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Rosetta 3 - Applications

Topic / Topic starter Replies Viewssort descending Last post
Normal topic using Rosetta to compute pH dependent binding?
by JuliusSu » Sun, 2014-06-15 20:28
3
3,272 by rmoretti
Tue, 2014-06-17 08:51
Normal topic ddg monomer vs pmut scan
by dave » Tue, 2014-03-04 10:18
3
3,282 by smlewis
Fri, 2014-03-07 13:02
Normal topic a question about ligand docking
by yzhou » Wed, 2012-05-30 18:57
5
3,289 by yzhou
Mon, 2014-04-21 06:47
Normal topic modeling an extracellular loop of a transmembrane protein
by Hothman » Fri, 2016-08-12 06:16
5
3,292 by rmoretti
Mon, 2016-09-05 10:59
Normal topic comparative modeling of protein-ligand complex
by tevang » Mon, 2013-09-09 09:06
3
3,294 by rmoretti
Mon, 2014-04-21 06:48
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
3,297 by matteoferla
Mon, 2021-07-19 06:13
Normal topic docking with constraints
by talavera » Tue, 2013-05-07 01:50
1
3,298 by rmoretti
Mon, 2014-04-21 06:47
Normal topic fragment_picker with fasta only
by gw » Tue, 2011-11-15 13:20
3
3,301 by gw
Mon, 2014-04-21 06:47
Normal topic Symmetric Minimization
by aroop » Mon, 2012-12-17 11:45
5
3,308 by aroop
Mon, 2014-04-21 06:47
Normal topic RosettaCM -weights, fragments and relax
by jsv » Tue, 2017-05-09 10:20
5
3,314 by rmoretti
Thu, 2017-06-01 08:52
Normal topic ligand dock question
by sacch » Sun, 2012-05-20 19:49
4
3,315 by sacch
Mon, 2014-04-21 06:47
Normal topic ddg_monomer consumes massive RAM
by cossio » Fri, 2018-03-09 17:02
7
3,345 by rmoretti
Mon, 2018-03-19 12:12
Normal topic Segmentation fault (core dumped) in rosetta_scripts.default.linuxgccrelease after blueprint file reading
by Corvin » Tue, 2020-06-30 00:36
12
3,350 by Corvin
Tue, 2020-11-10 01:22
Normal topic Positive scores with SymmDock in helical symmetry
by kxiao » Tue, 2014-02-11 07:37
4
3,350 by kxiao
Thu, 2014-06-05 08:37
Normal topic Unsatisfied interface H-bond in Ligand docking
by Prasanth Kumar » Thu, 2013-07-18 12:04
1
3,365 by rmoretti
Mon, 2014-04-21 06:48
Normal topic [TopologyBroker Exception]: BBTorsion at pos 468unitialized...unclaimed
by tevang » Wed, 2013-04-10 15:07
5
3,374 by rmoretti
Mon, 2014-04-21 06:47
Normal topic pair energies across interface
by irini » Fri, 2012-02-10 09:17
5
3,379 by Anonymous
Mon, 2014-04-21 06:47
Normal topic domain:domain fusion
by felipet » Thu, 2017-06-15 13:13
5
3,381 by felipet
Fri, 2017-06-16 11:42
Normal topic ERROR: no fragment to compute secondary structure
by byin » Sun, 2011-08-07 23:55
3
3,418 by smlewis
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
3,424 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Syntax for the alignment file in "minirosetta comparative modeling"
by lanselibai » Thu, 2014-10-16 15:29
3
3,440 by lanselibai
Thu, 2014-10-23 03:26
Normal topic membrane ab initio modeling application with constraints
by ytao » Thu, 2012-11-08 11:56
2
3,441 by ytao
Mon, 2014-04-21 06:47
Normal topic fixbb and ncaa's
by jarek » Thu, 2012-11-08 04:55
4
3,449 by jcminerlanl
Thu, 2017-12-21 10:13
Normal topic favor native residue in fixBB design
by ast » Mon, 2012-12-10 06:00
4
3,453 by smlewis
Mon, 2014-04-21 06:47
Normal topic extract_pdb application parse error with silent file
by staciekim » Tue, 2017-08-22 12:39
5
3,460 by rmoretti
Thu, 2017-08-24 08:19
Normal topic cluster.mpi running in MPI mode?
