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Rosetta 3 - Applications
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I need some help for using pHDock applications(histidine protonation / pH-dependent binding) by leygkn » Tue, 2020-09-22 18:40 |
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1,149 |
by leygkn Tue, 2020-09-22 22:46 |
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Incorporating iron-sulfur cluster into ROSETTA applications by Derek Smith » Thu, 2014-08-14 23:12 |
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2,579 |
by rmoretti Fri, 2014-08-15 08:06 |
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Fixing part of a ligand in dock-design by hssnzdh2 » Mon, 2015-11-23 17:14 |
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2,186 |
by rmoretti Tue, 2015-11-24 16:16 |
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SnugDock Partners parameter by tyang39 » Fri, 2022-07-08 10:02 |
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856 |
by rmoretti Fri, 2022-07-08 10:27 |
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Holes output interpretation by lah435 » Mon, 2012-06-04 15:02 |
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2,402 |
by smlewis Mon, 2014-04-21 06:47 |
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ProteinInterfaceDesign algorithm questions by tsztain » Mon, 2019-02-18 14:10 |
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1,676 |
by rmoretti Sun, 2019-08-25 19:15 |
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denovo modelling on a virus-coat protein dimer by aseem121 » Wed, 2019-10-16 06:55 |
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1,353 |
by danpf Wed, 2019-10-16 13:03 |
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Packstat application output by Vedasheersh » Mon, 2017-07-03 02:45 |
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1,976 |
by rmoretti Mon, 2017-07-03 09:17 |
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antibody - sequence position requested was 0 by jremmel » Mon, 2021-09-27 12:26 |
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1,109 |
by nannemdp Mon, 2021-09-27 14:22 |
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unable to generate the span file with "mp_span_from_pdb.default.linuxgccrelease" from a PDB file by Sajjad » Wed, 2022-11-30 11:40 |
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3,901 |
by FJOM Wed, 2023-05-03 07:21 |
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Standalone alanine scanning protocol by exchhattu » Thu, 2011-10-13 19:40 |
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5,350 |
by smlewis Mon, 2014-04-21 06:47 |
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ambiguous constraints by shrutikhare » Mon, 2014-05-12 04:42 |
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3,277 |
by rmoretti Mon, 2014-05-12 08:25 |
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How to build disulfide bond between two cysteine, i.e. change two "-SH" (sulfydryl) into "-S-S-"? by lanselibai » Sat, 2015-01-17 11:19 |
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3,058 |
by lanselibai Wed, 2015-01-21 02:40 |
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Coding denovo prediction from density maps in PyRosetta by ahmadkhalifa » Tue, 2018-04-10 11:43 |
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1,507 |
by rmoretti Tue, 2018-04-10 15:29 |
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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 |
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2,236 |
by rmoretti Mon, 2015-02-09 12:33 |
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Enzyme Design FlexBB Protocol Bug: DNA/RNA handling by kettner » Fri, 2019-06-14 14:16 |
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1,797 |
by rmoretti Mon, 2019-06-24 13:46 |
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residue_energy_breakdown of a protein-ligand complex. by sam_dc » Tue, 2021-05-18 04:45 |
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1,095 |
by rmoretti Tue, 2021-05-18 07:21 |
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relax VS. backrub by jiongzhang » Mon, 2012-07-02 14:52 |
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2,507 |
by smlewis Mon, 2014-04-21 06:47 |
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Snugdock_error by luicui » Thu, 2017-02-09 21:06 |
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1,664 |
by smlewis Thu, 2017-02-09 21:50 |
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FixedBB design output no beta strands by tkoh » Fri, 2023-08-25 01:02 |
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238 |
by rmoretti Tue, 2023-08-29 20:13 |
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Question on restraining receptor symmetry when docking ligand by subha » Fri, 2018-07-06 21:59 |
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1,460 |
by rmoretti Fri, 2018-08-03 08:16 |
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RosettaMatch by xingqing326 » Mon, 2019-07-22 13:14 |
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1,725 |
by rmoretti Mon, 2019-08-26 12:57 |
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ligand conformer generation for enzyme design by bo » Mon, 2013-02-11 16:51 |
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2,359 |
by smlewis Mon, 2014-04-21 06:47 |
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placing a constraint during structure prediction by cbala » Thu, 2011-04-07 08:54 |
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3,126 |
by ic3reyes Mon, 2014-04-21 06:47 |
