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Rosetta 3 - Applications

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Normal topic error with fragment_picker.linuxgccrelease
by jiongzhang » Tue, 2012-04-17 09:07
3
2,999 by smlewis
Mon, 2014-04-21 06:47
Normal topic strange effect in: SymDock.linuxgccrelease
by ast » Tue, 2013-06-11 11:05
3
3,308 by ast
Mon, 2014-04-21 06:48
Normal topic New CSRosetta toolbox
by sn » Mon, 2017-04-24 12:42
3
2,231 by rmoretti
Tue, 2017-04-25 06:41
Normal topic How can I set ref2015 and ligand.wts(-restore_pre_talaris_2013_behavior )
by asbelx » Sat, 2019-06-08 00:07
3
1,892 by happycaapi
Tue, 2021-06-29 15:35
Normal topic Relax both peptide and ligands
by matteoferla » Thu, 2018-09-13 03:11
3
2,006 by smlewis
Fri, 2018-09-14 10:34
Normal topic sam.predict-2nd for make_fragments.pl script
by sumukh21 » Thu, 2011-02-17 12:29
3
4,187 by fukamitka
Mon, 2014-04-21 06:47
Normal topic using Rosetta to compute pH dependent binding?
by JuliusSu » Sun, 2014-06-15 20:28
3
4,370 by rmoretti
Tue, 2014-06-17 08:51
Normal topic Missing common atom definitions in constraints
by ic3reyes » Sat, 2011-06-11 13:09
3
4,517 by smlewis
Mon, 2014-04-21 06:47
Normal topic InterfaceAnalyzer problem
by almeida » Mon, 2014-03-03 14:56
3
4,247 by smlewis
Fri, 2014-03-07 14:09
Normal topic Modeling of side-chains onto membrane ab initio cluster?
by akfried » Thu, 2011-06-23 04:03
3
3,473 by nkemjika
Mon, 2014-04-21 06:47
Normal topic auto_setup_metals flag with loop modeling application fails
by beowulfey » Wed, 2015-06-10 07:44
3
3,539 by beowulfey
Tue, 2015-06-23 16:10
Normal topic RosettaScripts filter BuriedUnsatHbonds2 missing still
by zdaw » Fri, 2020-12-11 12:39
3
1,196 by zdaw
Tue, 2020-12-15 15:38
Normal topic fragment_picker with fasta only
by gw » Tue, 2011-11-15 13:20
3
3,800 by gw
Mon, 2014-04-21 06:47
Normal topic remodel gives no output
by coomteng@gmail.com » Tue, 2018-03-06 07:40
3
2,467 by rmoretti
Wed, 2018-03-07 08:44
Normal topic problem with fixed_membrane option of membrane abinitio
by yescalona » Thu, 2013-01-17 15:42
3
3,050 by smlewis
Mon, 2014-04-21 06:47
Normal topic Model truncated proteins
by BuddySphinx » Wed, 2018-12-12 10:32
3
2,006 by smlewis
Wed, 2018-12-12 16:51
Normal topic Residue_energy_breakdown utility
by cn » Sat, 2012-03-17 06:11
3
3,065 by cn
Mon, 2014-04-21 06:47
Normal topic ligand_docking_error
by Alison_Yajie » Mon, 2020-04-20 12:27
3
1,620 by YuFei
Sat, 2020-05-30 00:12
Normal topic Problems with always_constrained_relax_script
by wsgosal » Wed, 2013-05-29 04:39
3
4,211 by rmoretti
Mon, 2014-04-21 06:47
Normal topic High energies after loopmodel run
by michki » Thu, 2014-05-08 05:14
3
3,392 by rmoretti
Mon, 2014-05-12 15:16
Normal topic xyzVector error in Enzyme design
by ajmbarbosa » Tue, 2016-01-05 09:46
3
3,601 by rmoretti
Fri, 2016-06-17 10:36
Normal topic Running RosettaHoles2
by weehee » Wed, 2013-02-13 09:35
3
3,128 by weehee
Mon, 2014-04-21 06:47
Normal topic Per residue scoring
by chelsell » Mon, 2015-08-17 14:43
3
3,586 by rmoretti
Wed, 2015-09-02 12:33
Normal topic RosettaCM input file for running on Stampede
by smathersc » Wed, 2017-01-18 16:12
3
2,605 by rmoretti
Thu, 2017-02-02 09:02
Normal topic Rosetta_CM error unrecognized atom 'CS' this atom is not in PDB
