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Rosetta 3 - Applications
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I need help with cst file the paper: De Novo Computational Design of Retro-Aldol Enzymes by Wenithor » Thu, 2022-01-06 12:20 |
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696 |
by Wenithor Thu, 2022-01-06 12:20 |
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Protein design: Ligand binding between two units of a homodimer by chemotaxis_123 » Sun, 2022-01-02 16:01 |
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639 |
by chemotaxis_123 Sun, 2022-01-02 16:01 |
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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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869 |
by dgm3 Fri, 2021-12-31 17:42 |
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ERROR: APBS failed to generate the result file. by bhavranek » Sat, 2021-12-18 11:01 |
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801 |
by bhavranek Sun, 2021-12-26 21:05 |
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Question about running scallo by danbo » Mon, 2021-11-29 23:25 |
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2,358 |
by danbo Wed, 2021-12-22 23:51 |
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getting a3m files by alonwenger » Wed, 2021-12-15 02:38 |
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1,716 |
by alonwenger Sat, 2021-12-18 12:32 |
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simple_cycpep_predict with N-term acetylation by Ken » Fri, 2021-12-17 09:49 |
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655 |
by Ken Fri, 2021-12-17 09:49 |
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Segfault error while running MR Rosetta in Phenix by memilton » Thu, 2021-12-16 09:09 |
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710 |
by memilton Thu, 2021-12-16 09:09 |
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Remodel's problem in treatment with non-protein residues by Corvin » Mon, 2021-12-13 09:07 |
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639 |
by Corvin Mon, 2021-12-13 09:07 |
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Relaxed proteins show higher clash score in molprobity results. by Wang Zhe » Fri, 2021-12-03 04:32 |
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1,886 |
by smlewis Wed, 2021-12-08 13:02 |
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How to apply cartesian_ddg to multi-metric enzyme? by Wang Zhe » Wed, 2021-12-08 10:07 |
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623 |
by Wang Zhe Wed, 2021-12-08 10:07 |
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SecundaryStructure Filter by Soler » Sun, 2021-11-21 22:20 |
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639 |
by Soler Sun, 2021-11-21 22:20 |
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ERROR: Unable to fill in missing atoms. by mieczyslaw » Tue, 2020-10-20 09:43 |
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4,861 |
by rayyoung Thu, 2021-11-18 10:13 |
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constraining different chains together in rosetta_cm by y_atsmonraz » Thu, 2021-11-18 02:59 |
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620 |
by y_atsmonraz Thu, 2021-11-18 03:01 |
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Problems with waters in CoupledMoves application by Corvin » Tue, 2021-11-16 07:16 |
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656 |
by Corvin Tue, 2021-11-16 07:22 |
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The energy terms in InterfaceAnalyzer by Sunyp_IM » Tue, 2021-11-02 18:43 |
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1,010 |
by zivben Sat, 2021-11-13 04:49 |
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C-termini remodelling of dimeric structure removes second chain by LeonhardJS » Wed, 2021-10-13 06:23 |
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793 |
by LeonhardJS Fri, 2021-11-12 01:20 |
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connecting rna strands together by y_atsmonraz » Tue, 2021-11-09 05:42 |
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697 |
by y_atsmonraz Thu, 2021-11-11 04:51 |
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building a protein-dna homology model via cm_rosetta by y_atsmonraz » Wed, 2021-10-20 23:11 |
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1,349 |
by y_atsmonraz Tue, 2021-11-02 01:47 |
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Strong bias in sampling observed in RosettaDock by chenna » Thu, 2020-08-27 22:23 |
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1,444 |
by chenna Tue, 2021-10-12 20:51 |
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Rosetta DARc suboptimal dockings by ddhoyo » Mon, 2021-10-11 06:18 |
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503 |
by ddhoyo Mon, 2021-10-11 06:18 |
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Linker Building in scFv by sam_dc » Sat, 2021-10-09 05:38 |
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577 |
by sam_dc Sat, 2021-10-09 05:38 |
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RoseTTaFold by ozsolomon » Thu, 2021-10-07 05:27 |
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1,573 |
by ozsolomon Thu, 2021-10-07 14:25 |
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Symmetry definition file versions by Jeff Qu » Tue, 2021-09-28 09:53 |
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560 |
by Jeff Qu Tue, 2021-09-28 09:53 |
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antibody - sequence position requested was 0 by jremmel » Mon, 2021-09-27 12:26 |
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893 |
