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Rosetta 3 - Applications

Topic / Topic starter Replies Viewssort descending Last post
Normal topic AbinitioRelax with native fragments
by ks » Mon, 2016-09-05 03:03
5
4,149 by ks
Mon, 2016-09-12 03:14
Normal topic Disulfide prediction from primary sequence
by zcrook » Wed, 2014-11-12 14:44
2
4,160 by zcrook
Tue, 2014-11-25 10:27
Normal topic "Problem in calculating overlap between atoms" error occurred in Point Mutant Scan application
by xfliu » Thu, 2012-06-21 09:07
4
4,162 by smlewis
Mon, 2014-04-21 06:47
Normal topic Rosetta relax problem
by jingwei xu » Wed, 2016-03-09 21:41
2
4,164 by jingwei xu
Wed, 2016-05-04 23:28
Normal topic extract_pdb application parse error with silent file
by staciekim » Tue, 2017-08-22 12:39
5
4,167 by rmoretti
Thu, 2017-08-24 08:19
Normal topic RosettaAntibody
by mpendleton » Mon, 2011-04-04 10:27
3
4,175 by jianqing
Mon, 2014-04-21 06:47
Normal topic fixbb algorithm reference?
by tylerborrman » Wed, 2015-09-23 10:20
4
4,181 by tylerborrman
Mon, 2015-09-28 09:30
Normal topic Error src/core/scoring/MembraneTopology.cc line: 139
by Daniel Hall » Thu, 2017-07-13 04:58
6
4,191 by rmoretti
Tue, 2017-07-18 09:00
Normal topic ligand_docking_analysis
by Prasanth Kumar » Thu, 2013-05-09 23:51
4
4,192 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Docking flags
by AmelieH » Thu, 2014-11-13 08:46
5
4,193 by AmelieH
Wed, 2014-11-19 11:26
Normal topic Make error during installation of updated ncbi-blast-2.9.0+-src plus error with nr-database
by Corvin » Tue, 2019-10-01 02:04
6
4,196 by Corvin
Tue, 2019-10-15 01:12
Normal topic Running Rosetta CM Hybridize step errors with: Scorefunction not set up for nonideal/Cartesian scoring
by brspurri » Wed, 2017-03-29 13:19
7
4,215 by matteoferla
Mon, 2021-07-19 06:13
Normal topic clean_pdb.py of Rosetta VS cleanATOM of PyRosetta
by lanselibai » Wed, 2014-09-24 03:02
2
4,224 by lanselibai
Wed, 2014-09-24 13:21
Normal topic Using Rosetta Docking for nucleic acids
by Adrien Guilhot » Thu, 2011-04-28 06:16
3
4,234 by Adrien Guilhot
Mon, 2014-04-21 06:47
Normal topic Backrub Params Files
by protos_heis » Tue, 2012-09-18 06:15
4
4,236 by protos_heis
Mon, 2014-04-21 06:47
Normal topic minirosetta: weird behavior
by fred » Wed, 2014-01-22 05:57
4
4,248 by fred
Mon, 2014-04-21 06:48
Normal topic Error while running RosettaLigand
by Ryhon Wang » Tue, 2013-07-30 02:51
4
4,255 by Ryhon Wang
Mon, 2014-04-21 06:48
Normal topic ddg with ligands
by bhaines1 » Mon, 2011-12-05 14:32
4
4,263 by rmoretti
Mon, 2014-04-21 06:47
Normal topic How do you use two patches simulataneously with ab initio folding?
by smiruthi » Wed, 2011-12-21 15:24
5
4,287 by wangyr
Mon, 2014-04-21 06:47
Normal topic make fragment
by zadie1118 » Thu, 2012-08-30 07:45
3
4,295 by smlewis
Mon, 2014-04-21 06:47
Normal topic Missing common atom definitions in constraints
by ic3reyes » Sat, 2011-06-11 13:09
3
4,296 by smlewis
Mon, 2014-04-21 06:47
Normal topic Does linker modeling exist?
