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Rosetta 3 - Applications

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Normal topic unable to generate the span file with "mp_span_from_pdb.default.linuxgccrelease" from a PDB file
by Sajjad » Wed, 2022-11-30 11:40
0
3,358 by Sajjad
Wed, 2022-11-30 11:40
Normal topic Not found some Flags
by jrcf » Sat, 2015-09-19 12:08
2
3,359 by jrcf
Mon, 2015-09-21 11:10
Normal topic Lammps or RosettaSurface
by StevPChem » Fri, 2016-06-10 10:13
3
3,366 by Anpu
Tue, 2018-09-25 18:53
Normal topic strange effect in: SymDock.linuxgccrelease
by ast » Tue, 2013-06-11 11:05
3
3,368 by ast
Mon, 2014-04-21 06:48
Normal topic printing our per-residue energies including H-bonding energies
by vijayan » Tue, 2013-07-02 08:51
2
3,370 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Structure determination combining X-ray diffraction data and NMR chemical shift
by MajorID » Mon, 2011-10-17 19:55
2
3,385 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Can't append or prepend with pepspec
by danzinho » Tue, 2015-03-31 01:19
3
3,385 by dswhit
Tue, 2015-04-21 10:14
Normal topic folding ectodomain in membrane ab initio
by freedman » Mon, 2015-05-25 21:09
3
3,389 by rmoretti
Fri, 2015-06-19 13:53
Normal topic Fastrelax problem
by Pernille » Fri, 2014-06-20 00:16
2
3,395 by Pernille
Thu, 2014-07-03 07:21
Normal topic Missing CS-HM-Rosetta Binary files
by Marius1987 » Wed, 2016-02-10 05:52
3
3,408 by Marius1987
Mon, 2016-03-14 04:34
Normal topic Multiple Chain Comparative Modeling - End result is not even close to template structure
by eskici » Wed, 2012-08-29 08:09
2
3,409 by eskici
Mon, 2014-04-21 06:47
Normal topic Error in a new docking
by jrcf » Wed, 2017-05-17 19:26
2
3,411 by tingting
Tue, 2022-03-15 23:55
Normal topic How to run simulations with non-canonical amino acids?
by Denise » Thu, 2017-06-08 07:50
4
3,416 by Denise
Thu, 2017-06-15 04:26
Normal topic what does initialize_rigid_body_dofs do?
by attesor » Mon, 2015-10-26 05:12
3
3,427 by rmoretti
Tue, 2015-11-10 11:35
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
3,427 by jadolfbr
Mon, 2014-05-12 10:41
Normal topic How to minimize the decoys obtained from backrub?
by Vedasheersh » Wed, 2017-06-14 10:26
5
3,439 by SenyorDrew
Fri, 2017-06-30 09:47
Normal topic ddG Monomer Low Res Protocol Convergence
by harshkhare » Thu, 2012-03-01 00:45
2
3,444 by harshkhare
Mon, 2014-04-21 06:47
Normal topic Executing the clean_pdb.py script
by Rkfoury » Fri, 2015-02-20 10:16
1
3,450 by lanselibai
Tue, 2015-02-24 02:36
Normal topic The confussion about an example in tutorial in Rosetta Virtual Workshop 2020
by ldx022 » Tue, 2022-11-29 04:58
3
3,453 by ldx022
Tue, 2022-11-29 08:38
Normal topic pdb2vall
by JadAbbass » Mon, 2013-07-08 12:11
3
3,453 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Ligand dock analysis
by sacch » Tue, 2012-05-22 01:20
3
3,458 by glemmon
Mon, 2014-04-21 06:47
Normal topic Local docking: "manually place the two proteins facing each other" ?
by mdeklotz » Fri, 2018-07-20 10:24
5
3,458 by dfcoelho
Tue, 2018-10-16 09:05
Normal topic Different scoring applications (score vs score_aln vs score_jd2, etc.)?
