2018-11-23 11:23
Normal topic High energies after loopmodel run
by michki » Thu, 2014-05-08 05:14 		3
 4,093 by rmoretti
Mon, 2014-05-12 15:16
Normal topic Can only relax one structure at a time
by lah435 » Wed, 2012-12-12 01:55 		3
 4,098 by smlewis
Mon, 2014-04-21 06:47
Normal topic what does initialize_rigid_body_dofs do?
by attesor » Mon, 2015-10-26 05:12 		3
 4,103 by rmoretti
Tue, 2015-11-10 11:35
Normal topic folding ectodomain in membrane ab initio
by freedman » Mon, 2015-05-25 21:09 		3
 4,116 by rmoretti
Fri, 2015-06-19 13:53
Normal topic Lammps or RosettaSurface
by StevPChem » Fri, 2016-06-10 10:13 		3
 4,118 by Anpu
Tue, 2018-09-25 18:53
Normal topic proline patching problem
by xun » Tue, 2012-01-03 11:15 		3
 4,137 by xun
Mon, 2014-04-21 06:47
Normal topic Problems running pmut in parallel with openmpi
by RMJ » Fri, 2012-09-21 06:25 		2
 4,146 by RMJ
Mon, 2014-04-21 06:47
Normal topic docking with constraints
by talavera » Tue, 2013-05-07 01:50 		1
 4,151 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Error when running Remodel with EnzDes constraint file
by aloshbau » Wed, 2013-04-17 22:23 		2
 4,154 by aloshbau
Mon, 2014-04-21 06:47
Normal topic FlexPepDock for protein containing multiple chains
by Dimitrov » Mon, 2012-10-08 08:31 		3
 4,156 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
 4,178 by agulsevin
Mon, 2014-04-21 06:48
Normal topic clustering in RosettaRemodel
by cheyuk » Wed, 2014-04-23 03:09 		3
 4,185 by rmoretti
Mon, 2014-05-12 08:45
Normal topic Not found some Flags
by jrcf » Sat, 2015-09-19 12:08 		2
 4,191 by jrcf
Mon, 2015-09-21 11:10
Normal topic RosettaScripts - FastRelax loops
by jtmacd » Wed, 2015-11-18 09:32 		2
 4,192 by jtmacd
Fri, 2015-12-04 03:11
Normal topic score_jd2.linuxgccrelease documentation
by fglaser » Mon, 2011-08-01 04:08 		1
 4,195 by smlewis
Mon, 2014-04-21 06:47
Normal topic Specifying resfile in rosetta scripts
by johnnytam100 » Mon, 2019-03-18 02:19 		4
 4,195 by rmoretti
Fri, 2019-03-29 09:30
Normal topic Modeling of side-chains onto membrane ab initio cluster?
by akfried » Thu, 2011-06-23 04:03 		3
 4,205 by nkemjika
Mon, 2014-04-21 06:47
Normal topic flexpepdock flag "-packing:unboundrot"
by gw » Mon, 2011-07-11 12:23 		2
 4,217 by Ora Schueler-Furman
Mon, 2014-04-21 06:47
Normal topic Docking Prepack protocol working or not ?
by MJG » Mon, 2017-04-03 08:02 		4
 4,218 by MJG
Tue, 2017-04-04 23:59
Normal topic RosettaDesign error with Option file open failed
by xingqing326 » Sun, 2020-04-19 01:56 		4
 4,255 by xingqing326
Tue, 2020-04-21 19:11
Normal topic Rosetta Holes
by zsun12 » Wed, 2015-09-30 11:40 		1
 4,257 by rmoretti
Mon, 2015-10-12 15:20
Normal topic Generate fragment file on my computer
by jrcf » Mon, 2015-09-21 15:41 		2
 4,266 by jrcf
Mon, 2015-10-05 21:32
Normal topic  The error of InterfaceAnalyzer
by asbelx » Thu, 2017-12-21 19:04 		3
 4,273 by smlewis
Sat, 2017-12-23 15:56
Normal topic Unsatisfied interface H-bond in Ligand docking
by Prasanth Kumar » Thu, 2013-07-18 12:04 		1
 4,289 by rmoretti
Mon, 2014-04-21 06:48
Normal topic rosetta app
by MA » Wed, 2017-07-05 06:52 		5
 4,295 by smlewis
Tue, 2017-07-11 07:53
Normal topic Problem with symmetric docking
by saxen » Fri, 2011-04-29 15:15 		3
 4,299 by smlewis
Mon, 2014-04-21 06:47