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Rosetta 3 - Applications

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Normal topic [Solved] Resetting a pose with RigidBodyTransMover
by bjharris » Wed, 2021-01-13 14:01
1
1,116 by bjharris
Fri, 2021-01-22 17:34
Normal topic duplex RNA
by amir_tagh » Thu, 2021-08-05 06:34
1
1,006 by everyday847
Mon, 2021-08-16 10:43
Normal topic Score.sc file showing total score 0 for all protein structures created
by aanshi » Wed, 2022-11-23 11:13
1
3,509 by nannemdp
Mon, 2022-11-28 09:39
Normal topic No interface for protein - Interface Analyzer
by aloshbau » Tue, 2013-05-21 21:00
1
2,834 by jarod
Mon, 2014-04-21 06:47
Normal topic splitfile.py
by saladi » Fri, 2018-03-30 10:31
1
1,771 by rmoretti
Tue, 2018-04-10 15:34
Normal topic How can I model ligands in comparative modeling
by Morrian_Lynn » Thu, 2020-02-20 09:57
1
1,252 by danpf
Fri, 2020-02-21 17:05
Normal topic Docking Analysis and Metrics in RosettaLigand.
by sam_dc » Tue, 2021-04-20 03:54
1
1,805 by rmoretti
Tue, 2021-04-20 13:27
Normal topic AbinitioRelax Disulfide Bonds are not being retained
by brspurri » Wed, 2011-09-28 13:55
1
4,405 by parmef
Mon, 2014-04-21 06:47
Normal topic Antibody Modelling
by luicui » Mon, 2017-01-23 21:30
1
2,242 by smlewis
Mon, 2017-02-06 20:46
Normal topic blast database error
by jessye » Sun, 2017-12-03 23:59
1
1,889 by smlewis
Mon, 2017-12-04 12:18
Normal topic RECCESS-Rosetta Segmentation Fault with nonnatural residues
by skorro » Tue, 2023-07-25 17:13
1
399 by skorro
Fri, 2023-07-28 12:20
Normal topic Ligand creation
by Prasanth Kumar » Fri, 2013-08-02 09:48
1
2,441 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
2,630 by rmoretti
Mon, 2014-05-12 15:08
Normal topic radius of gyration as constrain
by dhirajks » Sat, 2018-05-05 23:00
1
1,718 by smlewis
Mon, 2018-05-07 11:42
Normal topic trouble in floppytail modelling
by ytao » Thu, 2013-06-27 13:15
1
2,449 by ytao
Mon, 2014-04-21 06:48
Normal topic Executing the clean_pdb.py script
by Rkfoury » Fri, 2015-02-20 10:16
1
3,863 by lanselibai
Tue, 2015-02-24 02:36
Normal topic Enzyme Design - Score File
by nwhoppe » Thu, 2016-04-07 15:11
1
2,155 by rmoretti
Fri, 2016-04-08 07:39
Normal topic Rosetta_cm Partial Threading Removing Parts of Sequence
by gszwabowski » Thu, 2019-06-20 12:30
1
1,659 by rmoretti
Mon, 2019-06-24 13:43
Normal topic Comparative modeling using a two chained template for a one chain structure
by ahmadkhalifa » Mon, 2017-12-18 11:00
1
1,604 by rmoretti
Mon, 2018-01-15 16:14
Normal topic De novo water predictions using SPaDES
by MNP1986 » Mon, 2019-03-25 07:53
1
1,774 by matteoferla
Tue, 2020-08-04 09:30
Normal topic Comparative modeling
by MRH » Mon, 2013-08-19 23:08
1
2,460 by smlewis
Mon, 2014-04-21 06:48
Normal topic SymDock with constraints
by felipet » Thu, 2015-05-14 09:01
1
3,141 by rmoretti
Mon, 2015-05-25 11:49
Normal topic Predicting the part of protein strcutrue
by ksy141 » Tue, 2018-10-16 11:47
1
1,519 by jadolfbr
Fri, 2018-11-09 14:28
Normal topic /database folder after running "install_dependencies.pl" size 657 GB?
by Danielsebas » Tue, 2019-09-03 03:32
1
1,372 by danpf
Tue, 2019-09-03 10:15
Normal topic Changing rosetta scoring to favour less hydrophobic areas
by daniloboskovic » Thu, 2020-05-21 03:03
1
1,207 by vmulligan
Thu, 2020-05-21 18:33
Normal topic error mesages from RosettaDock
by AlanZhao » Mon, 2011-03-21 11:42
1
2,585 by smlewis
Mon, 2014-04-21 06:47
Normal topic how to run my openmp programe in rosetta3.3?
