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Rosetta 3 - Applications

Topic / Topic starter Replies Viewssort descending Last post
Normal topic A problem with "make_fragments.pl" script dependencies
by Corvin » Fri, 2019-08-16 04:30
2
1,956 by Corvin
Tue, 2019-08-27 00:46
Normal topic Loop modeling: KIC with fragments producing unusual models
by kamau » Mon, 2015-06-01 12:06
1
1,957 by rmoretti
Sat, 2015-06-20 20:07
Normal topic Molecular Replacement with multiple chains
by brspurri » Fri, 2011-06-10 08:25
0
1,957 by brspurri
Mon, 2014-04-21 06:47
Normal topic DNA Interface design
by zadie1118 » Wed, 2011-06-22 07:05
0
1,958 by zadie1118
Mon, 2014-04-21 06:47
Normal topic Can't generate a cst file to use with ddg_monomer application
by ctqwong » Sat, 2021-03-13 03:53
6
1,964 by ctqwong
Thu, 2021-03-18 02:04
Normal topic Ddg_monomer: implementing disulfides
by kabol » Wed, 2016-11-30 02:39
1
1,965 by rmoretti
Wed, 2016-11-30 07:46
Normal topic SPLINE EPR_DISTANCE Constraint Error
by mmw88 » Tue, 2018-09-18 14:39
2
1,970 by rmoretti
Thu, 2018-09-20 09:19
Normal topic JD2 MPI
by jrcf » Wed, 2015-10-28 14:45
1
1,970 by rmoretti
Sat, 2015-10-31 08:57
Normal topic ReplicaDock 2.0 Native vs Input Structure Flags Confusion
by katherinemccoy » Tue, 2022-12-27 06:42
1
1,972 by Ameya
Tue, 2022-12-27 11:21
Normal topic Rosetta_cm Segmentation Fault
by gszwabowski » Thu, 2019-06-20 12:55
2
1,975 by gszwabowski
Wed, 2019-06-26 10:25
Normal topic How can I set ref2015 and ligand.wts(-restore_pre_talaris_2013_behavior )
by asbelx » Sat, 2019-06-08 00:07
3
1,976 by happycaapi
Tue, 2021-06-29 15:35
Normal topic behind threading protocol
by fred » Tue, 2011-10-25 05:37
0
1,981 by fred
Mon, 2014-04-21 06:47
Normal topic Loopmodel with DNA has no energy score
by Nicky_Learning_... » Sun, 2015-05-10 19:31
1
1,989 by rmoretti
Mon, 2015-05-25 12:30
Normal topic Problem in redesign binding site
by armart999 » Fri, 2016-10-14 01:55
1
1,989 by rmoretti
Fri, 2016-10-14 08:42
Normal topic how to pick fragments for a transmembrane protein
by tevang » Mon, 2012-05-28 06:52
1
1,993 by tevang
Mon, 2014-04-21 06:47
Normal topic Surface accessible residue as a constraint.
by arthuc01 » Fri, 2012-03-09 23:27
1
1,993 by smlewis
Mon, 2014-04-21 06:47
Normal topic Including ab-initio predicted model in fragment library generation
by ashu4487 » Thu, 2016-12-08 17:49
2
1,998 by ashu4487
Sun, 2016-12-11 19:03
Normal topic how to make "static" built binaries use multiple cpus like "mpi"?
by Danielsebas » Wed, 2019-09-18 06:41
3
1,998 by rmoretti
Wed, 2019-09-18 10:21
Normal topic How to make new VALL database?
by Danielsebas » Sun, 2019-09-08 02:16
2
2,000 by Danielsebas
Wed, 2019-09-11 00:44
Normal topic Remodel with residue constraints
by sn » Fri, 2017-03-10 01:40
2
2,002 by rmoretti
Mon, 2017-03-13 08:01
Normal topic Rosetta Script for ddg_monomer protocol 16
by cossio » Thu, 2018-01-25 08:23
2
2,003 by cossio
Sun, 2018-03-11 09:12
Normal topic FloppyTail vs. Remodel for linkers
by attesor » Mon, 2014-07-07 08:36
1
2,004 by smlewis
Mon, 2014-07-07 11:58
Normal topic How to restart RASREC run
by aep » Fri, 2016-07-01 04:39
2
2,008 by aep
Fri, 2016-07-01 06:54
Normal topic Output structures from docking_prepack_protocol: initial__*.pdb vs prepack__*.pdb, which one should I send to docking_protocol?