by cossio » Fri, 2014-12-26 07:19
3
3,464 by Patrícia Antunes
Fri, 2023-01-20 11:55
Normal topic proline patching problem
by xun » Tue, 2012-01-03 11:15
3
3,465 by xun
Mon, 2014-04-21 06:47
Normal topic High energies after loopmodel run
by michki » Thu, 2014-05-08 05:14
3
3,465 by rmoretti
Mon, 2014-05-12 15:16
Normal topic Problem with SymmDock in helical symmetry
by mumdonar » Wed, 2013-09-18 03:59
2
3,479 by mumdonar
Mon, 2014-04-21 06:48
Normal topic Can only relax one structure at a time
by lah435 » Wed, 2012-12-12 01:55
3
3,484 by smlewis
Mon, 2014-04-21 06:47
Normal topic RMSD calculation
by hamedkhakzad » Tue, 2016-09-13 04:56
2
3,485 by rmoretti
Wed, 2016-09-14 02:05
Normal topic FlexPepDock for protein containing multiple chains
by Dimitrov » Mon, 2012-10-08 08:31
3
3,498 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta Holes
by zsun12 » Wed, 2015-09-30 11:40
1
3,501 by rmoretti
Mon, 2015-10-12 15:20
Normal topic Rosetta RNA denovo huge memory usage (probable memory leak)
by cdegut » Mon, 2017-10-30 16:41
5
3,501 by cdegut
Fri, 2017-11-03 05:50
Normal topic ddG filter gives deltaG calculation number?
by jarod » Tue, 2013-05-28 23:43
2
3,507 by jarod
Mon, 2014-04-21 06:47
Normal topic RosettaCM Ignoring Ligand
by Delfosse57 » Sun, 2022-12-04 12:05
0
3,513 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
3,531 by lanselibai
Fri, 2014-09-26 14:58
Normal topic cyclization_type flag in simple_cycpep_predict
by Florent Langenfeld » Thu, 2018-01-04 09:22
5
3,534 by Florent Langenfeld
Tue, 2018-03-27 11:44
Normal topic clustering in RosettaRemodel
by cheyuk » Wed, 2014-04-23 03:09
3
3,554 by rmoretti
Mon, 2014-05-12 08:45
Normal topic terminal amino acids of gap has incomplete valency
by malkeet.singh » Wed, 2017-11-29 05:20
6
3,557 by rmoretti
Fri, 2017-12-01 12:05
Normal topic Modeling of side-chains onto membrane ab initio cluster?
by akfried » Thu, 2011-06-23 04:03
3
3,562 by nkemjika
Mon, 2014-04-21 06:47
Normal topic Error during single state design
by sujigeorge1979 » Sat, 2020-01-18 00:37
5
3,563 by rmoretti
Thu, 2020-01-30 15:42
Normal topic flexpepdock flag "-packing:unboundrot"
by gw » Mon, 2011-07-11 12:23
2
3,580 by Ora Schueler-Furman
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
3,584 by aloshbau
Mon, 2014-04-21 06:47
Normal topic score_jd2.linuxgccrelease documentation
by fglaser » Mon, 2011-08-01 04:08
1
3,584 by smlewis
Mon, 2014-04-21 06:47
Normal topic revert_design_to_native app comparison to FavorNativeResidue mover
by nwhoppe » Wed, 2016-06-29 14:35
3
3,594 by rmoretti
Tue, 2016-07-12 09:30
Normal topic Snugdock_input
by luicui » Wed, 2017-01-18 16:48
5
3,600 by smlewis
Fri, 2017-01-20 08:14
Normal topic Problems running pmut in parallel with openmpi
by RMJ » Fri, 2012-09-21 06:25
2
3,600 by RMJ
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
3,606 by agulsevin
Mon, 2014-04-21 06:48
Normal topic Problem with symmetric docking
by saxen » Fri, 2011-04-29 15:15
3
3,610 by smlewis
Mon, 2014-04-21 06:47
Normal topic RosettaScripts - FastRelax loops
by jtmacd » Wed, 2015-11-18 09:32
2
3,611 by jtmacd
Fri, 2015-12-04 03:11
Normal topic auto_setup_metals flag with loop modeling application fails
by beowulfey » Wed, 2015-06-10 07:44
3
3,626 by beowulfey
Tue, 2015-06-23 16:10
Normal topic conway2016 correction on beta-nov15?