by aroop » Wed, 2012-02-22 07:34
5
4,338 by smlewis
Mon, 2014-04-21 06:47
Normal topic ddg_monomer consumes massive RAM
by cossio » Fri, 2018-03-09 17:02
7
4,341 by rmoretti
Mon, 2018-03-19 12:12
Normal topic -score_app:linmin flag not working
by fglaser » Tue, 2011-03-01 06:04
5
4,349 by smlewis
Mon, 2014-04-21 06:47
Normal topic Line search failed even after resetting Hessian
by Loki01 » Wed, 2017-12-13 16:52
6
4,354 by Loki01
Thu, 2018-02-15 13:54
Normal topic Error while reading in silent file
by rweisse » Mon, 2015-04-20 00:31
4
4,382 by rmoretti
Thu, 2015-04-30 16:46
Normal topic Multiple ligands in enzyme design application
by yogeshkd » Mon, 2013-02-11 10:13
4
4,395 by yogeshkd
Mon, 2014-04-21 06:47
Normal topic Loop modelling before peptide docking
by wsgosal » Tue, 2013-10-01 07:24
4
4,410 by wsgosal
Mon, 2014-04-21 06:48
Normal topic How to only constructure the tail conformation when using "FloppyTail.linuxgccrelease"?
by lanselibai » Mon, 2014-10-13 10:26
5
4,413 by lanselibai
Wed, 2014-10-15 03:52
Normal topic Why is proline hydroxylated?
by kwonglynn » Tue, 2013-06-25 02:38
3
4,432 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Converting -patch replonly residues to original sequence
by subha » Mon, 2017-06-26 13:39
8
4,433 by smlewis
Tue, 2017-07-04 15:42
Normal topic score_jd2.mpi.linuxgccrelease failed
by fred » Wed, 2014-03-26 13:54
2
4,434 by fred
Tue, 2014-04-01 08:24
Normal topic How to estimate the effect of a mutation on the binding energy?
by ltrabuco » Tue, 2011-02-15 08:02
4
4,437 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Abinitio doesn't run but does not give output or error
by Irving » Fri, 2016-10-28 10:04
6
4,450 by rmoretti
Mon, 2017-01-23 08:52
Normal topic Problem with hotspot constraints.
by jarek » Wed, 2012-10-17 03:22
6
4,468 by xfliu
Mon, 2014-04-21 06:47
Normal topic SymDock for docking only the ligand?
by ast » Mon, 2013-06-17 09:53
4
4,483 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Syntax for python-based (.py) command line on cluster
by lanselibai » Fri, 2014-11-14 09:32
2
4,497 by lanselibai
Thu, 2014-11-20 02:15
Normal topic SnugDocking a VHH:antigen complex possible?
by David Weis » Thu, 2017-02-16 05:57
7
4,525 by rmoretti
Thu, 2017-07-06 13:00
Normal topic SEWING and motif file generation
by rbjacob » Thu, 2018-07-12 07:28
10
4,527 by zhangying1990
Tue, 2019-06-04 18:04
Normal topic fixbb with symmetry error
by Prasanth Kumar » Sun, 2014-01-26 10:56
4
4,562 by Prasanth Kumar
Mon, 2014-04-21 06:48
Normal topic ab initio protein prediction using homologs
by justin » Mon, 2012-02-13 07:52
5
4,579 by justin
Mon, 2014-04-21 06:47
Normal topic Unable to run Rosetta LoopModeling application
by BDBorrillo » Tue, 2011-07-19 14:06
2
4,598 by BDBorrillo
Mon, 2014-04-21 06:47
Normal topic flexpep docking problem
by michael_luntan » Mon, 2011-04-18 17:15
5
4,598 by michael_luntan
Mon, 2014-04-21 06:47
Normal topic Relax with protein+complex
by Prasanth Kumar » Wed, 2013-05-08 23:16
4
4,603 by Prasanth Kumar
Mon, 2014-04-21 06:47
Normal topic Sequence design with mixed fixbb-relax protocol
by kszczepaniak » Thu, 2013-10-03 08:11
4
4,605 by fede
Wed, 2020-09-23 11:24
Normal topic RosettaLigand: How to score native pose in protein-ligand docking experiment?
by Ryhon Wang » Tue, 2015-11-10 01:30
5
4,614 by Ryhon Wang
Mon, 2016-01-04 19:59
Normal topic Pmut_scan with symmetry
by felipet » Thu, 2015-02-05 08:53
5
4,637 by felipet
Wed, 2015-02-11 05:13
Normal topic Problem readin .ccp4 map file
by jljbbc » Tue, 2011-05-03 11:29
4
4,658 by jljbbc
Mon, 2014-04-21 06:47
Normal topic Over-docking with FlexPepDock
by gw » Fri, 2012-07-20 13:10
5
4,672 by rmoretti
Mon, 2014-04-21 06:47
Normal topic RNA structure prediction
by emaghdam » Sat, 2014-02-08 01:30
4
4,679 by rmoretti
Mon, 2014-02-24 09:12
Normal topic rna structure prediction
by cbala » Thu, 2011-04-14 07:42
5
4,684 by mkoohim
Mon, 2014-04-21 06:47
Normal topic loop modeling during enzyme design?