by cossio » Thu, 2015-02-05 07:10
1
2,009 by rmoretti
Mon, 2015-02-09 12:33
Normal topic Can rosetta generate a centroid model based on the rna sequence?
by yels » Fri, 2021-03-26 04:06
7
2,021 by yels
Wed, 2021-03-31 18:31
Normal topic Adding 'virtual' residues for N- and C-terminal optimisation
by Derek Smith » Thu, 2014-08-14 23:18
1
2,022 by jadolfbr
Fri, 2014-10-31 09:00
Normal topic membrane ab-initio modeling, is the quality comparable to comparative modeling of 20% id template?
by fglaser » Thu, 2011-04-07 07:57
0
2,023 by fglaser
Mon, 2014-04-21 06:47
Normal topic minirosetta: how to reserve (inter-chain) disulfides after relax ?
by lanselibai » Sat, 2015-01-24 10:56
0
2,026 by lanselibai
Thu, 2015-01-29 00:50
Normal topic comparative modeling of a homodimer
by banshee » Mon, 2017-01-09 18:34
1
2,027 by rmoretti
Wed, 2017-01-11 13:00
Normal topic cluster.linuxgccrelease Killed error
by samuelrpita » Fri, 2015-11-20 05:56
1
2,045 by rmoretti
Tue, 2015-11-24 16:07
Normal topic Antibody Docking application
by Maryam_tabasinezhad » Sat, 2015-09-05 09:58
1
2,051 by jadolfbr
Wed, 2015-09-09 12:35
Normal topic error--rosetta fragment‐based refinement protocol for refinement against EM density
by gsuchunli » Mon, 2016-07-25 13:35
1
2,073 by gsuchunli
Mon, 2016-07-25 13:56
Normal topic How to scan double mutations in RosettaScripts?
by msardejani » Mon, 2016-12-12 16:52
2
2,074 by msardejani
Mon, 2016-12-12 17:48
Normal topic How to use MHC Epitope energy (mhc_epitope) to deimmunize a protein structure?
by Sunyp_IM » Sun, 2020-11-08 08:07
5
2,082 by Brahm Yachnin
Wed, 2020-11-18 17:21
Normal topic Relax both peptide and ligands
by matteoferla » Thu, 2018-09-13 03:11
3
2,087 by smlewis
Fri, 2018-09-14 10:34
Normal topic ERROR: Specified chain does not exist.
by ajaniharesh » Fri, 2019-04-05 11:14
2
2,087 by ajaniharesh
Tue, 2019-04-09 06:53
Normal topic RosettaAntibody core.pose.util error
by rishibedi » Fri, 2018-10-05 01:31
2
2,100 by esozdemir
Thu, 2019-06-13 12:19
Normal topic Options "-out:prefix" didn't work
by maruhuang » Tue, 2019-09-10 05:42
4
2,105 by danpf
Fri, 2020-02-21 18:32
Normal topic Rosetta Remodel - Error in core::conformation::Conformation::residue(): The sequence position requested was 0.
by daniloboskovic » Fri, 2019-11-08 08:24
1
2,108 by Payne
Tue, 2022-06-21 07:25
Normal topic Problem with AtomPair constraint
by jarek » Tue, 2012-10-09 07:28
1
2,112 by smlewis
Mon, 2014-04-21 06:47
Normal topic Model truncated proteins
by BuddySphinx » Wed, 2018-12-12 10:32
3
2,114 by smlewis
Wed, 2018-12-12 16:51
Normal topic Collecting all decoys from batch files
by aep » Sun, 2016-08-07 12:23
2
2,117 by aep
Sat, 2016-08-13 13:03
Normal topic Enzyme Design with additional covalent backbone bonds
by mwfranklin » Wed, 2016-08-03 10:23
1
2,118 by rmoretti
Mon, 2016-09-05 11:29
Normal topic Enzyme design output silent file and score file
by deltag » Fri, 2012-09-28 13:07
1
2,136 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Can the Rosetta Antibody Design (RAbD) protocol incorporate glycans?
by ccottrell » Tue, 2020-05-05 20:30
5
2,147 by jadolfbr
Wed, 2020-05-06 11:37
Normal topic how to run my openmp programe in rosetta3.3?