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Interface Analyzer Segmentation Fault by h_trasatti » Tue, 2017-02-21 12:48 |
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2,194 |
by smlewis Tue, 2017-02-21 14:10 |
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Warning: Fold tree is not set properly for density scoring by ahansel » Mon, 2020-07-13 10:50 |
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1,225 |
by danpf Tue, 2020-07-14 10:27 |
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Surface accessible residue as a constraint. by arthuc01 » Fri, 2012-03-09 23:27 |
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2,200 |
by smlewis Mon, 2014-04-21 06:47 |
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Using different number of 9-mers (UPDATED) by JadAbbass » Mon, 2017-08-28 07:20 |
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1,833 |
by rmoretti Mon, 2017-09-04 10:33 |
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docking with capping groups by xavierfradera » Sun, 2018-11-04 16:17 |
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1,452 |
by maral.adeli-kou... Wed, 2020-01-22 12:41 |
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Undesirable behaviour of PoseFromSFRBuilder regarding Hydrogen atoms by Corvin » Wed, 2020-12-02 04:00 |
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1,083 |
by rmoretti Wed, 2020-12-02 07:27 |
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Destination of score.fsc file by anirbanzz » Wed, 2011-04-20 23:30 |
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2,760 |
by smlewis Mon, 2014-04-21 06:47 |
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FlexPepDock in RosettaScripts keeps running by gw » Tue, 2012-08-21 12:31 |
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2,538 |
by smlewis Mon, 2014-04-21 06:47 |
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How to use base_pair_constraint for RNA as a constraint term？ by yels » Sat, 2021-04-03 01:19 |
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1,004 |
by everyday847 Sun, 2021-04-04 12:48 |
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Design with limited number of aminoacids at given position by sdh_h » Sun, 2016-12-04 03:44 |
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1,819 |
by smlewis Thu, 2016-12-08 15:50 |
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dssp by MA » Thu, 2017-10-05 09:34 |
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1,721 |
by rmoretti Tue, 2017-10-10 09:54 |
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[LoopModelerMover] ERROR: Can't build a fold tree from a loop with an unspecified cut point. by dgm3 » Sun, 2021-12-26 18:32 |
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1,131 |
by dgm3 Fri, 2021-12-31 17:42 |
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Missing atoms, unable to fill in missing atoms by kwu030 » Fri, 2023-05-05 13:41 |
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320 |
by rmoretti Fri, 2023-05-05 13:44 |
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problem with modelling of protein (140 and 150 residues respectively) by krlitros87 » Wed, 2014-10-22 09:39 |
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2,053 |
by rmoretti Thu, 2014-10-23 13:55 |
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Homology modelling applies alignment wrong by bernhardcl » Thu, 2015-08-06 09:39 |
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1,994 |
by bernhardcl Tue, 2015-08-11 09:11 |
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comparative modeling of a homodimer by banshee » Mon, 2017-01-09 18:34 |
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2,287 |
by rmoretti Wed, 2017-01-11 13:00 |
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[Solved] Resetting a pose with RigidBodyTransMover by bjharris » Wed, 2021-01-13 14:01 |
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997 |
by bjharris Fri, 2021-01-22 17:34 |
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duplex RNA by amir_tagh » Thu, 2021-08-05 06:34 |
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927 |
by everyday847 Mon, 2021-08-16 10:43 |
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Score.sc file showing total score 0 for all protein structures created by aanshi » Wed, 2022-11-23 11:13 |
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3,249 |
by nannemdp Mon, 2022-11-28 09:39 |
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number of structures in homology modeling for cluster analysis by pdbb » Fri, 2013-04-12 08:52 |
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2,572 |
by smlewis Mon, 2014-04-21 06:47 |
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Flexible peptide docking with flexible receptor backbone by tevang » Fri, 2012-09-14 11:18 |
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2,674 |
by smlewis Mon, 2014-04-21 06:47 |
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splitfile.py by saladi » Fri, 2018-03-30 10:31 |
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1,669 |
by rmoretti Tue, 2018-04-10 15:34 |
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How can I model ligands in comparative modeling by Morrian_Lynn » Thu, 2020-02-20 09:57 |
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1,172 |
by danpf Fri, 2020-02-21 17:05 |
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Docking Analysis and Metrics in RosettaLigand. by sam_dc » Tue, 2021-04-20 03:54 |
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1,625 |
by rmoretti Tue, 2021-04-20 13:27 |