by nannemdp Mon, 2021-09-27 14:22 |
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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 |
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662 |
by amorin Mon, 2021-09-27 12:16 |
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Python2 script in Rosetta3.13 by ddhoyo » Wed, 2021-09-15 04:05 |
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847 |
by matteoferla Wed, 2021-09-15 06:04 |
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Missing atoms and cannot find atom pose when refining ligand position with EM density by BuddySphinx » Mon, 2018-12-31 16:22 |
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2,953 |
by e3lm Tue, 2021-09-14 10:02 |
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Rosetta Ligand Ensemble by malfonsoprieto » Wed, 2021-05-26 10:21 |
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1,491 |
by vizcarra Thu, 2021-08-26 10:16 |
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duplex RNA by amir_tagh » Thu, 2021-08-05 06:34 |
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758 |
by everyday847 Mon, 2021-08-16 10:43 |
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Topobuilder segmentation fault by tatsiana.bylund » Mon, 2021-08-09 07:10 |
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844 |
by tatsiana.bylund Mon, 2021-08-09 07:10 |
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clashes created with enzdes by listofdina » Mon, 2021-08-02 06:51 |
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564 |
by listofdina Mon, 2021-08-02 06:51 |
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Stepwise Monte Carlo - errors with ResidueTypeSet and Disulfides by user42 » Wed, 2021-07-21 20:34 |
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748 |
by everyday847 Fri, 2021-07-30 13:26 |
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FlexPepDock bug? Constraints do not appear in total_score? by nrollins » Mon, 2021-07-26 14:29 |
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518 |
by nrollins Mon, 2021-07-26 14:29 |
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FlexPepDock ab initio: behavior without fragment files by nrollins » Mon, 2021-07-26 14:16 |
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479 |
by nrollins Mon, 2021-07-26 14:16 |
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Running Rosetta CM Hybridize step errors with: Scorefunction not set up for nonideal/Cartesian scoring by brspurri » Wed, 2017-03-29 13:19 |
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5,355 |
by matteoferla Mon, 2021-07-19 06:13 |
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rosetta_cm segfault by browns02 » Fri, 2021-07-09 13:35 |
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970 |
by rmoretti Fri, 2021-07-09 15:05 |
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D-amino acids tripeptide docking. by sam_dc » Sat, 2021-07-03 08:48 |
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1,050 |
by vmulligan Tue, 2021-07-06 08:27 |
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Repacker vs minimization by Elijah_Hix » Fri, 2021-07-02 07:25 |
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459 |
by Elijah_Hix Fri, 2021-07-02 07:25 |
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How can I set ref2015 and ligand.wts(-restore_pre_talaris_2013_behavior ) by asbelx » Sat, 2019-06-08 00:07 |
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2,107 |
by happycaapi Tue, 2021-06-29 15:35 |
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setup_RosettaCM.py by browns02 » Mon, 2021-06-28 07:13 |
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923 |
by browns02 Tue, 2021-06-29 11:41 |
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NCAA attached at two points by tsztain » Wed, 2021-06-16 15:20 |
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1,255 |
by matteoferla Sat, 2021-06-19 03:07 |
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different value of score from rna_denovo and rna_score? by yikanzhang » Wed, 2021-02-03 07:17 |
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818 |
by CameronJA Tue, 2021-06-15 20:02 |
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Fastsaxs by Pernille » Mon, 2013-07-22 07:29 |
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36,139 |
by rmoretti Mon, 2021-06-14 12:56 |
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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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850 |
by taylorjones Wed, 2021-06-09 16:38 |
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FastRelax Refinement severe clashes by Victor Tobiasson » Thu, 2021-05-20 06:55 |
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575 |
by Victor Tobiasson Thu, 2021-05-20 06:55 |
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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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861 |
by rmoretti Tue, 2021-05-18 07:21 |
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Issues with modifying dock.xml for multiple ligand docking by DGR95 » Fri, 2021-05-14 12:51 |
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568 |
by DGR95 Fri, 2021-05-14 12:51 |
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Disulfide Bonds in Loop Modeling by code_Monkey » Mon, 2021-05-03 08:27 |
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1,094 |
by code_Monkey Thu, 2021-05-06 07:14 |
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trRosetta protocol Segmentation Fault by nc-ring » Wed, 2021-04-28 11:57 |
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1,890 |
by nc-ring Tue, 2021-05-04 12:26 |