by lihowe » Mon, 2012-02-27 23:43
1
2,409 by smlewis
Mon, 2014-04-21 06:47
Normal topic Blast error for rosetta antibody: No argument value given for Query file
by dngusdnr1 » Tue, 2021-06-08 17:30
1
1,223 by taylorjones
Wed, 2021-06-09 16:38
Normal topic No output with docking full protocol
by JulienO » Mon, 2016-05-30 02:16
1
2,015 by rmoretti
Fri, 2016-06-17 10:24
Normal topic Problem with AtomPair constraint
by jarek » Tue, 2012-10-09 07:28
1
2,382 by smlewis
Mon, 2014-04-21 06:47
Normal topic score and relax
by Prasanth Kumar » Thu, 2013-05-02 05:09
1
3,291 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic JD2 MPI
by jrcf » Wed, 2015-10-28 14:45
1
2,347 by rmoretti
Sat, 2015-10-31 08:57
Normal topic RosettaLigand Docking
by Dinesh Kumar » Mon, 2018-01-15 20:54
1
2,184 by rmoretti
Tue, 2018-01-16 07:24
Normal topic is it necessary to always run relax before any Rosetta
by mainzer » Fri, 2019-04-12 01:35
1
1,970 by rmoretti
Wed, 2019-07-10 09:47
Normal topic How to freeze ligand during FastRelax?
by dnamkr » Thu, 2020-01-02 14:53
1
1,564 by aloshbau
Fri, 2020-01-10 16:48
Normal topic pepspec anchor dock
by Andre Serobian » Tue, 2020-07-28 05:51
1
1,207 by Andre Serobian
Tue, 2020-07-28 23:26
Normal topic I want to refine my pdb file,but it has multiple breaks or has multiple loops missing resi
by Edward » Sat, 2023-11-25 04:58
1
295 by Edward
Sat, 2023-11-25 05:17
Normal topic Surface Docking Crash (continued)
by dkozuch » Tue, 2017-09-12 06:18
1
1,663 by rmoretti
Tue, 2017-10-10 10:08
Normal topic AbinitioRelax - Error with flags
by jmschu » Wed, 2018-11-21 17:36
1
2,128 by rmoretti
Fri, 2018-11-23 07:59
Normal topic profit program in antibody design
by tzhou » Tue, 2013-10-15 23:29
1
2,860 by rmoretti
Mon, 2014-04-21 06:48
Normal topic how to generate Fragments using up to 2001 structures only
by oppopomoz » Sat, 2015-07-25 00:43
1
2,111 by rmoretti
Thu, 2015-08-06 08:57
Normal topic Can I use rosetta binaries built in one linux system to another linux system?
by Danielsebas » Wed, 2019-09-18 06:49
1
1,461 by rmoretti
Wed, 2019-09-18 10:36
Normal topic [Solved] RosettaAntibody3 - Grafting step is failing to detect H3 from the input sequence
by brspurri » Mon, 2021-01-04 16:46
1
1,319 by brspurri
Mon, 2021-01-18 18:14
Normal topic PDB file name too long to be handled by file system
by dave » Thu, 2019-08-08 03:10
1
1,357 by rmoretti
Mon, 2019-08-26 12:17
Normal topic minimize_with_cst and convert_to_cst_file for ddG_monomer issues/confusion
by Kharlamov1317a » Mon, 2020-09-21 08:46
1
1,902 by Kharlamov1317a
Wed, 2020-10-07 08:26
Normal topic Stepwise Monte Carlo - errors with ResidueTypeSet and Disulfides
by user42 » Wed, 2021-07-21 20:34
1
1,005 by everyday847
Fri, 2021-07-30 13:26
Normal topic Small molecule dimer/trimer/etc docking
by lukasz » Tue, 2022-10-04 06:49
1
1,702 by rmoretti
Tue, 2022-10-04 07:57
Normal topic Representing Cross-linked nitrogens
by jjlee2 » Sat, 2011-11-26 18:42
1
2,465 by smlewis
Mon, 2014-04-21 06:47
Normal topic modeling 4 linkers between 2 domains
by pdbb » Thu, 2013-05-16 08:23
1
2,461 by smlewis
Mon, 2014-04-21 06:47
Normal topic ddg_monomer with -ddg::local_opt_only true, will it affect other chains that are close?