by sacch » Fri, 2011-11-18 23:30
2
3,464 by sacch
Mon, 2014-04-21 06:47
Normal topic Some wrong with the flag "-l" for score_jd2.linuxgccrelease
by lanselibai » Mon, 2014-09-29 02:29
2
3,467 by lanselibai
Tue, 2014-09-30 02:28
Normal topic How to output all iteration structures from ddg_monomer?
by cossio » Fri, 2014-12-26 13:40
4
3,468 by cossio
Mon, 2015-01-19 07:10
Normal topic Rebuilding the structure from unknown residues
by sushreet » Mon, 2016-06-27 09:32
4
3,468 by rmoretti
Tue, 2016-07-12 09:35
Normal topic Error when running cluster
by aloshbau » Wed, 2013-05-01 20:45
3
3,471 by rmoretti
Mon, 2014-04-21 06:47
Normal topic AbinitioRelax Disulfide Bonds are not being retained
by brspurri » Wed, 2011-09-28 13:55
1
3,515 by parmef
Mon, 2014-04-21 06:47
Normal topic Cartesian-space refinement
by sjyang7 » Wed, 2017-05-31 19:34
5
3,522 by sjyang7
Sat, 2017-06-03 06:09
Normal topic homology modeling- Error: length mismatch between sequence and alignment.
by pdbb » Mon, 2012-10-01 07:57
2
3,530 by pdbb
Mon, 2014-04-21 06:47
Normal topic ddg_monomer conformational search...
by yperez » Wed, 2012-05-09 11:10
5
3,564 by yperez
Mon, 2014-04-21 06:47
Normal topic Error src/core/scoring/MembraneTopology.cc line: 139
by Daniel Hall » Thu, 2017-07-13 04:58
6
3,591 by rmoretti
Tue, 2017-07-18 09:00
Normal topic Is there a way to restrict memory usage of ddg_monomer?
by cossio » Fri, 2015-01-30 14:35
5
3,608 by rmoretti
Mon, 2015-02-09 12:04
Normal topic the meaning of total_score in docking
by libai2098 » Mon, 2011-03-21 05:46
2
3,609 by libai2098
Mon, 2014-04-21 06:47
Normal topic fa_plane enregy term in scoring weights
by ytao » Fri, 2012-11-30 20:25
4
3,609 by smlewis
Mon, 2014-04-21 06:47
Normal topic protein-protein docking with flexible backbone
by tim » Fri, 2013-12-20 05:52
1
3,630 by rmoretti
Mon, 2014-04-21 06:48
Normal topic ddG_monomer
by cott1117 » Thu, 2014-06-12 09:53
3
3,634 by rmoretti
Wed, 2014-07-02 16:55
Normal topic Protein-DNA Docking using RosettaScripts?
by brspurri » Fri, 2013-06-07 09:06
1
3,639 by rmoretti
Mon, 2014-04-21 06:48
Normal topic InterfaceAnalyzer problem
by almeida » Mon, 2014-03-03 14:56
3
3,639 by smlewis
Fri, 2014-03-07 14:09
Normal topic FlexPepDocking with GDP-bound protein
by LI » Sun, 2011-06-12 20:02
3
3,648 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Rosetta relax problem
by jingwei xu » Wed, 2016-03-09 21:41
2
3,659 by jingwei xu
Wed, 2016-05-04 23:28
Normal topic sam.predict-2nd for make_fragments.pl script
by sumukh21 » Thu, 2011-02-17 12:29
3
3,660 by fukamitka
Mon, 2014-04-21 06:47
Normal topic Problems with always_constrained_relax_script
by wsgosal » Wed, 2013-05-29 04:39
3
3,675 by rmoretti
Mon, 2014-04-21 06:47
Normal topic AbinitioRelax with native fragments
by ks » Mon, 2016-09-05 03:03
5
3,675 by ks
Mon, 2016-09-12 03:14
Normal topic Line search failed even after resetting Hessian
by Loki01 » Wed, 2017-12-13 16:52
6
3,679 by Loki01
Thu, 2018-02-15 13:54
Normal topic Antibody modeling
by Maryam_tabasinezhad » Fri, 2015-09-04 11:00
4
3,681 by rmoretti
Wed, 2015-09-09 12:08
Normal topic extract_pdbs fails to open silent file when -auto_setup_metals enabled
by attesor » Thu, 2015-01-15 03:22
4
3,682 by attesor
Tue, 2015-01-27 02:20
Normal topic SEWING and motif file generation