by rlwoltz » Thu, 2019-01-24 19:43
3
3,063 by bjharris
Sun, 2020-08-23 14:03
Normal topic DockingProtocol
by Soler » Fri, 2022-02-11 00:12
3
809 by gezmi
Tue, 2022-02-15 21:47
Normal topic Using Rosetta Docking for nucleic acids
by Adrien Guilhot » Thu, 2011-04-28 06:16
3
4,480 by Adrien Guilhot
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
3,517 by rmoretti
Tue, 2016-07-12 09:30
Normal topic Docking membrane ions and water
by jrcf » Tue, 2017-02-07 15:47
3
2,629 by smlewis
Wed, 2017-02-15 07:43
Normal topic RosettaDock 4.0 ambiguous ERROR
by sam_dc » Fri, 2022-03-18 09:36
3
722 by rmoretti
Tue, 2022-03-22 09:10
Normal topic Relax is resulting in a Segmentation Fault
by brspurri » Thu, 2017-08-24 18:46
3
2,963 by brspurri
Sat, 2017-08-26 07:08
Normal topic What is a rational minimal value for the "-nstruct" option
by Sunyp_IM » Fri, 2020-05-22 01:28
3
1,502 by nannemdp
Sun, 2020-05-24 14:46
Normal topic ddg_monomer.mpi
by gw » Thu, 2011-10-27 16:45
3
3,552 by smlewis
Mon, 2014-04-21 06:47
Normal topic Comparative modeling of metalloproteins
by ctqwong » Sun, 2020-07-12 13:51
3
1,462 by ctqwong
Mon, 2020-07-27 01:48
Normal topic issues about cstfile in RosettaMatch
by Nicole Deng » Fri, 2020-12-18 05:44
3
1,599 by He Xiao
Sun, 2021-04-11 19:29
Normal topic Loop design with length variation
by jarod » Thu, 2016-06-16 19:54
3
3,234 by rmoretti
Tue, 2016-07-12 09:41
Normal topic Clustering issue
by Loki01 » Thu, 2018-03-29 10:16
4
2,606 by Loki01
Thu, 2018-04-12 08:28
Normal topic ligand_docking tutorial help: do crystal_complex.pdb files need to be prepped before using with <InterfaceScoreCalculator>
by DGR95 » Fri, 2021-04-16 19:26
4
1,343 by DGR95
Wed, 2021-04-28 16:13
Normal topic Single Strand DNA (ssDNA) 3D structure prediction
by mkoohim » Fri, 2012-04-06 00:52
4
13,238 by smlewis
Mon, 2014-04-21 06:47
Normal topic Template/Input length mismatch error during RosettaCM
by marinok » Mon, 2020-05-04 13:12
4
1,774 by marinok
Mon, 2020-05-11 12:48
Normal topic Error while running RosettaLigand
by Ryhon Wang » Tue, 2013-07-30 02:51
4
4,509 by Ryhon Wang
Mon, 2014-04-21 06:48
Normal topic Abinitio.relax problem on centos
by krlitros87 » Wed, 2014-09-24 11:27
4
5,101 by jadolfbr
Tue, 2014-10-07 16:05
Normal topic ReplicaDock2.0 demo fails with MPIFileBufJobDistributor: (1) [ ERROR ]
by erpannec » Tue, 2022-08-09 05:42
4
424 by erpannec
Thu, 2022-09-15 05:17
Normal topic RosettaDesign error with Option file open failed
by xingqing326 » Sun, 2020-04-19 01:56
4
2,537 by xingqing326
Tue, 2020-04-21 19:11
Normal topic extract_pdbs fails to open silent file when -auto_setup_metals enabled
by attesor » Thu, 2015-01-15 03:22
4
4,304 by attesor
Tue, 2015-01-27 02:20
Normal topic Score Functions for Ligand-protein Docking
by ziruiw » Sun, 2021-04-25 13:41
4
1,737 by ziruiw
Fri, 2021-04-30 12:01
Normal topic Rebuilding the structure from unknown residues
by sushreet » Mon, 2016-06-27 09:32
4
4,224 by rmoretti
Tue, 2016-07-12 09:35
Normal topic fixbb and ncaa's
by jarek » Thu, 2012-11-08 04:55
4
4,122 by jcminerlanl
Thu, 2017-12-21 10:13
Normal topic rosetta backrub
by ladimafakher » Thu, 2018-10-04 08:01
4
2,646 by ladimafakher
Thu, 2018-11-01 03:47
Normal topic SymDock for docking only the ligand?