by lihowe » Mon, 2012-02-27 23:43
1
2,150 by smlewis
Mon, 2014-04-21 06:47
Normal topic molfile_to_params script error
by pablogalazdavison » Tue, 2015-07-07 21:22
1
2,154 by rmoretti
Tue, 2015-07-14 14:59
Normal topic ligand conformer generation for enzyme design
by bo » Mon, 2013-02-11 16:51
1
2,155 by smlewis
Mon, 2014-04-21 06:47
Normal topic RosettaAntibodyDesign: How can I run the protocol without allowing design?
by brspurri » Tue, 2020-05-26 08:12
5
2,157 by brspurri
Wed, 2020-06-03 13:20
Normal topic rosetta 3.3 - antibody
by ron amon » Mon, 2014-07-21 00:44
1
2,157 by rmoretti
Mon, 2014-07-21 10:51
Normal topic modeling 4 linkers between 2 domains
by pdbb » Thu, 2013-05-16 08:23
1
2,161 by smlewis
Mon, 2014-04-21 06:47
Normal topic -loops:fa_input not found in command line top-level context
by swarekwood » Thu, 2017-08-24 03:15
2
2,164 by swarekwood
Fri, 2017-08-25 05:08
Normal topic fold and dock protocol not working
by ytao » Mon, 2012-11-26 15:33
1
2,169 by smlewis
Mon, 2014-04-21 06:47
Normal topic mpirun docking_protocol
by NanB » Mon, 2020-08-03 11:38
1
2,172 by ssrb
Fri, 2020-08-14 09:18
Normal topic trouble in floppytail modelling
by ytao » Thu, 2013-06-27 13:15
1
2,177 by ytao
Mon, 2014-04-21 06:48
Normal topic Ligand creation
by Prasanth Kumar » Fri, 2013-08-02 09:48
1
2,181 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Representing Cross-linked nitrogens
by jjlee2 » Sat, 2011-11-26 18:42
1
2,183 by smlewis
Mon, 2014-04-21 06:47
Normal topic antibody_numbering_converter cannot recognize the IMGT scheme
by cryosky » Sat, 2020-02-29 23:12
4
2,186 by jadolfbr
Sun, 2020-03-01 14:54
Normal topic Holes output interpretation
by lah435 » Mon, 2012-06-04 15:02
1
2,187 by smlewis
Mon, 2014-04-21 06:47
Normal topic Scoring functions: talaris2013 incompatible versions
by Smbat » Tue, 2020-10-13 06:18
5
2,188 by Astghik
Thu, 2020-10-15 00:48
Normal topic does the loop kinetic support MPI now?
by albumns » Fri, 2012-10-26 06:31
2
2,188 by smlewis
Mon, 2014-04-21 06:47
Normal topic Getting error with Rosetta "antibody.linuxgccrelease" command
by Sunyp_IM » Mon, 2017-08-07 19:40
1
2,196 by smlewis
Tue, 2017-08-15 23:19
Normal topic Comparative modeling
by MRH » Mon, 2013-08-19 23:08
1
2,201 by smlewis
Mon, 2014-04-21 06:48
Normal topic Regarding the efficiency of the new low resolution ligand-docking movement “Transform”.
by Martin Floor » Mon, 2017-05-15 09:19
2
2,202 by Martin Floor
Mon, 2017-05-15 11:13
Normal topic Design a peptide linked to small molecule ligand
by shaunmk » Mon, 2015-03-02 09:05
1
2,208 by rmoretti
Wed, 2015-03-25 12:39
Normal topic creating compound task mover
by aaj » Wed, 2016-02-24 04:48
2
2,212 by aaj
Wed, 2016-02-24 07:37
Normal topic Altering substrate specificity
by bp » Thu, 2016-12-22 02:45
2
2,218 by bp
Thu, 2016-12-22 07:54
Normal topic Checkpoint with rosetta3.4
by AmelieH » Mon, 2014-12-01 15:51
1
2,223 by rmoretti
Wed, 2014-12-03 19:07
Normal topic Fixing and Building disulfide bonds in homology modeling
by kamau » Wed, 2014-09-24 11:33
0
2,226 by kamau
Wed, 2014-09-24 11:35
Normal topic membrane modeling error
by benniu2004 » Mon, 2013-07-01 17:59
1
2,229 by smlewis
Mon, 2014-04-21 06:48
Normal topic Space Swap!!!
by jrcf » Sun, 2016-02-14 11:43
2
2,234 by jrcf
Mon, 2016-02-15 17:59
Normal topic Can I believe the antibody design result?