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Thread target sequence by duz » Thu, 2021-04-01 10:09 |
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1,517 |
by duz Mon, 2021-05-03 07:50 |
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Score Functions for Ligand-protein Docking by ziruiw » Sun, 2021-04-25 13:41 |
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2,228 |
by ziruiw Fri, 2021-04-30 12:01 |
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Help with enzyme design files by Wenithor » Thu, 2021-04-29 10:33 |
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756 |
by rmoretti Thu, 2021-04-29 10:44 |
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hpatch commands and how to identify patches by Bianca Oliva » Thu, 2021-04-29 04:02 |
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691 |
by Bianca Oliva Thu, 2021-04-29 04:02 |
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ligand_docking tutorial help: do crystal_complex.pdb files need to be prepped before using with <InterfaceScoreCalculator> by DGR95 » Fri, 2021-04-16 19:26 |
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1,649 |
by DGR95 Wed, 2021-04-28 16:13 |
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RosettaCM/hybridize by kywei » Wed, 2021-04-28 09:56 |
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766 |
by vmulligan Wed, 2021-04-28 12:59 |
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Generalized KIC loop closure affects downstream residues without perturbations by chenna » Mon, 2021-04-26 02:16 |
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1,030 |
by chenna Wed, 2021-04-28 07:18 |
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Filling the missing loops by code_Monkey » Tue, 2021-04-27 07:44 |
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1,147 |
by code_Monkey Tue, 2021-04-27 12:11 |
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Element 'trRosettaProtocol': This element is not expected. by csaylan » Tue, 2021-04-20 14:21 |
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1,070 |
by csaylan Tue, 2021-04-20 16:13 |
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Docking Analysis and Metrics in RosettaLigand. by sam_dc » Tue, 2021-04-20 03:54 |
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1,301 |
by rmoretti Tue, 2021-04-20 13:27 |
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multi ligand docking using rosetta script by syntekabio2019 » Tue, 2021-04-13 19:31 |
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595 |
by syntekabio2019 Tue, 2021-04-13 19:31 |
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r_frag_quality by ii_cnr » Mon, 2021-04-12 03:06 |
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1,012 |
by ii_cnr Mon, 2021-04-12 23:44 |
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GeneralizedKIC loop closure error by chenna » Sat, 2021-04-10 00:21 |
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1,070 |
by chenna Mon, 2021-04-12 22:08 |
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What is an SS0 predictor? by ojmel » Fri, 2021-04-02 14:25 |
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540 |
by ojmel Mon, 2021-04-12 07:50 |
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RosettaLigand ERROR: Error in core::conformation::check_good_cutpoint_neighbour() by sam_dc » Thu, 2021-03-25 09:32 |
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1,869 |
by sam_dc Mon, 2021-04-12 07:24 |
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issues about cstfile in RosettaMatch by Nicole Deng » Fri, 2020-12-18 05:44 |
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1,995 |
by He Xiao Sun, 2021-04-11 19:29 |
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Patch to impose tetrahedral geometry on backbone O atom by georg » Thu, 2021-04-08 09:30 |
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551 |
by georg Thu, 2021-04-08 09:31 |
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Loop modeling with constraints by agctomer » Sat, 2021-03-20 03:53 |
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1,408 |
by agctomer Thu, 2021-04-08 07:37 |
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PDB Clustering by code_Monkey » Mon, 2021-04-05 10:40 |
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568 |
by code_Monkey Mon, 2021-04-05 10:40 |
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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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811 |
by everyday847 Sun, 2021-04-04 12:48 |
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Can rosetta generate a centroid model based on the rna sequence? by yels » Fri, 2021-03-26 04:06 |
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2,229 |
by yels Wed, 2021-03-31 18:31 |
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Protein Ensemble RosettaLigand Docking by sam_dc » Fri, 2021-03-26 10:18 |
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1,139 |
by sam_dc Fri, 2021-03-26 12:04 |
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Should I be stripping water molecules from my input structure for Rosetta Design? by chrisHKL » Wed, 2021-03-24 14:22 |
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818 |
by smlewis Wed, 2021-03-24 14:59 |
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Can't generate a cst file to use with ddg_monomer application by ctqwong » Sat, 2021-03-13 03:53 |
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2,172 |
by ctqwong Thu, 2021-03-18 02:04 |
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Ab Initio folding with HEM ligand molecule by jseco » Fri, 2021-03-05 06:49 |
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572 |
by jseco Mon, 2021-03-08 03:40 |