by lzx32 » Wed, 2011-11-16 00:30
6
4,694 by lzx32
Mon, 2014-04-21 06:47
Normal topic scoring of beta sandwich protein
by attesor » Mon, 2014-11-17 08:24
6
4,716 by rmoretti
Thu, 2014-11-20 10:46
Normal topic symmetric design in the presence of a nonsymmetric ligand
by msardejani » Fri, 2016-09-30 15:17
6
4,735 by msardejani
Sat, 2016-10-01 12:55
Normal topic ddg_monomer and membrane proteins
by afmo » Tue, 2014-05-20 02:37
4
4,737 by afmo
Thu, 2014-05-22 01:19
Normal topic SnugDock - What protocol should I use?
by dfcoelho » Tue, 2018-11-27 07:32
8
4,737 by dfcoelho
Wed, 2018-11-28 08:07
Normal topic Up to date Vall database
by JadAbbass » Sat, 2013-06-29 10:35
3
4,761 by rmoretti
Tue, 2017-06-20 09:02
Normal topic homology modelling with DNA
by zadie1118 » Fri, 2012-09-28 06:35
4
4,772 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Rotamers used in fixbb
by lanselibai » Thu, 2014-11-06 02:47
6
4,799 by lanselibai
Tue, 2014-11-11 15:28
Normal topic how to fix the ATP HETATM by using movemap or constraint file?
by ziqi1234 » Mon, 2017-11-20 06:43
9
4,810 by ziqi1234
Wed, 2017-11-22 06:21
Normal topic ddg dG_separate
by gw » Wed, 2012-08-22 11:25
5
4,812 by smlewis
Mon, 2014-04-21 06:47
Normal topic score to use for picking top docking solutions?
by sudhar » Tue, 2011-06-14 06:47
3
4,824 by weitzner
Mon, 2014-04-21 06:47
Normal topic docking in rosetta 3.3
by Ammu » Thu, 2012-03-15 12:03
6
4,826 by smlewis
Mon, 2014-04-21 06:47
Normal topic Abinitio.relax problem on centos
by krlitros87 » Wed, 2014-09-24 11:27
4
4,832 by jadolfbr
Tue, 2014-10-07 16:05
Normal topic Standalone alanine scanning protocol
by exchhattu » Thu, 2011-10-13 19:40
1
4,850 by smlewis
Mon, 2014-04-21 06:47
Normal topic Segmentation fault (core dumped) in rosetta_scripts.default.linuxgccrelease after blueprint file reading
by Corvin » Tue, 2020-06-30 00:36
12
4,883 by Corvin
Tue, 2020-11-10 01:22
Normal topic Steric clashes in RNA minimization
by brianmlee » Tue, 2014-11-18 18:29
5
4,891 by brianmlee
Mon, 2014-11-24 19:40
Normal topic Noncanonical amino acids
by wsgosal » Tue, 2014-03-18 05:29
8
4,893 by e3lm
Thu, 2022-05-26 12:51
Normal topic Enzdes: increase weight of energy term for steric clashes with ligand
by eyong123 » Wed, 2015-03-25 09:12
5
4,901 by rmoretti
Fri, 2015-04-24 12:02
Normal topic Antibody protocol: unusual antibodies, and chainbreaks
by Cyril Cros » Mon, 2014-07-21 17:03
5
4,944 by Cyril Cros
Tue, 2014-11-25 08:21
Normal topic symmetrical membrane modeling
by rlwoltz » Tue, 2013-10-29 03:41
5
4,964 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic protein docking failed
by albumns » Thu, 2012-11-08 02:59
6
5,007 by rmoretti
Mon, 2014-04-21 06:47
Normal topic matdes_design: ERROR]EXCN_utility_exit has been thrown from: src/core/io/silent/SilentFileData.cc line: 302
by siciliu » Fri, 2014-03-21 17:51
5
5,022 by siciliu
Thu, 2014-04-10 09:50
Normal topic Symmetry definition for coiled-coil dimer and trimer
by kszczepaniak » Fri, 2013-10-11 05:33
2
5,053 by kszczepaniak
Mon, 2014-04-21 06:48
Normal topic too many constraints result in no output pose
by Yao Wu » Sun, 2012-11-18 23:45
5
5,059 by smlewis
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
5,114 by lanselibai
Sun, 2015-03-01 15:00
Normal topic rosetta.script segmentation fault
by felipet » Wed, 2013-10-02 10:41
4
5,115 by jadolfbr
Mon, 2014-04-21 06:48
Normal topic relax with resfile
by gw » Fri, 2011-08-05 10:57
3
5,117 by nannemdp
Mon, 2014-04-21 06:47
Normal topic flexpep docking problem-----How to do with phosphorylation peptide?