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Antibody Modelling by luicui » Mon, 2017-01-23 21:30 |
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2,150 |
by smlewis Mon, 2017-02-06 20:46 |
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blast database error by jessye » Sun, 2017-12-03 23:59 |
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1,780 |
by smlewis Mon, 2017-12-04 12:18 |
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RECCESS-Rosetta Segmentation Fault with nonnatural residues by skorro » Tue, 2023-07-25 17:13 |
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267 |
by skorro Fri, 2023-07-28 12:20 |
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Ligand creation by Prasanth Kumar » Fri, 2013-08-02 09:48 |
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2,364 |
by rmoretti Mon, 2014-04-21 06:48 |
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docking with constraints by talavera » Tue, 2013-05-07 01:50 |
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3,944 |
by rmoretti Mon, 2014-04-21 06:47 |
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Ligand docking: ERROR: set_atom_base: atoms must be bonded! by mengzhang » Mon, 2014-05-12 12:36 |
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2,547 |
by rmoretti Mon, 2014-05-12 15:08 |
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radius of gyration as constrain by dhirajks » Sat, 2018-05-05 23:00 |
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1,622 |
by smlewis Mon, 2018-05-07 11:42 |
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Executing the clean_pdb.py script by Rkfoury » Fri, 2015-02-20 10:16 |
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3,761 |
by lanselibai Tue, 2015-02-24 02:36 |
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Enzyme Design - Score File by nwhoppe » Thu, 2016-04-07 15:11 |
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2,073 |
by rmoretti Fri, 2016-04-08 07:39 |
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Rosetta_cm Partial Threading Removing Parts of Sequence by gszwabowski » Thu, 2019-06-20 12:30 |
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1,558 |
by rmoretti Mon, 2019-06-24 13:43 |
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Filtering while clustering by David Hoover » Wed, 2011-03-30 07:03 |
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2,597 |
by smlewis Mon, 2014-04-21 06:47 |
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Comparative modeling using a two chained template for a one chain structure by ahmadkhalifa » Mon, 2017-12-18 11:00 |
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1,517 |
by rmoretti Mon, 2018-01-15 16:14 |
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De novo water predictions using SPaDES by MNP1986 » Mon, 2019-03-25 07:53 |
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1,678 |
by matteoferla Tue, 2020-08-04 09:30 |
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Comparative modeling by MRH » Mon, 2013-08-19 23:08 |
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2,383 |
by smlewis Mon, 2014-04-21 06:48 |
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SymDock with constraints by felipet » Thu, 2015-05-14 09:01 |
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3,034 |
by rmoretti Mon, 2015-05-25 11:49 |
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Binding energy contribution broken down by residue by brspurri » Tue, 2013-07-23 12:47 |
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2,740 |
by rmoretti Mon, 2014-04-21 06:48 |
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Predicting the part of protein strcutrue by ksy141 » Tue, 2018-10-16 11:47 |
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1,431 |
by jadolfbr Fri, 2018-11-09 14:28 |
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/database folder after running "install_dependencies.pl" size 657 GB? by Danielsebas » Tue, 2019-09-03 03:32 |
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1,269 |
by danpf Tue, 2019-09-03 10:15 |
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Changing rosetta scoring to favour less hydrophobic areas by daniloboskovic » Thu, 2020-05-21 03:03 |
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1,116 |
by vmulligan Thu, 2020-05-21 18:33 |
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Protein-DNA Docking using RosettaScripts? by brspurri » Fri, 2013-06-07 09:06 |
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4,319 |
by rmoretti Mon, 2014-04-21 06:48 |
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Blast error for rosetta antibody: No argument value given for Query file by dngusdnr1 » Tue, 2021-06-08 17:30 |
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1,097 |
by taylorjones Wed, 2021-06-09 16:38 |
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No output with docking full protocol by JulienO » Mon, 2016-05-30 02:16 |
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1,924 |
by rmoretti Fri, 2016-06-17 10:24 |
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JD2 MPI by jrcf » Wed, 2015-10-28 14:45 |
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2,237 |
by rmoretti Sat, 2015-10-31 08:57 |
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RosettaLigand Docking by Dinesh Kumar » Mon, 2018-01-15 20:54 |
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2,091 |
by rmoretti Tue, 2018-01-16 07:24 |
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is it necessary to always run relax before any Rosetta by mainzer » Fri, 2019-04-12 01:35 |
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1,847 |