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Comparative Modeling Tutorial by code_Monkey » Thu, 2021-03-04 12:35 |
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780 |
by rmoretti Fri, 2021-03-05 09:35 |
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Error from clean_pdb.py by code_Monkey » Mon, 2021-03-01 17:00 |
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1,042 |
by code_Monkey Thu, 2021-03-04 12:14 |
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BuildPeptide - Using Phosphorylated and Sulfated Tyrosine by jlawrie » Thu, 2020-09-03 14:29 |
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1,095 |
by cryosky Mon, 2021-03-01 21:37 |
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How to write down a connection between ligand's atom and metal ion from enzyme? by Corvin » Mon, 2021-02-15 06:54 |
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2,541 |
by aloshbau Mon, 2021-03-01 20:06 |
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antibody H3 modelling protocol for nanobody gives "[ ERROR ] Inaccurate G!" messages by AlfredoKCL » Sun, 2021-02-28 16:42 |
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1,033 |
by AlfredoKCL Mon, 2021-03-01 04:07 |
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CoupledMoves not altering backbone coordinates? by amorin » Wed, 2021-01-20 11:38 |
15 |
4,872 |
by amorin Sat, 2021-02-27 20:29 |
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Number of max allowed mutations from WT sequence by mouung » Fri, 2020-09-04 02:33 |
2 |
1,409 |
by amorin Fri, 2021-02-12 08:53 |
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Segfault with Pepspec by almeida85 » Thu, 2021-02-11 02:56 |
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509 |
by almeida85 Thu, 2021-02-11 02:56 |
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core.optimization.LineMinimizer: [ ERROR ] Inaccurate G! by aralz » Thu, 2021-02-11 00:46 |
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728 |
by aralz Thu, 2021-02-11 00:46 |
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hbond_sr_bb and hbond_lr_bb for different chains by tylerborrman » Tue, 2020-10-13 13:41 |
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1,351 |
by tylerborrman Tue, 2021-02-09 16:33 |
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Rosetta antibody- modeling in the presense of an antigen by agctomer » Mon, 2021-02-01 03:19 |
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1,582 |
by nannemdp Wed, 2021-02-03 08:52 |
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antibody.linuxgccrelease- output models don't have the same sequence as the input fasta by agctomer » Thu, 2021-01-21 15:35 |
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1,652 |
by agctomer Sun, 2021-01-31 01:06 |
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Modelling humanized camelid like antibody by terabithia2011 » Tue, 2021-01-26 10:12 |
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632 |
by terabithia2011 Tue, 2021-01-26 10:12 |
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Creating fragment files for proteins less than 27 aa in length by Poladu » Tue, 2021-01-26 07:50 |
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613 |
by Poladu Tue, 2021-01-26 07:50 |
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Question with rosetta AbPredict tutorial by terabithia2011 » Mon, 2021-01-25 09:24 |
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596 |
by terabithia2011 Mon, 2021-01-25 09:24 |
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[Solved] Resetting a pose with RigidBodyTransMover by bjharris » Wed, 2021-01-13 14:01 |
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820 |
by bjharris Fri, 2021-01-22 17:34 |
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manually defining CDRs in antibody modelling by gard.nelson » Fri, 2020-07-10 13:31 |
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1,015 |
by brspurri Wed, 2021-01-20 08:11 |
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RosettaAntibody - No matching templates for CDR1 by agctomer » Tue, 2021-01-19 22:45 |
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689 |
by agctomer Tue, 2021-01-19 22:45 |
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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 |
1 |
1,002 |
by brspurri Mon, 2021-01-18 18:14 |
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A problem with "molfile_to_params.py" by Rosettasz » Mon, 2013-08-19 19:35 |
10 |
9,966 |
by egecav Mon, 2021-01-18 05:41 |
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relax.linuxgccrelease in multiple processors by jpfuenzalidawx » Thu, 2021-01-14 14:07 |
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2,119 |
by jadolfbr Fri, 2021-01-15 08:06 |
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Writing down properties for new atom types by Corvin » Tue, 2021-01-12 04:30 |
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537 |
by Corvin Wed, 2021-01-13 04:00 |
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constraints in Rosetta ligand docking (AddorRemoveMatchCsts, Addconstraints Mover, and ConstraintSetMover) by rohi » Mon, 2021-01-11 13:32 |
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795 |
by rohi Mon, 2021-01-11 13:58 |
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Design of multimeric protein by ldlamini » Mon, 2021-01-11 07:23 |
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650 |
by ldlamini Mon, 2021-01-11 07:23 |
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Protonating all possible sites: the problem in MOL2 file format or the innate Rosetta feature(bug)? by Corvin » Wed, 2020-12-16 04:58 |
0 |
760 |
by Corvin Wed, 2020-12-30 09:21 |
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