by attesor » Wed, 2017-03-15 05:26
5
3,634 by attesor
Thu, 2017-03-16 01:21
Normal topic Constraints in RosettaCM
by kbuhr » Fri, 2015-07-31 06:55
3
3,639 by kbuhr
Mon, 2016-03-28 01:08
Normal topic ddg_monomer.mpi
by gw » Thu, 2011-10-27 16:45
3
3,642 by smlewis
Mon, 2014-04-21 06:47
Normal topic Generate fragment file on my computer
by jrcf » Mon, 2015-09-21 15:41
2
3,642 by jrcf
Mon, 2015-10-05 21:32
Normal topic null mutation with ddg_monomer
by fred » Fri, 2012-05-11 07:16
4
3,656 by fred
Mon, 2014-04-21 06:47
Normal topic Error when running Remodel with EnzDes constraint file to extend c-terminal
by Jeffrey_Chen » Thu, 2017-01-19 06:20
4
3,662 by dfcoelho
Tue, 2017-10-17 11:52
Normal topic Per residue scoring
by chelsell » Mon, 2015-08-17 14:43
3
3,666 by rmoretti
Wed, 2015-09-02 12:33
Normal topic Changing scoring function for fixbb protocol
by mdyini » Sat, 2012-07-07 18:43
4
3,669 by mdyini
Mon, 2014-04-21 06:47
Normal topic HBNet and RosettaScripts
by protos_heis » Tue, 2014-08-05 06:05
3
3,673 by protos_heis
Tue, 2014-08-05 12:47
Normal topic xyzVector error in Enzyme design
by ajmbarbosa » Tue, 2016-01-05 09:46
3
3,681 by rmoretti
Fri, 2016-06-17 10:36
Normal topic rosetta3.4 fragment file problem
by David Hoover » Wed, 2012-05-16 14:42
4
3,699 by dgront
Mon, 2014-04-21 06:47
Normal topic partial ab initio modeling
by fred » Wed, 2011-08-17 14:14
3
3,704 by smlewis
Mon, 2014-04-21 06:47
Normal topic docking with constraints
by talavera » Tue, 2013-05-07 01:50
1
3,716 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Rosetta 3.4 "Relax pdb with allatom constraints" does not work with structures containing multiple chains
by ahonegger » Tue, 2012-04-24 01:34
3
3,738 by ahonegger
Mon, 2014-04-21 06:47
Normal topic comparative modelling and broker
by felipet » Tue, 2013-02-05 08:33
4
3,744 by smlewis
Mon, 2014-04-21 06:47
Normal topic loopmodel thinks there are no residues in the pose
by lah435 » Wed, 2013-03-27 02:46
3
3,775 by rmoretti
Mon, 2014-04-21 06:47
Normal topic how to do alanine scanning
by xinmiaohe » Mon, 2019-08-26 17:40
5
3,778 by xinmiaohe
Fri, 2019-10-04 08:54
Normal topic Unsatisfied interface H-bond in Ligand docking
by Prasanth Kumar » Thu, 2013-07-18 12:04
1
3,798 by rmoretti
Mon, 2014-04-21 06:48
Normal topic pmut_scan does not produce log file
by fglaser » Wed, 2013-10-16 07:25
3
3,805 by matteoferla
Tue, 2018-10-30 02:54
Normal topic Pepspec Errors running 3.4
by rrphenix » Tue, 2013-05-28 12:08
4
3,826 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Loop prediction
by yzhou » Thu, 2013-07-18 14:24
3
3,838 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic comparative modeling of protein-ligand complex
by tevang » Mon, 2013-09-09 09:06
3
3,870 by rmoretti
Mon, 2014-04-21 06:48
Normal topic membrane ab initio modeling application with constraints
by ytao » Thu, 2012-11-08 11:56
2
3,872 by ytao
Mon, 2014-04-21 06:47
Normal topic InterfaceAnalyzer dSasa calculation
by mintseris » Wed, 2015-09-02 09:43
2
3,874 by jadolfbr
Thu, 2015-09-03 16:18
Normal topic Loop modeling - the appropriate way to model a peptide insertion?