by rmoretti Wed, 2019-07-10 09:47 |
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How to freeze ligand during FastRelax? by dnamkr » Thu, 2020-01-02 14:53 |
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1,464 |
by aloshbau Fri, 2020-01-10 16:48 |
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pepspec anchor dock by Andre Serobian » Tue, 2020-07-28 05:51 |
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1,130 |
by Andre Serobian Tue, 2020-07-28 23:26 |
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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 |
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38 |
by Edward Sat, 2023-11-25 05:17 |
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Surface Docking Crash (continued) by dkozuch » Tue, 2017-09-12 06:18 |
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1,583 |
by rmoretti Tue, 2017-10-10 10:08 |
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AbinitioRelax - Error with flags by jmschu » Wed, 2018-11-21 17:36 |
1 |
2,029 |
by rmoretti Fri, 2018-11-23 07:59 |
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how to generate Fragments using up to 2001 structures only by oppopomoz » Sat, 2015-07-25 00:43 |
1 |
2,023 |
by rmoretti Thu, 2015-08-06 08:57 |
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Can I use rosetta binaries built in one linux system to another linux system? by Danielsebas » Wed, 2019-09-18 06:49 |
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1,368 |
by rmoretti Wed, 2019-09-18 10:36 |
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[Solved] RosettaAntibody3 - Grafting step is failing to detect H3 from the input sequence by brspurri » Mon, 2021-01-04 16:46 |
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1,219 |
by brspurri Mon, 2021-01-18 18:14 |
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PDB file name too long to be handled by file system by dave » Thu, 2019-08-08 03:10 |
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1,276 |
by rmoretti Mon, 2019-08-26 12:17 |
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minimize_with_cst and convert_to_cst_file for ddG_monomer issues/confusion by Kharlamov1317a » Mon, 2020-09-21 08:46 |
1 |
1,736 |
by Kharlamov1317a Wed, 2020-10-07 08:26 |
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Stepwise Monte Carlo - errors with ResidueTypeSet and Disulfides by user42 » Wed, 2021-07-21 20:34 |
1 |
913 |
by everyday847 Fri, 2021-07-30 13:26 |
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Small molecule dimer/trimer/etc docking by lukasz » Tue, 2022-10-04 06:49 |
1 |
1,530 |
by rmoretti Tue, 2022-10-04 07:57 |
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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 |
2,037 |
by rmoretti Tue, 2015-01-13 07:44 |
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cluster.linuxgccrelease Killed error by samuelrpita » Fri, 2015-11-20 05:56 |
1 |
2,287 |
by rmoretti Tue, 2015-11-24 16:07 |
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loop design for Conformational bias by dhirajks » Thu, 2019-05-09 21:22 |
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1,465 |
by jadolfbr Fri, 2019-05-10 07:53 |
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error: Unable to open weights/patch file in using ddg_monomer.linuxgccrelease by xinmiaohe » Thu, 2020-01-30 22:09 |
1 |
1,882 |
by xinmiaohe Fri, 2020-01-31 08:23 |
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profit program in antibody design by tzhou » Tue, 2013-10-15 23:29 |
1 |
2,777 |
by rmoretti Mon, 2014-04-21 06:48 |
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Repeatability of DDG calculation by jennifer » Wed, 2015-04-08 05:29 |
0 |
1,553 |
by jennifer Wed, 2015-04-08 05:29 |
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structure prediction by MA » Wed, 2018-09-05 00:50 |
0 |
909 |
by MA Wed, 2018-09-05 00:50 |
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Error reading in/out glycosylated silent file - "Can't create a polymer bond after residue due to incompatible type" by amorin » Mon, 2021-09-27 12:16 |
0 |
821 |
by amorin Mon, 2021-09-27 12:16 |
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remodel: what are the exact meanings of notations for secondary structure? by lanselibai » Sat, 2015-01-17 04:53 |
0 |
1,456 |
by lanselibai Sat, 2015-01-17 07:57 |
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DDG and interaction score problem by a-eatemadi@razi... » Mon, 2018-04-09 22:54 |
0 |
1,149 |
by a-eatemadi@razi... Mon, 2018-04-09 22:54 |
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score is 0 in the output? - RosettaScripts by chrisHKL » Thu, 2020-03-05 09:33 |
0 |
893 |
by chrisHKL Thu, 2020-03-05 12:58 |
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Issues with modifying dock.xml for multiple ligand docking by DGR95 » Fri, 2021-05-14 12:51 |
0 |
690 |
by DGR95 Fri, 2021-05-14 12:51 |
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Include MHC alpha helices in loop modelling protocol for pMHC complex by Roberto » Thu, 2022-08-04 07:22 |
0 |
701 |
by Roberto Thu, 2022-08-04 07:22 |
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how to generate the whole molecule that contains all the symmetric chains by Sunyp_IM » Sun, 2017-12-10 19:43 |
0 |
1,146 |
by Sunyp_IM Sun, 2017-12-10 19:43 |
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ligand_docking: ligand preparation by Alison_Yajie » Thu, 2020-07-02 07:05 |
0 |
834 |
by Alison_Yajie Thu, 2020-07-02 07:10 |
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