by Sunyp_IM » Mon, 2020-11-30 03:29
6
2,240 by jadolfbr
Sun, 2020-12-06 17:41
Normal topic Reproducing the exact result using information from previos run
by nawsad » Thu, 2013-03-14 12:05
2
2,248 by nawsad
Mon, 2014-04-21 06:47
Normal topic submit_NGK.py not creating output files
by nkato2 » Wed, 2013-08-28 23:37
1
2,251 by rmoretti
Mon, 2014-04-21 06:48
Normal topic flexpepdock_score_only
by ays » Sun, 2014-09-21 06:17
2
2,259 by ays
Tue, 2014-09-30 08:31
Normal topic error mesages from RosettaDock
by AlanZhao » Mon, 2011-03-21 11:42
1
2,270 by smlewis
Mon, 2014-04-21 06:47
Normal topic relax VS. backrub
by jiongzhang » Mon, 2012-07-02 14:52
1
2,273 by smlewis
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
2,278 by aloshbau
Mon, 2021-03-01 20:06
Normal topic Rna Denovo
by helderveras » Wed, 2020-05-06 08:40
5
2,285 by everyday847
Wed, 2020-05-20 08:52
Normal topic contents of span file
by tevang » Mon, 2013-04-15 05:01
1
2,287 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
2,292 by danpf
Fri, 2019-09-06 11:29
Normal topic Negative Design
by rbjacob » Thu, 2018-10-11 09:18
3
2,294 by smlewis
Mon, 2018-10-15 08:42
Normal topic Problems with fixbb in Rosetta 3.5
by mdidonato » Wed, 2014-06-04 13:56
2
2,304 by mdidonato
Wed, 2014-06-04 14:55
Normal topic cross correlation calculation
by jingwei xu » Sat, 2016-04-16 19:11
2
2,304 by jingwei xu
Wed, 2016-05-04 23:26
Normal topic RosettaScripts - SetupNCS mover
by felipet » Fri, 2016-03-25 12:42
2
2,306 by rmoretti
Fri, 2016-04-29 08:26
Normal topic New CSRosetta toolbox
by sn » Mon, 2017-04-24 12:42
3
2,309 by rmoretti
Tue, 2017-04-25 06:41
Normal topic pepspec anchor dock
by Astghik » Tue, 2020-10-20 05:31
6
2,310 by Pappmaschee
Thu, 2020-12-17 02:24
Normal topic Segmentation Fault during prepacking
by Sunyp_IM » Fri, 2020-06-12 11:24
4
2,312 by Sunyp_IM
Thu, 2020-07-09 18:40
Normal topic Remodel: neighbor cutoff
by felipet » Wed, 2014-07-16 08:11
2
2,313 by felipet
Thu, 2014-07-17 10:13
Normal topic Enzdes scorefile lost, can I recreate it
by eyong123 » Wed, 2015-04-15 05:55
2
2,317 by eyong123
Wed, 2015-04-22 11:33
Normal topic Can I change high-resolution filter in SymDock
by attesor » Fri, 2015-10-23 07:35
2
2,321 by attesor
Mon, 2015-10-26 09:01
Normal topic regarding extracting silent file - renamed tag
by shrutikhare » Thu, 2014-04-17 01:19
2
2,321 by shrutikhare
Fri, 2014-04-18 23:11
Normal topic protein-protein docking
by cbala » Mon, 2011-04-18 09:15
1
2,322 by smlewis
Mon, 2014-04-21 06:47
Normal topic Trouble running Enzyme Design application
by danaitop » Thu, 2016-08-11 13:34
2
2,322 by rmoretti
Mon, 2016-09-05 11:10
Normal topic Incorporating iron-sulfur cluster into ROSETTA applications
by Derek Smith » Thu, 2014-08-14 23:12
1
2,325 by rmoretti
Fri, 2014-08-15 08:06
Normal topic interface_delta ligand_docking
by Prasanth Kumar » Tue, 2013-06-18 08:37
1
2,337 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Error with FlexPepDock
by aloshbau » Sat, 2013-08-10 11:51
1
2,345 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Ligand docking: ERROR: set_atom_base: atoms must be bonded!
by mengzhang » Mon, 2014-05-12 12:36
1
2,347 by rmoretti
Mon, 2014-05-12 15:08
Normal topic FlexPepDock in RosettaScripts keeps running
by gw » Tue, 2012-08-21 12:31
1
2,350 by smlewis
Mon, 2014-04-21 06:47
Normal topic restrain residues in docking
by albumns » Sat, 2013-11-02 08:52
1
2,350 by jadolfbr
Mon, 2014-04-21 06:48
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