by MajorID » Thu, 2011-06-02 00:37
4
5,137 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Help with enzyme design
by lzx32 » Fri, 2011-04-08 22:29
6
5,154 by lzx32
Mon, 2014-04-21 06:47
Normal topic ndruns and nstruct in fixbb
by Anonymous » Tue, 2012-08-07 01:52
5
5,156 by Anonymous
Mon, 2014-04-21 06:47
Normal topic Comparative modeling stops with "no more batches to process... " / no output
by eskici » Tue, 2012-08-28 12:13
6
5,171 by eskici
Mon, 2014-04-21 06:47
Normal topic the flexpepdock refinement and ab-initio
by tfliu » Mon, 2013-12-23 19:17
6
5,199 by tfliu
Mon, 2014-04-21 06:48
Normal topic FloppyTail :How to specify range of design(mutation)
by syoifczeri » Mon, 2015-11-02 04:14
6
5,205 by syoifczeri
Sat, 2015-11-07 21:42
Normal topic Problems with ligand when running RosettaLigand
by Cat » Mon, 2013-05-20 15:58
5
5,231 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Relax a structure with >1 copy of a modified residue fails [Solved]
by franfdez » Wed, 2012-02-08 00:47
6
5,280 by franfdez
Mon, 2014-04-21 06:47
Normal topic deltaG calculations
by Prasanth Kumar » Wed, 2013-05-15 07:06
3
5,338 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Results of enzyme_design not consistent with Resfile
by yogeshkd » Thu, 2013-02-14 15:56
6
5,375 by yogeshkd
Mon, 2014-04-21 06:47
Normal topic Write one's own constraint type
by djpittdj » Thu, 2012-11-08 12:29
7
5,393 by smlewis
Mon, 2014-04-21 06:47
Normal topic Fragment files for membrane_abinitio application
by sumukh21 » Sun, 2011-02-13 20:34
7
5,400 by yarovoy
Mon, 2014-04-21 06:47
Normal topic the ddg of mutant is same as the wt
by deepanshuiitb » Wed, 2015-03-04 11:56
6
5,407 by jadolfbr
Tue, 2015-04-07 10:50
Normal topic PDB format for RosettaDNA
by brspurri » Thu, 2013-05-30 11:21
5
5,445 by brspurri
Mon, 2014-04-21 06:47
Normal topic RosettaVIP: ERROR: seqpos <= size()
by Anonymous » Thu, 2012-07-26 07:30
5
5,507 by Anonymous
Mon, 2014-04-21 06:47
Normal topic suppress pdb output from backrub
by attesor » Mon, 2014-10-27 11:16
7
5,509 by rmoretti
Mon, 2014-11-03 15:47
Normal topic variable length fragments for Ab initio
by attesor » Wed, 2015-07-01 06:13
7
5,513 by rmoretti
Tue, 2015-08-18 16:47
Normal topic RosettaLigand - strange score behavior
by Gerdes » Mon, 2014-02-03 02:24
6
5,513 by Gerdes
Fri, 2014-02-07 06:48
Normal topic fix the left part doesn't work
by albumns » Wed, 2012-11-07 00:02
9
5,548 by albumns
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
5,549 by rmoretti
Thu, 2015-04-16 11:23
Normal topic Rosetta dock irmsd
by Pernille » Sun, 2015-04-26 13:51
5
5,580 by rmoretti
Mon, 2015-10-12 15:10
Normal topic If "clustering.py" can be used for PDBs contain two chains?
by lanselibai » Wed, 2014-11-05 06:05
7
5,629 by lanselibai
Tue, 2014-12-02 09:43
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