by cossio » Fri, 2014-12-26 13:11
1
2,112 by rmoretti
Tue, 2015-01-13 07:44
Normal topic cluster.linuxgccrelease Killed error
by samuelrpita » Fri, 2015-11-20 05:56
1
2,389 by rmoretti
Tue, 2015-11-24 16:07
Normal topic loop design for Conformational bias
by dhirajks » Thu, 2019-05-09 21:22
1
1,556 by jadolfbr
Fri, 2019-05-10 07:53
Normal topic error: Unable to open weights/patch file in using ddg_monomer.linuxgccrelease
by xinmiaohe » Thu, 2020-01-30 22:09
1
1,984 by xinmiaohe
Fri, 2020-01-31 08:23
Normal topic score_jd2.linuxgccrelease documentation
by fglaser » Mon, 2011-08-01 04:08
1
4,016 by smlewis
Mon, 2014-04-21 06:47
Normal topic Script for loop modeling: how to define loop sequence
by batch2k » Thu, 2014-10-30 12:58
1
2,247 by jadolfbr
Fri, 2014-10-31 08:45
Normal topic "install_dependencies.pl" script: an optimization of HDD space during nr-pfilt data extracting and formatting stage
by Corvin » Thu, 2019-10-10 02:20
1
1,491 by danpf
Thu, 2019-10-10 09:55
Normal topic How to select docked models
by Sunyp_IM » Mon, 2020-06-22 00:50
1
1,181 by ssrb
Mon, 2020-06-22 13:12
Normal topic Rosetta DNA - Protein-DNA scoring function and binding energy
by tanoramb » Tue, 2012-05-08 14:00
1
4,567 by smlewis
Mon, 2014-04-21 06:47
Normal topic antibody protocol fails
by hamedkhakzad » Mon, 2019-08-19 07:43
1
1,440 by smlewis
Tue, 2019-10-22 09:45
Normal topic Rosetta_scripts error, Got some signal... It is:6
by jhm13c » Fri, 2017-04-14 14:05
1
2,084 by rmoretti
Sat, 2017-04-15 13:30
Normal topic Relax with multiple small molecules
by jharamesh » Sun, 2019-05-26 19:34
1
1,715 by rmoretti
Mon, 2019-06-24 15:19
Normal topic Ddg filter threshold value?
by chrisHKL » Fri, 2020-02-28 15:01
1
1,267 by rmoretti
Wed, 2020-03-04 09:56
Normal topic shape complementarity
by holdenj » Fri, 2022-07-15 13:24
1
1,065 by rmoretti
Fri, 2022-07-15 13:50
Normal topic interface_delta ligand_docking
by Prasanth Kumar » Tue, 2013-06-18 08:37
1
2,659 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Generating non-redundat dataset for loop models
by dario.corrada » Wed, 2016-03-09 03:00
1
1,900 by smlewis
Wed, 2016-03-09 04:11
Normal topic Model two domain protein
by sn » Sat, 2017-05-06 13:21
1
1,955 by rmoretti
Mon, 2017-05-15 08:54
Normal topic rosetta's keyword list
by fred » Tue, 2014-01-21 06:03
1
2,725 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Two questions on the RosettaScripts flexbb-interfacedesign.xml
by johnnytam100 » Fri, 2019-03-15 04:54
1
1,681 by rmoretti
Fri, 2019-03-29 09:58
Normal topic how to pick fragments for a transmembrane protein
by tevang » Mon, 2012-05-28 06:52
1
2,257 by tevang
Mon, 2014-04-21 06:47
Normal topic Error with FlexPepDock
by aloshbau » Sat, 2013-08-10 11:51
1
2,686 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Snugdock+ensembledock usage
by Anouk » Mon, 2014-09-22 08:09
1
3,068 by jadolfbr
Mon, 2014-10-20 13:42
Normal topic Should I trust the score output from relax used with a protein complex?