by xding » Thu, 2018-08-02 15:30
6
3,876 by smlewis
Wed, 2018-08-08 15:48
Normal topic fragment_picker with fasta only
by gw » Tue, 2011-11-15 13:20
3
3,883 by gw
Mon, 2014-04-21 06:47
Normal topic Warning messages in Interface analyzer output
by Pernille » Wed, 2015-03-25 00:53
4
3,899 by rmoretti
Tue, 2015-03-31 08:20
Normal topic molfile to params polymer python errors
by tsztain » Sun, 2018-12-02 15:38
5
3,907 by tsztain
Tue, 2018-12-11 13:41
Normal topic Some wrong with the flag "-l" for score_jd2.linuxgccrelease
by lanselibai » Mon, 2014-09-29 02:29
2
3,911 by lanselibai
Tue, 2014-09-30 02:28
Normal topic Homology Modelling with cofactors
by Derek Smith » Thu, 2015-07-09 08:24
3
3,913 by Derek Smith
Wed, 2016-02-03 05:47
Normal topic Rosetta ScriptsFeatures Reporter issue
by David Weis » Sun, 2017-03-12 08:19
5
3,919 by David Weis
Mon, 2017-03-13 10:59
Normal topic ddg monomer vs pmut scan
by dave » Tue, 2014-03-04 10:18
3
3,924 by smlewis
Fri, 2014-03-07 13:02
Normal topic Unable to locate the "compute_ddg.py" file and running the RosettaMP protocol
by Sajjad » Mon, 2022-11-28 14:09
3
3,926 by Sajjad
Wed, 2022-11-30 11:50
Normal topic jd2 quits before reaching -nstruct # in roseta_scripts.mpi.linuxgccrelease
by fradom » Mon, 2017-11-27 02:55
6
3,938 by fradom
Tue, 2017-12-05 01:52
Normal topic ligand dock question
by sacch » Sun, 2012-05-20 19:49
4
3,946 by sacch
Mon, 2014-04-21 06:47
Normal topic Re: Glutamic acid protonation
by bharat_46010 » Fri, 2017-02-10 03:08
4
3,958 by rmoretti
Mon, 2017-02-20 08:09
Normal topic running in MPI mode and multiple scores per output PDB file?
by dantimatter » Wed, 2019-10-30 09:42
7
3,964 by dantimatter
Wed, 2019-11-06 09:51
Normal topic cluster.mpi running in MPI mode?
by sacch » Fri, 2011-11-18 23:30
2
3,993 by sacch
Mon, 2014-04-21 06:47
Normal topic Discrepancy between the total pose energy and sum of per residue energies
by vijayan » Tue, 2013-07-02 07:24
3
3,994 by rmoretti
Mon, 2014-04-21 06:48
Normal topic AbinitioRelax Disulfide Bonds are not being retained
by brspurri » Wed, 2011-09-28 13:55
1
3,997 by parmef
Mon, 2014-04-21 06:47
Normal topic protein-protein docking with flexible backbone
by tim » Fri, 2013-12-20 05:52
1
4,006 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Symmetric Minimization
by aroop » Mon, 2012-12-17 11:45
5
4,007 by aroop
Mon, 2014-04-21 06:47
Normal topic homology modeling- Error: length mismatch between sequence and alignment.
by pdbb » Mon, 2012-10-01 07:57
2
4,018 by pdbb
Mon, 2014-04-21 06:47
Normal topic Ligand Docking with Rosetta Scripts memory problem
by Swillard » Thu, 2017-08-17 14:59
5
4,022 by rmoretti
Mon, 2018-11-12 14:31
Normal topic ERROR: no fragment to compute secondary structure
by byin » Sun, 2011-08-07 23:55
3
4,024 by smlewis
Mon, 2014-04-21 06:47
Normal topic Syntax for the alignment file in "minirosetta comparative modeling"
by lanselibai » Thu, 2014-10-16 15:29
3
4,042 by lanselibai
Thu, 2014-10-23 03:26
Normal topic modeling an extracellular loop of a transmembrane protein
by Hothman » Fri, 2016-08-12 06:16
5
4,052 by rmoretti
Mon, 2016-09-05 10:59
Normal topic Positive scores with SymmDock in helical symmetry
by kxiao » Tue, 2014-02-11 07:37
4
4,062 by kxiao
Thu, 2014-06-05 08:37
Normal topic Can I assume the outputs from different runs are from a same batch?
by lanselibai » Mon, 2014-11-03 06:34
4
4,072 by lanselibai
Mon, 2014-11-03 13:15
Normal topic Protein-DNA Docking using RosettaScripts?
by brspurri » Fri, 2013-06-07 09:06
1
4,083 by rmoretti
Mon, 2014-04-21 06:48
Normal topic std::bad_alloc error after changing .xml script?
by chrisHKL » Wed, 2020-03-04 11:44
10
4,088 by jadolfbr
Thu, 2020-03-05 07:02
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