by rbjacob » Thu, 2018-07-12 07:28
10
3,706 by zhangying1990
Tue, 2019-06-04 18:04
Normal topic enzyme design and output_matchres_only
by petrikigor » Wed, 2012-10-24 18:45
6
3,715 by petrikigor
Mon, 2014-04-21 06:47
Normal topic "Problem in calculating overlap between atoms" error occurred in Point Mutant Scan application
by xfliu » Thu, 2012-06-21 09:07
4
3,721 by smlewis
Mon, 2014-04-21 06:47
Normal topic make_rot_lib issue
by jarek » Thu, 2013-04-11 08:21
4
3,730 by smlewis
Mon, 2014-04-21 06:47
Normal topic Docking flags
by AmelieH » Thu, 2014-11-13 08:46
5
3,740 by AmelieH
Wed, 2014-11-19 11:26
Normal topic SnugDock - What protocol should I use?
by dfcoelho » Tue, 2018-11-27 07:32
8
3,761 by dfcoelho
Wed, 2018-11-28 08:07
Normal topic fixbb algorithm reference?
by tylerborrman » Wed, 2015-09-23 10:20
4
3,770 by tylerborrman
Mon, 2015-09-28 09:30
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
3,774 by frichter
Mon, 2014-04-21 06:47
Normal topic Docking structures with ligands in cryo-EM maps
by galushin » Wed, 2012-07-11 12:40
1
3,775 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic assymetric dymer modelling with comparative and ab initio
by marcia » Mon, 2013-10-14 08:33
3
3,780 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
3,790 by smlewis
Tue, 2017-07-04 15:42
Normal topic Ligand atom RMSD calculation
by lkrathn » Wed, 2013-08-14 21:25
2
3,804 by lkrathn
Mon, 2014-04-21 06:48
Normal topic Homodimer interface design
by petrikigor » Fri, 2012-11-16 10:57
3
3,807 by rmoretti
Mon, 2014-04-21 06:47
Normal topic ddg with ligands
by bhaines1 » Mon, 2011-12-05 14:32
4
3,810 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Rosetta DNA - Protein-DNA scoring function and binding energy
by tanoramb » Tue, 2012-05-08 14:00
1
3,814 by smlewis
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
3,819 by wangyr
Mon, 2014-04-21 06:47
Normal topic Abrelax - Dunbrack02.lib.bin missing
by omirus » Sun, 2011-09-18 06:30
3
3,824 by smlewis
Mon, 2014-04-21 06:47
Normal topic Backrub Params Files
by protos_heis » Tue, 2012-09-18 06:15
4
3,831 by protos_heis
Mon, 2014-04-21 06:47
Normal topic ligand_docking_analysis
by Prasanth Kumar » Thu, 2013-05-09 23:51
4
3,838 by rmoretti
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
3,849 by rmoretti
Mon, 2017-01-23 08:52
Normal topic Disulfide prediction from primary sequence
by zcrook » Wed, 2014-11-12 14:44
2
3,853 by zcrook
Tue, 2014-11-25 10:27
Normal topic RosettaAntibody
by mpendleton » Mon, 2011-04-04 10:27
3
3,870 by jianqing
Mon, 2014-04-21 06:47
Normal topic Error while reading in silent file
by rweisse » Mon, 2015-04-20 00:31
4
3,896 by rmoretti
Thu, 2015-04-30 16:46
Normal topic -score_app:linmin flag not working
by fglaser » Tue, 2011-03-01 06:04
5
3,901 by smlewis
Mon, 2014-04-21 06:47
Normal topic clean_pdb.py of Rosetta VS cleanATOM of PyRosetta
by lanselibai » Wed, 2014-09-24 03:02
2
3,901 by lanselibai
Wed, 2014-09-24 13:21
Normal topic minirosetta: weird behavior
by fred » Wed, 2014-01-22 05:57
4
3,912 by fred
Mon, 2014-04-21 06:48
Normal topic Using Rosetta Docking for nucleic acids
by Adrien Guilhot » Thu, 2011-04-28 06:16
3
3,922 by Adrien Guilhot
Mon, 2014-04-21 06:47
Normal topic SnugDocking a VHH:antigen complex possible?