by cossio » Thu, 2015-05-07 06:08
1
2,178 by rmoretti
Mon, 2015-05-25 12:37
Normal topic C-termini remodelling of dimeric structure removes second chain
by LeonhardJS » Wed, 2021-10-13 06:23
1
1,058 by LeonhardJS
Fri, 2021-11-12 01:20
Normal topic membrane modeling error
by benniu2004 » Mon, 2013-07-01 17:59
1
2,510 by smlewis
Mon, 2014-04-21 06:48
Normal topic Failed glycine check when running RosettaRemodel to build disulfide
by cheyuk » Fri, 2014-06-27 02:31
1
2,164 by everyday847
Sun, 2014-09-28 21:16
Normal topic Design a peptide linked to small molecule ligand
by shaunmk » Mon, 2015-03-02 09:05
1
2,554 by rmoretti
Wed, 2015-03-25 12:39
Normal topic sequence design to enhance Fc / Fc-g Receptor binding
by jarod » Tue, 2017-05-23 09:00
1
1,748 by jadolfbr
Thu, 2017-06-01 10:00
Normal topic contents of span file
by tevang » Mon, 2013-04-15 05:01
1
2,532 by smlewis
Mon, 2014-04-21 06:47
Normal topic heads up for constraints using GAUSSIANFUNC
by attesor » Thu, 2015-10-22 07:30
1
1,966 by smlewis
Thu, 2015-10-22 08:04
Normal topic Docking prepack vs. relax
by David Weis » Tue, 2017-02-21 05:37
1
2,153 by smlewis
Tue, 2017-02-21 07:58
Normal topic PEPSPEC
by Neeraj » Wed, 2018-01-03 02:24
1
1,783 by Andre Serobian
Wed, 2020-07-08 04:44
Normal topic homology membrane modeling demo in rosetta 3.5
by rlwoltz » Mon, 2013-09-09 10:26
1
2,876 by smlewis
Mon, 2014-04-21 06:48
Normal topic Syntax to extract PDB files from a silent file
by lanselibai » Fri, 2014-09-26 13:48
1
3,919 by lanselibai
Fri, 2014-09-26 14:58
Normal topic Using residue patches in AbinitioRelax
by kent » Fri, 2018-11-02 11:19
1
1,908 by rmoretti
Wed, 2018-11-21 15:40
Normal topic Difference between relax and mimimize_with_cst
by basvandenberg » Thu, 2012-02-09 00:16
1
2,851 by rmoretti
Mon, 2014-04-21 06:47
Normal topic FASTA for Octopus
by Smbat » Wed, 2020-09-16 05:40
1
1,473 by rmoretti
Wed, 2020-09-16 22:11
Normal topic Unsatisfied interface H-bond in Ligand docking
by Prasanth Kumar » Thu, 2013-07-18 12:04
1
4,158 by rmoretti
Mon, 2014-04-21 06:48
Normal topic relax job failed
by albumns » Sat, 2014-07-26 00:21
1
2,147 by rmoretti
Sun, 2014-07-27 10:48
Normal topic rosetta scores for mutated structures
by harshkhare » Wed, 2011-11-23 09:30
1
2,818 by rmoretti
Mon, 2014-04-21 06:47
Normal topic Options for Enzdes RosettaScripts
by joeg » Wed, 2014-03-12 09:28
1
2,934 by rmoretti
Thu, 2014-03-13 08:04
Normal topic Segmentation fault when running Abinito Relax
by Hongtham » Mon, 2014-12-15 07:16
1
3,152 by rmoretti
Fri, 2015-01-02 11:45
Normal topic Protein/Protein Ddg demo: How to write predicted mutant structures?
by cossio » Wed, 2015-11-04 20:14
1
1,938 by rmoretti
Tue, 2015-11-10 11:10
Normal topic running structure prediction with robetta server like automation
by dhirajks » Mon, 2018-01-29 21:32
1
2,109 by rmoretti
Tue, 2018-01-30 07:51
Normal topic Highly negative total score
by Ruchi_P_Jain » Wed, 2019-04-24 19:55
1
1,740 by nannemdp
Thu, 2019-04-25 07:58
Normal topic mpirun docking_protocol
by NanB » Mon, 2020-08-03 11:38
1
2,849 by ssrb
Fri, 2020-08-14 09:18
Normal topic Docking structures with ligands in cryo-EM maps
by galushin » Wed, 2012-07-11 12:40
1
4,578 by jadolfbr
Mon, 2014-04-21 06:47
Normal topic Full Protocol
by shekhar » Fri, 2013-10-04 01:07
1
3,037 by rmoretti
Mon, 2014-04-21 06:48
Normal topic Docking with loop rebuilding
by kxiao » Sun, 2015-06-28 19:37
1
2,218 by rmoretti
Fri, 2015-07-03 14:41
Normal topic Ddg_monomer: implementing disulfides
by kabol » Wed, 2016-11-30 02:39
1
2,319 by rmoretti
Wed, 2016-11-30 07:46
Normal topic docking parse error
by dave » Tue, 2018-12-04 08:41
1
1,938 by rmoretti
Tue, 2018-12-04 08:55
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