by ast » Mon, 2013-06-17 09:53
4
4,714 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Backrub Params Files
by protos_heis » Tue, 2012-09-18 06:15
4
4,474 by protos_heis
Mon, 2014-04-21 06:47
Normal topic Segmentation Fault
by ajaniharesh » Fri, 2019-03-29 11:21
4
4,486 by ajaniharesh
Thu, 2019-04-04 07:07
Normal topic Coverage of sequence space?
by johnnytam100 » Sun, 2019-04-21 23:25
4
2,766 by johnnytam100
Thu, 2019-04-25 19:28
Normal topic Thread target sequence
by duz » Thu, 2021-04-01 10:09
4
1,283 by duz
Mon, 2021-05-03 07:50
Normal topic Sequence design with mixed fixbb-relax protocol
by kszczepaniak » Thu, 2013-10-03 08:11
4
4,837 by fede
Wed, 2020-09-23 11:24
Normal topic Warning messages in Interface analyzer output
by Pernille » Wed, 2015-03-25 00:53
4
3,807 by rmoretti
Tue, 2015-03-31 08:20
Normal topic ddg with ligands
by bhaines1 » Mon, 2011-12-05 14:32
4
4,540 by rmoretti
Mon, 2014-04-21 06:47
Normal topic select_best_unique_ligand_poses - Ligand docking
by subha » Thu, 2018-04-19 10:36
4
2,564 by subha
Fri, 2018-04-20 12:49
Normal topic antibody_numbering_converter cannot recognize the IMGT scheme
by cryosky » Sat, 2020-02-29 23:12
4
2,052 by jadolfbr
Sun, 2020-03-01 14:54
Normal topic Error when running Remodel with EnzDes constraint file to extend c-terminal
by Jeffrey_Chen » Thu, 2017-01-19 06:20
4
3,564 by dfcoelho
Tue, 2017-10-17 11:52
Normal topic Problem readin .ccp4 map file
by jljbbc » Tue, 2011-05-03 11:29
4
4,929 by jljbbc
Mon, 2014-04-21 06:47
Normal topic null mutation with ddg_monomer
by fred » Fri, 2012-05-11 07:16
4
3,534 by fred
Mon, 2014-04-21 06:47
Normal topic Error while reading in silent file
by rweisse » Mon, 2015-04-20 00:31
4
4,657 by rmoretti
Thu, 2015-04-30 16:46
Normal topic conformational sampling of multi domain protein
by dhirajks » Tue, 2017-07-04 11:20
4
3,006 by jrporter
Wed, 2017-07-05 06:30
Normal topic How to estimate the effect of a mutation on the binding energy?
by ltrabuco » Tue, 2011-02-15 08:02
4
4,703 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Re: Glutamic acid protonation
by bharat_46010 » Fri, 2017-02-10 03:08
4
3,851 by rmoretti
Mon, 2017-02-20 08:09
Normal topic Error while running "make_fragments.pl".....[blastpgp] ERROR: Arguments must start with '-'
by AG88 » Thu, 2011-11-03 01:25
4
6,860 by weitzner
Mon, 2014-04-21 06:47
Normal topic Positive scores with SymmDock in helical symmetry
by kxiao » Tue, 2014-02-11 07:37
4
3,977 by kxiao
Thu, 2014-06-05 08:37
Normal topic mr_protocols with symmetry and ligand
by jhm13c » Mon, 2017-02-27 11:59
4
2,981 by jhm13c
Thu, 2017-03-02 12:01
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
1,737 by Martin Floor
Tue, 2020-09-22 00:48
Normal topic Pepspec Errors running 3.4
by rrphenix » Tue, 2013-05-28 12:08
4
3,745 by rmoretti
Mon, 2014-04-21 06:47
Normal topic ddg_monomer: what is the meaning of "total score" and "score"?
by lanselibai » Tue, 2015-01-13 14:49
4
5,891 by rmoretti
Thu, 2015-04-16 11:23
Normal topic RosettaAntibody3 is failing with "Error: no input sequences were specified!"
by brspurri » Sun, 2020-08-16 16:16
4
1,844 by brspurri
Tue, 2020-08-18 09:57
Normal topic Multiple ligands in enzyme design application
by yogeshkd » Mon, 2013-02-11 10:13
4
4,634 by yogeshkd
Mon, 2014-04-21 06:47
Normal topic ddg_monomer and membrane proteins
by afmo » Tue, 2014-05-20 02:37
4
4,986 by afmo
Thu, 2014-05-22 01:19
Normal topic simple_cycpep_predict - Design mode - The base name "ARG" was added more than once
by almeida85 » Thu, 2022-08-04 02:57
4
373 by almeida85
Thu, 2022-08-11 00:58
Normal topic side chain repacking error
by malkeet.singh » Thu, 2017-12-07 04:49
4
3,080 by smlewis
Wed, 2017-12-13 09:54
Normal topic Any backrub expert?