by David Weis » Thu, 2017-02-16 05:57
7
3,927 by rmoretti
Thu, 2017-07-06 13:00
Normal topic Error while running RosettaLigand
by Ryhon Wang » Tue, 2013-07-30 02:51
4
3,941 by Ryhon Wang
Mon, 2014-04-21 06:48
Normal topic make fragment
by zadie1118 » Thu, 2012-08-30 07:45
3
3,953 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
3,953 by smlewis
Mon, 2014-04-21 06:47
Normal topic Does linker modeling exist?
by aroop » Wed, 2012-02-22 07:34
5
3,965 by smlewis
Mon, 2014-04-21 06:47
Normal topic how to fix the ATP HETATM by using movemap or constraint file?
by ziqi1234 » Mon, 2017-11-20 06:43
9
3,979 by ziqi1234
Wed, 2017-11-22 06:21
Normal topic How to only constructure the tail conformation when using "FloppyTail.linuxgccrelease"?
by lanselibai » Mon, 2014-10-13 10:26
5
3,988 by lanselibai
Wed, 2014-10-15 03:52
Normal topic Multiple ligands in enzyme design application
by yogeshkd » Mon, 2013-02-11 10:13
4
4,002 by yogeshkd
Mon, 2014-04-21 06:47
Normal topic Problem with hotspot constraints.
by jarek » Wed, 2012-10-17 03:22
6
4,008 by xfliu
Mon, 2014-04-21 06:47
Normal topic Loop modelling before peptide docking
by wsgosal » Tue, 2013-10-01 07:24
4
4,010 by wsgosal
Mon, 2014-04-21 06:48
Normal topic How to estimate the effect of a mutation on the binding energy?
by ltrabuco » Tue, 2011-02-15 08:02
4
4,040 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic SymDock for docking only the ligand?
by ast » Mon, 2013-06-17 09:53
4
4,049 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Relax with protein+complex
by Prasanth Kumar » Wed, 2013-05-08 23:16
4
4,067 by Prasanth Kumar
Mon, 2014-04-21 06:47
Normal topic ab initio protein prediction using homologs
by justin » Mon, 2012-02-13 07:52
5
4,080 by justin
Mon, 2014-04-21 06:47
Normal topic Why is proline hydroxylated?
by kwonglynn » Tue, 2013-06-25 02:38
3
4,095 by rmoretti
Mon, 2014-04-21 06:48
Normal topic score_jd2.mpi.linuxgccrelease failed
by fred » Wed, 2014-03-26 13:54
2
4,102 by fred
Tue, 2014-04-01 08:24
Normal topic RosettaLigand: How to score native pose in protein-ligand docking experiment?
by Ryhon Wang » Tue, 2015-11-10 01:30
5
4,146 by Ryhon Wang
Mon, 2016-01-04 19:59
Normal topic Sequence design with mixed fixbb-relax protocol
by kszczepaniak » Thu, 2013-10-03 08:11
4
4,148 by fede
Wed, 2020-09-23 11:24
Normal topic flexpep docking problem
by michael_luntan » Mon, 2011-04-18 17:15
5
4,167 by michael_luntan
Mon, 2014-04-21 06:47
Normal topic fixbb with symmetry error
by Prasanth Kumar » Sun, 2014-01-26 10:56
4
4,171 by Prasanth Kumar
Mon, 2014-04-21 06:48
Normal topic loop modeling during enzyme design?
by lzx32 » Wed, 2011-11-16 00:30
6
4,173 by lzx32
Mon, 2014-04-21 06:47
Normal topic Pmut_scan with symmetry
by felipet » Thu, 2015-02-05 08:53
5
4,177 by felipet
Wed, 2015-02-11 05:13
Normal topic scoring of beta sandwich protein
by attesor » Mon, 2014-11-17 08:24
6
4,205 by rmoretti
Thu, 2014-11-20 10:46
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