by johnnytam100 » Fri, 2019-03-01 01:58
4
2,657 by johnnytam100
Sun, 2019-03-03 23:42
Normal topic Rosetta antibody- modeling in the presense of an antigen
by agctomer » Mon, 2021-02-01 03:19
4
1,363 by nannemdp
Wed, 2021-02-03 08:52
Normal topic ligand dock question
by sacch » Sun, 2012-05-20 19:49
4
3,858 by sacch
Mon, 2014-04-21 06:47
Normal topic ddg_monomer: How the ddG is actually calculated based on the 50 trajectories? What scorefunction is used?
by lanselibai » Tue, 2015-02-24 02:38
4
5,433 by lanselibai
Sun, 2015-03-01 15:00
Normal topic homology modelling with DNA
by zadie1118 » Fri, 2012-09-28 06:35
4
4,995 by rmoretti
Mon, 2014-04-21 06:47
Normal topic make_rot_lib issue
by jarek » Thu, 2013-04-11 08:21
4
4,285 by smlewis
Mon, 2014-04-21 06:47
Normal topic rosetta.script segmentation fault
by felipet » Wed, 2013-10-02 10:41
4
5,368 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic How to run simulations with non-canonical amino acids?
by Denise » Thu, 2017-06-08 07:50
4
3,312 by Denise
Thu, 2017-06-15 04:26
Normal topic How to output all iteration structures from ddg_monomer?
by cossio » Fri, 2014-12-26 13:40
4
4,097 by cossio
Mon, 2015-01-19 07:10
Normal topic RosettaCM: An internal error has occurred when "Running the Hybridize mover"
by haom » Mon, 2020-06-15 05:56
4
1,621 by haom
Tue, 2020-06-16 05:55
Normal topic Dimer of dimers
by smiruthi » Fri, 2011-04-15 10:41
4
6,217 by IAndre
Mon, 2014-04-21 06:47
Normal topic Filter for fixed-bb design using RosettaScript?
by chrisHKL » Fri, 2020-02-28 19:47
4
1,744 by vmulligan
Mon, 2020-03-02 13:40
Normal topic Can I assume the outputs from different runs are from a same batch?
by lanselibai » Mon, 2014-11-03 06:34
4
3,955 by lanselibai
Mon, 2014-11-03 13:15
Normal topic antibody.linuxgccrelease- output models don't have the same sequence as the input fasta
by agctomer » Thu, 2021-01-21 15:35
4
1,419 by agctomer
Sun, 2021-01-31 01:06
Normal topic Structure prediction using true distance and angle constraint
by maruhuang » Wed, 2019-08-21 02:29
4
1,834 by maruhuang
Thu, 2019-09-26 18:52
Normal topic building a protein-dna homology model via cm_rosetta
by y_atsmonraz » Wed, 2021-10-20 23:11
4
986 by y_atsmonraz
Tue, 2021-11-02 01:47
Normal topic minirosetta: weird behavior
by fred » Wed, 2014-01-22 05:57
4
4,488 by fred
Mon, 2014-04-21 06:48
Normal topic Specifying resfile in rosetta scripts
by johnnytam100 » Mon, 2019-03-18 02:19
4
2,877 by rmoretti
Fri, 2019-03-29 09:30
Normal topic "Problem in calculating overlap between atoms" error occurred in Point Mutant Scan application
by xfliu » Thu, 2012-06-21 09:07
4
4,435 by smlewis
Mon, 2014-04-21 06:47
Normal topic Unable to understand fragment picking tutorial points.
by Danielsebas » Thu, 2019-09-05 03:44
4
2,173 by danpf
Fri, 2019-09-06 11:29
Normal topic Relaxed proteins show higher clash score in molprobity results.
by Wang Zhe » Fri, 2021-12-03 04:32
4
1,116 by smlewis
Wed, 2021-12-08 13:02
Normal topic RNA structure prediction
by emaghdam » Sat, 2014-02-08 01:30
4
4,951 by rmoretti
Mon, 2014-02-24 09:12
Normal topic How to specify only design surface residues and loops by RosettaScripts?
by johnnytam100 » Sun, 2019-04-07 21:47
4
2,253 by johnnytam100
Wed, 2019-04-10 02:48
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